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 234 of 356
Found at i:76917057 original size:42 final size:42
Alignment explanation
Indices: 76916998--76917082 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
76916988 ACTCAAGGGG
76916998 TATAGGATTTGTTGCTTCTTCAATCAATTAATCTGGGTAACA
1 TATAGGATTTGTTGCTTCTTCAATCAATTAATCTGGGTAACA
*
76917040 TATAGGATTTGTTGCTTCTTCAATCAATTGATCTGGGTAACA
1 TATAGGATTTGTTGCTTCTTCAATCAATTAATCTGGGTAACA
76917082 T
1 T
76917083 GACTAGATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (42 bp):
TATAGGATTTGTTGCTTCTTCAATCAATTAATCTGGGTAACA
Found at i:76917548 original size:26 final size:27
Alignment explanation
Indices: 76917519--76917610 Score: 77
Period size: 26 Copynumber: 3.5 Consensus size: 27
76917509 AAATTAACTC
76917519 AAAATG-AATAAGTTAATCAAAGATAG
1 AAAATGTAATAAGTTAATCAAAGATAG
** * *
76917545 AAAATGTAATAAG--AAGGAAATTAACTTG
1 AAAATGTAATAAGTTAATCAAA--GA-TAG
76917573 -AAATG-AATAAGTTAATCAAAGATAG
1 AAAATGTAATAAGTTAATCAAAGATAG
*
76917598 CAAATGTAATAAG
1 AAAATGTAATAAG
76917611 AAGGAAATTG
Statistics
Matches: 50, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
25 7 0.14
26 18 0.36
27 18 0.36
28 7 0.14
ACGTcount: A:0.55, C:0.04, G:0.16, T:0.24
Consensus pattern (27 bp):
AAAATGTAATAAGTTAATCAAAGATAG
Found at i:76917550 original size:53 final size:53
Alignment explanation
Indices: 76917467--76917619 Score: 252
Period size: 53 Copynumber: 2.9 Consensus size: 53
76917457 GCATAGCTCG
* * *
76917467 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGAAAATTAACTCA
1 AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAACTCA
* **
76917520 AAATGAATAAGTTAATCAAAGATAGAAAATGTAATAAGAAGGAAATTAACTTG
1 AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAACTCA
76917573 AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATT
1 AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATT
76917620 GATTGGGACT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 93 1.00
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.23
Consensus pattern (53 bp):
AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAACTCA
Found at i:76923858 original size:17 final size:17
Alignment explanation
Indices: 76923838--76923871 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
76923828 TAATATATAA
*
76923838 AACAACTTAAAGTAAAT
1 AACAACTTAAAATAAAT
*
76923855 AACAATTTAAAATAAAT
1 AACAACTTAAAATAAAT
76923872 CTTTAAAAAA
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:0.62, C:0.09, G:0.03, T:0.26
Consensus pattern (17 bp):
AACAACTTAAAATAAAT
Found at i:76924015 original size:28 final size:25
Alignment explanation
Indices: 76923884--76924060 Score: 150
Period size: 26 Copynumber: 7.0 Consensus size: 25
76923874 TTAAAAAACG
*
76923884 ATTTAAAATGAATAATAATAATAAAA
1 ATTTAAAATAAATAATAAT-ATAAAA
* *
76923910 GTTTCAAATAAATAAT-ATATGAAAA
1 ATTTAAAATAAATAATAATAT-AAAA
* * *
76923935 ACTTAAAA-AAATCATAATGA-AACA
1 ATTTAAAATAAATAATAAT-ATAAAA
* * *
76923959 GTTTAATATAAATAAT-GTATAAAA
1 ATTTAAAATAAATAATAATATAAAA
*
76923983 ATTTAAAATAGATAATACATATAAAA
1 ATTTAAAATAAATAATA-ATATAAAA
76924009 TAGTTTAAAATAAATAATAA-ATAAAA
1 -A-TTTAAAATAAATAATAATATAAAA
76924035 GATATTAAAATAAATAAT-ATATAAAA
1 -AT-TTAAAATAAATAATAATATAAAA
76924061 CGAAGCTAAA
Statistics
Matches: 120, Mismatches: 20, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.01
24 33 0.28
25 21 0.17
26 48 0.40
27 2 0.02
28 15 0.12
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (25 bp):
ATTTAAAATAAATAATAATATAAAA
Found at i:76930105 original size:18 final size:18
Alignment explanation
Indices: 76930059--76930106 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
76930049 CCACATCAAC
76930059 AAATGAATTTAAACTTAAA
1 AAAT-AATTTAAACTTAAA
*
76930078 AAATAA-TTAAAGTTTAAA
1 AAATAATTTAAA-CTTAAA
76930096 AAA-AATTTAAA
1 AAATAATTTAAA
76930107 ACCCCAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.27
18 15 0.58
19 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
AAATAATTTAAACTTAAA
Found at i:76932194 original size:70 final size:69
Alignment explanation
Indices: 76932091--76932246 Score: 231
Period size: 70 Copynumber: 2.2 Consensus size: 69
76932081 TATACATCTT
* *
76932091 TCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGTAGTAA
1 TCAACCAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGTAA
76932156 AATG
66 AATG
* * *
76932160 TCAACCAATCATTTCAAGAAAACATACAAAATATGTTATGCTAACAAACTGATCCTATAGCAGTA
1 TCAACCAATCATTTCAA-AAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGTA
*
76932225 AGATG
65 AAATG
* *
76932230 TTAACCAACCATTTCAA
1 TCAACCAATCATTTCAA
76932247 CAAATCATTT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
69 16 0.21
70 62 0.79
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.26
Consensus pattern (69 bp):
TCAACCAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGTAA
AATG
Found at i:76932684 original size:160 final size:160
Alignment explanation
Indices: 76932412--76932720 Score: 354
Period size: 160 Copynumber: 1.9 Consensus size: 160
76932402 TCAGAGCCCC
* *** ** ** *
76932412 AAATTAGATTTAAATAATTTGGAATTGACATTAAAAAAGTGTTTACGATATACCTGTGATCTAGT
1 AAATTAGATTAAAATAATTTGGAATTGACATTAAAAAAACCTAGACGATATACCTGCAATCCAGT
* * * * * *
76932477 TGTGTTAGGCTGAATGCATGGTGTTCTGTTATTCTTTTTTTGGCTTCTAGTT-TGTGTACTCGTA
66 TGTATTAGACTGAATACATGGTGTTCTGTTATTATTTTTTGGGCTTCTAGTTCT-TGTACTCATA
* **
76932541 CCTGAATAAGATTAAAAAAAATTAGAACACA
130 CCAGAATAAGACCAAAAAAAATTAGAACACA
* * *
76932572 AAATTAGATTAAAATATTTTTGAATTGACATTAAAAATAACCTAGACGGTATACCTGCAATCCAG
1 AAATTAGATTAAAATAATTTGGAATTGACATTAAAAA-AACCTAGACGATATACCTGCAATCCAG
* *
76932637 TTGTATTAGACTGAATAC-TTGTGTTAC-GTTGTTATTTTTTGGGCTTCTAGTTCTTGTACTCAT
65 TTGTATTAGACTGAATACATGGTGTT-CTGTTATTATTTTTTGGGCTTCTAGTTCTTGTACTCAT
*
76932700 ACCAGACTAAGACCAAAAAAA
129 ACCAGAATAAGACCAAAAAAA
76932721 TATTTATGAT
Statistics
Matches: 122, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
160 87 0.71
161 35 0.29
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (160 bp):
AAATTAGATTAAAATAATTTGGAATTGACATTAAAAAAACCTAGACGATATACCTGCAATCCAGT
TGTATTAGACTGAATACATGGTGTTCTGTTATTATTTTTTGGGCTTCTAGTTCTTGTACTCATAC
CAGAATAAGACCAAAAAAAATTAGAACACA
Found at i:76935202 original size:39 final size:39
Alignment explanation
Indices: 76935127--76935242 Score: 144
Period size: 39 Copynumber: 2.9 Consensus size: 39
76935117 TGACCTTCAA
* * *
76935127 CACCCTCATCACCTTTATTGCCAAGCAACCTCACCACCCT
1 CACCCTCACCACTTTTACTGCCAA-CAACCTCACCACCCT
**
76935167 TTCCCTCACCACTTTTACTGCCAACAACCTCACCACCCT
1 CACCCTCACCACTTTTACTGCCAACAACCTCACCACCCT
* *
76935206 CACCCTCGCCA-TATTTACTGCCAATAACCTCACCACC
1 CACCCTCACCACT-TTTACTGCCAACAACCTCACCACC
76935243 ATCGCCATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
38 1 0.02
39 46 0.70
40 19 0.29
ACGTcount: A:0.25, C:0.47, G:0.04, T:0.23
Consensus pattern (39 bp):
CACCCTCACCACTTTTACTGCCAACAACCTCACCACCCT
Found at i:76935206 original size:33 final size:34
Alignment explanation
Indices: 76935172--76935283 Score: 129
Period size: 33 Copynumber: 3.2 Consensus size: 34
76935162 ACCCTTTCCC
* *
76935172 TCACCACT-TTTACTGCCAACAACCTCACCACCC
1 TCACCACTATTTACTGCCAATAACCTCACCACCA
*
76935205 TCACCCTCGCCATATTTACTGCCAATAACCTCACCACCA
1 TCA--C-C-AC-TATTTACTGCCAATAACCTCACCACCA
*
76935244 TCGCCA-TATTTACTGCCAATAACCTCACCACCA
1 TCACCACTATTTACTGCCAATAACCTCACCACCA
76935277 TCACCAC
1 TCACCAC
76935284 CTTCATTACC
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
33 35 0.53
35 1 0.02
36 2 0.03
37 2 0.03
38 1 0.02
39 25 0.38
ACGTcount: A:0.29, C:0.45, G:0.04, T:0.22
Consensus pattern (34 bp):
TCACCACTATTTACTGCCAATAACCTCACCACCA
Found at i:76935893 original size:48 final size:47
Alignment explanation
Indices: 76935792--76935893 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 47
76935782 TTGTGCAGTG
* * * * * *
76935792 AAAAATCTAAAATTATTGCCCCCACTAAGAGTTATTACTAAGTACAT
1 AAAAATCTAAAATTATTGCCCCCACCAAGAGTTATCACAAAATAAAC
76935839 AGAAAATCTAAAATTATTGCCCCCACCAA-AGTTATCAGCAACAATAAAC
1 A-AAAATCTAAAATTATTGCCCCCACCAAGAGTTATCA-CAA-AATAAAC
76935888 AAAAAT
1 AAAAAT
76935894 AGTAACCAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
47 8 0.17
48 33 0.72
49 5 0.11
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.25
Consensus pattern (47 bp):
AAAAATCTAAAATTATTGCCCCCACCAAGAGTTATCACAAAATAAAC
Found at i:76937511 original size:43 final size:43
Alignment explanation
Indices: 76937441--76937538 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 43
76937431 CAATAAGGGG
* *
76937441 CACACGGCCGAGGCACACGCCCGTGGCCATAGGCCGTATCCTC
1 CACAGGGCTGAGGCACACGCCCGTGGCCATAGGCCGTATCCTC
* * *
76937484 TACATGGCTGAGGCACACGCCCGTGGCCATAGGCCGTGTCCTC
1 CACAGGGCTGAGGCACACGCCCGTGGCCATAGGCCGTATCCTC
76937527 CACAGGGCTGAG
1 CACAGGGCTGAG
76937539 ATATACGGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (43 bp):
CACAGGGCTGAGGCACACGCCCGTGGCCATAGGCCGTATCCTC
Found at i:76953650 original size:43 final size:43
Alignment explanation
Indices: 76953602--76953692 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
76953592 TGTAGTATGG
* *
76953602 GCGTGTCCTAGAGTCACACGGGCATGTCCCTTAGACCATACGA
1 GCGTGTCCTAGAGCCACACGGGCATGTCCCTTAGACCACACGA
* * * * * *
76953645 GCGTGTGCTAGGGCCACACGGGCGTGTCCTTTAGGCCACACGG
1 GCGTGTCCTAGAGCCACACGGGCATGTCCCTTAGACCACACGA
76953688 GCGTG
1 GCGTG
76953693 CGAGCCTTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.18, C:0.30, G:0.33, T:0.20
Consensus pattern (43 bp):
GCGTGTCCTAGAGCCACACGGGCATGTCCCTTAGACCACACGA
Found at i:76953671 original size:21 final size:21
Alignment explanation
Indices: 76953600--76953692 Score: 82
Period size: 22 Copynumber: 4.3 Consensus size: 21
76953590 CCTGTAGTAT
*
76953600 GGGCGTGTCC-TAGAGTCACAC
1 GGGCGTGTCCTTAG-GCCACAC
* * *
76953621 GGGCATGTCCCTTAGACCATAC
1 GGGCGTGT-CCTTAGGCCACAC
* *
76953643 GAGCGTGTGC-TAGGGCCACAC
1 GGGCGTGTCCTTA-GGCCACAC
76953664 GGGCGTGTCCTTTAGGCCACAC
1 GGGCGTGTCC-TTAGGCCACAC
76953686 GGGCGTG
1 GGGCGTG
76953693 CGAGCCTTGT
Statistics
Matches: 56, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.04
21 22 0.39
22 27 0.48
23 5 0.09
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.19
Consensus pattern (21 bp):
GGGCGTGTCCTTAGGCCACAC
Found at i:76955514 original size:19 final size:19
Alignment explanation
Indices: 76955501--76955538 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
76955491 CCGTGTTCCT
76955501 TTGACACGCTCGTGTCCCC
1 TTGACACGCTCGTGTCCCC
*
76955520 TTGACACGCTCATGTCCCC
1 TTGACACGCTCGTGTCCCC
76955539 AGGCCGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.42, G:0.18, T:0.26
Consensus pattern (19 bp):
TTGACACGCTCGTGTCCCC
Found at i:76957036 original size:48 final size:48
Alignment explanation
Indices: 76956972--76957093 Score: 160
Period size: 48 Copynumber: 2.6 Consensus size: 48
76956962 TCATATCAGC
* *
76956972 GCCATAT-CTAGATATGGTCTTACA-T-GAAATCACATACCGATGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTAG-AA-CACATACCGAGGCCGAT
* *
76957019 GCCATATCCCAGATATGGTCTTACACTAGCACACATATCGAGGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTAGAACACATACCGAGGCCGAT
*
76957067 GCCATGTCCCAGATATGGTCTTACACT
1 GCCATATCCCAGATATGGTCTTACACT
76957094 GGCTATCATA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
47 7 0.10
48 57 0.85
49 2 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACTAGAACACATACCGAGGCCGAT
Found at i:76957104 original size:48 final size:48
Alignment explanation
Indices: 76957004--76957150 Score: 179
Period size: 48 Copynumber: 3.1 Consensus size: 48
76956994 CATGAAATCA
* * * * *
76957004 CATACCGATGCCGATGCCATATCCCAGATATGGTCTTACACTAGC-ACA
1 CATATCGACGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTA-T
*
76957052 CATATCGAGGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTAT
1 CATATCGACGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTAT
* * * * *
76957100 CATATCAACACCGGTGCCATGTCCCAAACATGGTCTTACACTGGCTAT
1 CATATCGACGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTAT
76957148 CAT
1 CAT
76957151 TAACCATGGT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
48 86 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
CATATCGACGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTAT
Found at i:76963866 original size:30 final size:30
Alignment explanation
Indices: 76963830--76963888 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
76963820 TCATCCATTT
76963830 CAAAATATTTACTATCCATCACCTATGTTC
1 CAAAATATTTACTATCCATCACCTATGTTC
76963860 CAAAATATTTACTATCCATCACCTATGTT
1 CAAAATATTTACTATCCATCACCTATGTT
76963889 ATTCATTCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
CAAAATATTTACTATCCATCACCTATGTTC
Found at i:76968238 original size:41 final size:41
Alignment explanation
Indices: 76968162--76968275 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 41
76968152 TGATATTCTG
* *
76968162 ATCTGTATTCTGTATCTGA-TTAGGCTGAGGCCCTAATATAT
1 ATCTG-ATTCTGTATCTGAGTTGGGCTAAGGCCCTAATATAT
*
76968203 -TCTTGACTT-TGTATCTGAGTTGGGCTAAGGCCCTAATTTAT
1 ATC-TGA-TTCTGTATCTGAGTTGGGCTAAGGCCCTAATATAT
*
76968244 ATCTGATTCTGTATTTGAG-TGGGCTAAGGCCC
1 ATCTGATTCTGTATCTGAGTTGGGCTAAGGCCC
76968276 ACACTAATTC
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
40 27 0.42
41 35 0.55
42 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.39
Consensus pattern (41 bp):
ATCTGATTCTGTATCTGAGTTGGGCTAAGGCCCTAATATAT
Found at i:76981403 original size:24 final size:24
Alignment explanation
Indices: 76981353--76981406 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
76981343 AATCGAATTT
*
76981353 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
76981377 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
76981401 GCACAC
1 GCACAC
76981407 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:76983009 original size:41 final size:40
Alignment explanation
Indices: 76982962--76983041 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 40
76982952 TAGGCTGAGG
76982962 CCCTAATATAT-TCCTGACTCTGTATCTGAGGCGGGCTAAGA
1 CCCTAATATATAT-CTGACTCTGTATCTGA-GCGGGCTAAGA
* * *
76983003 CCCTAATTTATATCTGATTCTGTATCTGAGTGGGCTAAG
1 CCCTAATATATATCTGACTCTGTATCTGAGCGGGCTAAG
76983042 GCCCACACTG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
40 9 0.26
41 25 0.71
42 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (40 bp):
CCCTAATATATATCTGACTCTGTATCTGAGCGGGCTAAGA
Found at i:76987707 original size:13 final size:13
Alignment explanation
Indices: 76987689--76987719 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
76987679 GATACATAGG
76987689 CGTGTGTCTAGAC
1 CGTGTGTCTAGAC
76987702 CGTGTGTCTAGAC
1 CGTGTGTCTAGAC
76987715 CGTGT
1 CGTGT
76987720 TTGACATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.32
Consensus pattern (13 bp):
CGTGTGTCTAGAC
Found at i:76990731 original size:40 final size:40
Alignment explanation
Indices: 76990687--76990872 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
76990677 GCTACTTGTT
*
76990687 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
76990727 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
76990767 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
76990807 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
76990848 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
76990873 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:76990791 original size:80 final size:81
Alignment explanation
Indices: 76990654--76990872 Score: 256
Period size: 80 Copynumber: 2.8 Consensus size: 81
76990644 AAATCATGTA
** *
76990654 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTT-GTTCAAATGCCTTCGGGACATAGCCCGG-TT
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGATT
76990714 ATAGTAACTCGCACAAATG
64 -TAGTAACTCGCACAAATG
* * *
76990733 CCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGATTT
76990796 AGTAACTCGCACAAATG
65 AGTAACTCGCACAAATG
** * *
76990813 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGA
76990873 CATCATTCAA
Statistics
Matches: 120, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
79 15 0.12
80 95 0.79
81 10 0.08
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
GTAACTCGCACAAATG
Found at i:76993177 original size:40 final size:40
Alignment explanation
Indices: 76993077--76993248 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
76993067 GCTCCTCGTT
* * *
76993077 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
76993117 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
76993156 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
76993196 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
76993236 CAAATGCCTTCGG
1 CAAATGCCTTCGG
76993249 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:77000588 original size:40 final size:40
Alignment explanation
Indices: 77000488--77000659 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
77000478 GCTCCTCGTT
* * *
77000488 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
77000528 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
77000567 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
77000607 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
77000647 CAAATGCCTTCGG
1 CAAATGCCTTCGG
77000660 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:77009496 original size:28 final size:28
Alignment explanation
Indices: 77009425--77009506 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
77009415 TTTGAATCAT
**
77009425 TCAATATTTCGCACACTAAGTTTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
77009453 TTAATATCTCGCACACTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
** * *
77009481 TCGCTATTTCGTACACTGAGTGCCAT
1 TCAATATTTCGCACACTAAGTGCCAT
77009507 ATTTGATTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:77018682 original size:17 final size:18
Alignment explanation
Indices: 77018654--77018687 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
77018644 CTGGTTAGTG
77018654 TTTAACTTGTTTTAATTT
1 TTTAACTTGTTTTAATTT
77018672 TTTAA-TTGTTTTAATT
1 TTTAACTTGTTTTAATT
77018688 GTGGGTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (18 bp):
TTTAACTTGTTTTAATTT
Found at i:77018683 original size:9 final size:9
Alignment explanation
Indices: 77018654--77018689 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
77018644 CTGGTTAGTG
77018654 TTTAACTTGT
1 TTTAA-TTGT
77018664 TTTAATT-T
1 TTTAATTGT
77018672 TTTAATTGT
1 TTTAATTGT
77018681 TTTAATTGT
1 TTTAATTGT
77018690 GGGTAAATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.32
9 12 0.48
10 5 0.20
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.67
Consensus pattern (9 bp):
TTTAATTGT
Found at i:77019141 original size:149 final size:148
Alignment explanation
Indices: 77018867--77019149 Score: 512
Period size: 149 Copynumber: 1.9 Consensus size: 148
77018857 GCCATGTCAG
* *
77018867 GAAGTCCTTTAAAAAATGACCAATTTGACCTAAAAAACAAAGTTATGTATGAAAGTGCTCCAAAA
1 GAAGACCTTTAAAAAATGACCAATTTGACCCAAAAAACAAAGTTATGTATGAAAGTGCTCCAAAA
*
77018932 AAAACCTTAAGGGCCAAAGTGACCAAACACCCAAATGTTAGGGGCTAATTTTGTCATTATGCCAT
66 AAAACCTTAAGGGCCAAAGTGACCAAACACCCAAACGTTAGGGGCTAATTTTGTCATTATGCCAT
77018997 TCAACAAGTGTTCTATAA
131 TCAACAAGTGTTCTATAA
*
77019015 GAAGACCTTTAAAAAATGACCAATTTGACCCAAAGAACAAAGTTATGTATGAAAGTGCTCCAAAA
1 GAAGACCTTTAAAAAATGACCAATTTGACCCAAAAAACAAAGTTATGTATGAAAGTGCTCC-AAA
*
77019080 AAAAACCTTAAGGGCCAAAGTGACCCAACACCCAAACGTTAGGGGCTAATTTTGTCATTATGCCA
65 AAAAACCTTAAGGGCCAAAGTGACCAAACACCCAAACGTTAGGGGCTAATTTTGTCATTATGCCA
77019145 TTCAA
130 TTCAA
77019150 TAAACGTTCT
Statistics
Matches: 129, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
148 58 0.45
149 71 0.55
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (148 bp):
GAAGACCTTTAAAAAATGACCAATTTGACCCAAAAAACAAAGTTATGTATGAAAGTGCTCCAAAA
AAAACCTTAAGGGCCAAAGTGACCAAACACCCAAACGTTAGGGGCTAATTTTGTCATTATGCCAT
TCAACAAGTGTTCTATAA
Found at i:77024797 original size:26 final size:26
Alignment explanation
Indices: 77024752--77024825 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
77024742 TATTTTCTAG
* *
77024752 AAATTTTACC-AGGGACAAAATCTTCA
1 AAATTTTACCAAGGG-TAAAATCATCA
77024778 AAATTTTACCAAGGGTAAAATCATCA
1 AAATTTTACCAAGGGTAAAATCATCA
* *
77024804 ACAAATTTACTAAGGGTAAAAT
1 A-AATTTTACCAAGGGTAAAAT
77024826 AAGGATGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (26 bp):
AAATTTTACCAAGGGTAAAATCATCA
Found at i:77029704 original size:47 final size:48
Alignment explanation
Indices: 77029614--77029739 Score: 125
Period size: 47 Copynumber: 2.7 Consensus size: 48
77029604 GGGTAAGGTG
* * * **
77029614 CCGATGCCATGTCCCAGACACGGTCTTTCATTGGCTCATATCTC-AAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATATCTCGAAA
** * *
77029661 TTGATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACTCAT-ATCTCGAAA
*
77029709 CCAATG-CATGTCCCAGACAT-GTCTTACACTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTA
77029740 TGTCACACAA
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
46 13 0.20
47 48 0.74
48 4 0.06
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATATCTCGAAA
Found at i:77038560 original size:20 final size:20
Alignment explanation
Indices: 77038535--77038572 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
77038525 CTGGCCCACA
**
77038535 AGGCCTATTTCGGCCCAACG
1 AGGCCTATAACGGCCCAACG
77038555 AGGCCTATAACGGCCCAA
1 AGGCCTATAACGGCCCAA
77038573 GCCCTGAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.24, T:0.16
Consensus pattern (20 bp):
AGGCCTATAACGGCCCAACG
Found at i:77044371 original size:16 final size:16
Alignment explanation
Indices: 77044350--77044382 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
77044340 TATAAATTAG
77044350 CTTAGTTTAATCTAAC
1 CTTAGTTTAATCTAAC
77044366 CTTAGTTTAATCTAAC
1 CTTAGTTTAATCTAAC
77044382 C
1 C
77044383 ATACCATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.42
Consensus pattern (16 bp):
CTTAGTTTAATCTAAC
Found at i:77055970 original size:29 final size:29
Alignment explanation
Indices: 77055907--77055974 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
77055897 TAATCAACCG
77055907 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
77055936 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
77055965 CGCACACTTA
1 CGCACACTTA
77055975 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:77056086 original size:174 final size:174
Alignment explanation
Indices: 77055796--77056123 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
77055786 AACTCAAGGT
* * *
77055796 ACTTACCTTTTCTGCTGTCCAAAATTGACTCGGTAAAGTCGTACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
77055861 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
77055926 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
77055970 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
*
77056035 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
77056100 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
77056124 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:77056115 original size:29 final size:30
Alignment explanation
Indices: 77056076--77056154 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
77056066 CTTAATAATC
77056076 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
77056106 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
77056135 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
77056155 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:77064122 original size:29 final size:29
Alignment explanation
Indices: 77064059--77064126 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
77064049 TAATCAACCG
77064059 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
77064088 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
77064117 CGCACACTTA
1 CGCACACTTA
77064127 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:77064242 original size:174 final size:174
Alignment explanation
Indices: 77063948--77064275 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
77063938 AACTCAAGGT
*
77063948 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
77064013 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
77064078 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
77064122 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
* *
77064187 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGTACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
77064252 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
77064276 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:77064270 original size:29 final size:30
Alignment explanation
Indices: 77064236--77064306 Score: 103
Period size: 29 Copynumber: 2.4 Consensus size: 30
77064226 TCAACCGCGT
*
77064236 ACACTTAGTGCCATGTAC-TTTAAACTCGC
1 ACACTTAGTGCCATGTACATTTAAACCCGC
77064265 ACACTTAGTG-C-TGTACAATTTAAACCCGC
1 ACACTTAGTGCCATGTAC-ATTTAAACCCGC
77064294 ACACTTAGTGCCA
1 ACACTTAGTGCCA
77064307 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (30 bp):
ACACTTAGTGCCATGTACATTTAAACCCGC
Found at i:77070539 original size:17 final size:17
Alignment explanation
Indices: 77070517--77070553 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
77070507 TGACTGTGTA
77070517 TGTGTCCGATAATGCCT
1 TGTGTCCGATAATGCCT
77070534 TGTGTCCGATAATGCCT
1 TGTGTCCGATAATGCCT
77070551 TGT
1 TGT
77070554 ATCCTATCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (17 bp):
TGTGTCCGATAATGCCT
Found at i:77077773 original size:26 final size:26
Alignment explanation
Indices: 77077737--77077795 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
77077727 TATTTTCTCG
*
77077737 AAATTTTACTAGTGGCAAAATCT-TCA
1 AAATTTTACTAGGGGCAAAAT-TGTCA
*
77077763 AAATTTTACTAGGGGTAAAATTGTCA
1 AAATTTTACTAGGGGCAAAATTGTCA
77077789 AAATTTT
1 AAATTTT
77077796 GTTGGGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 1 0.03
26 29 0.97
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (26 bp):
AAATTTTACTAGGGGCAAAATTGTCA
Found at i:77078425 original size:43 final size:43
Alignment explanation
Indices: 77078364--77078450 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
77078354 AGCATAGAAG
77078364 ATTGTTTGGTTGAAAGCAGGGGACAACAAATGTCCGCTAAGCC
1 ATTGTTTGGTTGAAAGCAGGGGACAACAAATGTCCGCTAAGCC
77078407 ATTGTTTGGTTGAAAGCAGGGGACAACAAATGTCCGCTAAGCC
1 ATTGTTTGGTTGAAAGCAGGGGACAACAAATGTCCGCTAAGCC
77078450 A
1 A
77078451 AAAACATAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (43 bp):
ATTGTTTGGTTGAAAGCAGGGGACAACAAATGTCCGCTAAGCC
Found at i:77082568 original size:83 final size:84
Alignment explanation
Indices: 77082428--77082603 Score: 279
Period size: 83 Copynumber: 2.1 Consensus size: 84
77082418 AAGCTCCTAC
* *
77082428 GAAGACATCATCTTTGAGCCACTAAAGCACCAACTAAAGCTTCTTTAGAAAGCCAAGAAACATGC
1 GAAGACACCATCTTTGAGCCACTAAAGCACCAACTAAAGCTTCCTTAGAAAGCCAAGAAACATGC
77082493 CAA-AAAATATCAATGGAAA
66 CAAGAAAA-ATCAATGGAAA
*
77082512 GAAGACACCATCTTTGAGCCAC-CAAGCACCAACTAAAG-TTGCCTTAGAAAGCCAAGAAACATG
1 GAAGACACCATCTTTGAGCCACTAAAGCACCAACTAAAGCTT-CCTTAGAAAGCCAAGAAACATG
77082575 CCAAGAAAAATCAATGGAAA
65 CCAAGAAAAATCAATGGAAA
77082595 GAA-ACACCA
1 GAAGACACCA
77082604 AGAACACTGG
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
82 8 0.09
83 54 0.62
84 25 0.29
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.16
Consensus pattern (84 bp):
GAAGACACCATCTTTGAGCCACTAAAGCACCAACTAAAGCTTCCTTAGAAAGCCAAGAAACATGC
CAAGAAAAATCAATGGAAA
Found at i:77084479 original size:51 final size:51
Alignment explanation
Indices: 77084410--77084511 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
77084400 AATAAATATT
77084410 TTATTCACCCTCAGTATGGGCATGATGGTGGTGGTGAGATGCAGTATTTTC
1 TTATTCACCCTCAGTATGGGCATGATGGTGGTGGTGAGATGCAGTATTTTC
*
77084461 TTATTCACCCTCAGTATGGGCATTATGGTGGTGGTGAGATGCAGTATTTTC
1 TTATTCACCCTCAGTATGGGCATGATGGTGGTGGTGAGATGCAGTATTTTC
77084512 CCAGATATGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (51 bp):
TTATTCACCCTCAGTATGGGCATGATGGTGGTGGTGAGATGCAGTATTTTC
Found at i:77086662 original size:3 final size:3
Alignment explanation
Indices: 77086654--77086682 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
77086644 ATCACATGTT
77086654 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
77086683 TGGATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:77086800 original size:72 final size:72
Alignment explanation
Indices: 77086683--77086866 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
77086673 TATTATTATT
77086683 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
77086748 TTTTAAG
66 TTTTAAG
77086755 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
77086820 TTTTAAG
66 TTTTAAG
*
77086827 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
77086867 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:77091093 original size:3 final size:3
Alignment explanation
Indices: 77091085--77091122 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
77091075 ATCACATGTT
77091085 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
77091123 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:77091240 original size:72 final size:72
Alignment explanation
Indices: 77091123--77091306 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
77091113 TATTATTATT
77091123 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
77091188 TTTTAAG
66 TTTTAAG
77091195 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
77091260 TTTTAAG
66 TTTTAAG
*
77091267 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
77091307 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:77097472 original size:34 final size:34
Alignment explanation
Indices: 77097429--77097497 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
77097419 CTTAGAGTAG
* * *
77097429 TTCTTTAGATTCTGCGAGAGAAATAGCTTTACGC
1 TTCTTTAGATTCTGCGAAAGAAACAACTTTACGC
*
77097463 TTCTTTAGATTCTGTGAAAGAAACAACTTTACGC
1 TTCTTTAGATTCTGCGAAAGAAACAACTTTACGC
77097497 T
1 T
77097498 AAGTTGAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (34 bp):
TTCTTTAGATTCTGCGAAAGAAACAACTTTACGC
Found at i:77100008 original size:39 final size:39
Alignment explanation
Indices: 77099954--77100034 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
77099944 AAGTGGTAAG
*
77099954 GTGTTAGCTTACCTTAGGGTCTTGTGTTTGAACTTCCAT
1 GTGTTAGCTTACCTTAGGGTCTTGTATTTGAACTTCCAT
77099993 GTGTTAGCTTACCTTAGGGTCTTGTATTTGAACTTCCAT
1 GTGTTAGCTTACCTTAGGGTCTTGTATTTGAACTTCCAT
77100032 GTG
1 GTG
77100035 AGTGAAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.16, C:0.17, G:0.23, T:0.43
Consensus pattern (39 bp):
GTGTTAGCTTACCTTAGGGTCTTGTATTTGAACTTCCAT
Found at i:77107295 original size:13 final size:14
Alignment explanation
Indices: 77107270--77107304 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
77107260 AAAAAAATAT
77107270 TTTTTTAAGTTACA
1 TTTTTTAAGTTACA
77107284 TTTTTTAA-TTACA
1 TTTTTTAAGTTACA
77107297 TTTTTTAA
1 TTTTTTAA
77107305 ATGATAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTTTAAGTTACA
Found at i:77107575 original size:30 final size:29
Alignment explanation
Indices: 77107541--77107630 Score: 78
Period size: 30 Copynumber: 3.0 Consensus size: 29
77107531 TAAATATAAA
*
77107541 AATTTTAATATTTATAAAAATTATCATTTT
1 AATTTTAATATTTA-AAAAATTATCAATTT
*
77107571 AA-TTTAA-ATTCTAAAAAATTTAAT-AAATT
1 AATTTTAATATT-TAAAAAA-TT-ATCAATTT
* *
77107600 ATTTTTAATATTTACAAAATTTATCAATTT
1 AATTTTAATATTTA-AAAAATTATCAATTT
77107630 A
1 A
77107631 GCTCGAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
28 8 0.17
29 15 0.31
30 18 0.38
31 7 0.15
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (29 bp):
AATTTTAATATTTAAAAAATTATCAATTT
Found at i:77111830 original size:110 final size:110
Alignment explanation
Indices: 77111594--77111814 Score: 361
Period size: 110 Copynumber: 2.0 Consensus size: 110
77111584 AAAATAGGTC
* * *
77111594 AAACAAACAAAAACTCAAGGCTCATGTTGCTACTTGGAGTGACGAGGATTTATCTGATAAGGATG
1 AAACAAACAAAAACTCAAGGCTCATGTTGCTACTTAGAGTGACGAAGATTCATCTGATAAGGATG
* *
77111659 ATGATGAAGTAGCCAATATTTTCCTTATGGCCATCGATGAACCAA
66 ATGATGAAGTAGCCAATATTTGCCTTATGGCCATCGAGGAACCAA
* * * *
77111704 AAACAAACAAAAACTCAAGGCTCATGTTGTTACTTAGAGTGATGAAGATTCATTTGATAATGATG
1 AAACAAACAAAAACTCAAGGCTCATGTTGCTACTTAGAGTGACGAAGATTCATCTGATAAGGATG
77111769 ATGATGAAGTAGCCAATATTTGCCTTATGGCCATCGAGGAACCAA
66 ATGATGAAGTAGCCAATATTTGCCTTATGGCCATCGAGGAACCAA
77111814 A
1 A
77111815 GGTAAATTCT
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (110 bp):
AAACAAACAAAAACTCAAGGCTCATGTTGCTACTTAGAGTGACGAAGATTCATCTGATAAGGATG
ATGATGAAGTAGCCAATATTTGCCTTATGGCCATCGAGGAACCAA
Found at i:77112039 original size:42 final size:42
Alignment explanation
Indices: 77111992--77112075 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
77111982 ATATACAAGT
77111992 TAGTATATAATGATTTTGAGAAAAAGAATTGTGACTTACATA
1 TAGTATATAATGATTTTGAGAAAAAGAATTGTGACTTACATA
77112034 TAGTATATAATGATTTTGAGAAAAAGAATTGTGACTTACATA
1 TAGTATATAATGATTTTGAGAAAAAGAATTGTGACTTACATA
77112076 ATTTACTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (42 bp):
TAGTATATAATGATTTTGAGAAAAAGAATTGTGACTTACATA
Found at i:77115526 original size:34 final size:33
Alignment explanation
Indices: 77115456--77115540 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
77115446 CCATCTCAGT
77115456 ACAATATCAGATATGCAGTAAGGCCTTACCCATC
1 ACAATATCAG-TATGCAGTAAGGCCTTACCCATC
* * ** *
77115490 ACAATATCAGTATGCATTAGGGTTTTAGCCCGTC
1 ACAATATCAGTATGCAGTAAGGCCTTA-CCCATC
*
77115524 ACAGTATCAGTA-GCAGT
1 ACAATATCAGTATGCAGT
77115541 CATGCAATAG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 17 0.40
34 26 0.60
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (33 bp):
ACAATATCAGTATGCAGTAAGGCCTTACCCATC
Found at i:77124796 original size:34 final size:34
Alignment explanation
Indices: 77124746--77124810 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
77124736 GTCAAATATA
* *
77124746 GTTTTGGGCCTAAGCCCCTTTCAGTATCAGTAACG
1 GTTTTGGGCCTAAGCCCATCTCAGTA-CAGTAACG
*
77124781 GTTTT-GGCCTTAGCCCATCTCAGTACAGTA
1 GTTTTGGGCCTAAGCCCATCTCAGTACAGTA
77124811 TCAAATATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 5 0.19
34 17 0.63
35 5 0.19
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (34 bp):
GTTTTGGGCCTAAGCCCATCTCAGTACAGTAACG
Found at i:77124861 original size:34 final size:34
Alignment explanation
Indices: 77124816--77124880 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
77124806 CAGTATCAAA
*
77124816 TATGCAGTAGGGCCTTCGCCCAACACAGTATTAG
1 TATGCAGTAGGGCCTTAGCCCAACACAGTATTAG
* * *
77124850 TATGCATTAGGGCCTTAGCCCATCATAGTAT
1 TATGCAGTAGGGCCTTAGCCCAACACAGTAT
77124881 CAATAGCAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (34 bp):
TATGCAGTAGGGCCTTAGCCCAACACAGTATTAG
Found at i:77134221 original size:50 final size:52
Alignment explanation
Indices: 77134120--77134246 Score: 138
Period size: 50 Copynumber: 2.5 Consensus size: 52
77134110 CCCCGATGCA
77134120 TTTGGGAACAGGGTCACTTTATTACAGTTTTCTATAAGCCTTCCCCAATACG
1 TTTGGGAACAGGGTCACTTTATTACAGTTTTCTATAAGCCTTCCCCAATACG
* *
77134172 TTTGGGAGCAGGG-C-CTTTATTACTACG-TTTC-ATAAGCC-TCCTCCCATACG
1 TTTGGGAACAGGGTCACTTTATTAC-A-GTTTTCTATAAGCCTTCC-CCAATACG
* ** *
77134222 TCTAAGAATAGGGTCACTTTATTAC
1 TTTGGGAACAGGGTCACTTTATTAC
77134247 CTTCTATAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
49 3 0.05
50 31 0.49
51 7 0.11
52 22 0.35
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (52 bp):
TTTGGGAACAGGGTCACTTTATTACAGTTTTCTATAAGCCTTCCCCAATACG
Found at i:77135014 original size:15 final size:16
Alignment explanation
Indices: 77134985--77135019 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
77134975 GGGAAAGAAA
77134985 GAAAGAAAGAAAAAGG
1 GAAAGAAAGAAAAAGG
77135001 GAAAGAAA-AAAAAGG
1 GAAAGAAAGAAAAAGG
77135016 GAAA
1 GAAA
77135020 ATTAGGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
GAAAGAAAGAAAAAGG
Found at i:77139205 original size:95 final size:92
Alignment explanation
Indices: 77139041--77139262 Score: 259
Period size: 95 Copynumber: 2.4 Consensus size: 92
77139031 CATAATACCA
* ** *
77139041 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTTACATTAAGCCGATGCCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGG--CTTACACAAAGCCGATGCCATGTCCCAAACAT
* * **
77139106 GTCTTACACTAACTCCTACGTGTCCGTGCCG
64 GTCTTACACTAACT-AT-CGTCTCAATGCCG
*
77139137 ATGCCATGTCCCAAACAT-GTCTTACACTGGCTTACACCAAGAGGCCGAT-CCATGTCCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACA-CAA-A-GCCGATGCCATGTCCCAAACA
* *
77139200 TGTCTTACACTAGCTATCGTCTCAATGCTG
63 TGTCTTACACTAACTATCGTCTCAATGCCG
*
77139230 ATGCCATGTCTCAGACATGGTCTTACACTGGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT
77139263 CTCATAATGT
Statistics
Matches: 109, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
93 31 0.28
94 16 0.15
95 39 0.36
96 23 0.21
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (92 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACACAAAGCCGATGCCATGTCCCAAACATGT
CTTACACTAACTATCGTCTCAATGCCG
Found at i:77151073 original size:75 final size:75
Alignment explanation
Indices: 77150948--77151101 Score: 236
Period size: 75 Copynumber: 2.1 Consensus size: 75
77150938 AACATGGCTG
* * * *
77150948 TGTGCCTCCTTTCACATGGGCGTGTTGCCCTCTCATATAGCCTAGGCACTTCCATACAGCTGGGG
1 TGTGCCTCCTTTCACATGGGCGTGTTGCCCTCTCACATAGCCTAGACACTTCCACACAGCCGGGG
77151013 CACACAGCCA
66 CACACAGCCA
* * *
77151023 TGTGCCTCCTTTCACATGGGCGTGTTGGCCTCTCACATGGCCTAGACACTTCCACATAGCCGGGG
1 TGTGCCTCCTTTCACATGGGCGTGTTGCCCTCTCACATAGCCTAGACACTTCCACACAGCCGGGG
*
77151088 CACACAGCCG
66 CACACAGCCA
77151098 TGTG
1 TGTG
77151102 GCCCTATCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.18, C:0.33, G:0.25, T:0.25
Consensus pattern (75 bp):
TGTGCCTCCTTTCACATGGGCGTGTTGCCCTCTCACATAGCCTAGACACTTCCACACAGCCGGGG
CACACAGCCA
Found at i:77152809 original size:26 final size:26
Alignment explanation
Indices: 77152773--77152827 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
77152763 GTTTTGTGAA
77152773 GTTAGTTGATGAAATATGAAATATAT
1 GTTAGTTGATGAAATATGAAATATAT
77152799 GTTAGTTGATGAAATATGAAATATAT
1 GTTAGTTGATGAAATATGAAATATAT
77152825 GTT
1 GTT
77152828 TTAGATTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (26 bp):
GTTAGTTGATGAAATATGAAATATAT
Found at i:77153429 original size:56 final size:56
Alignment explanation
Indices: 77153331--77153439 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
77153321 TACAAGGGAA
* *
77153331 TTTTATACGTTGGCATCGATATGTGACTCTGATATATATGTGCGAGTAAGACCACG
1 TTTTATACATTGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACCACG
* *
77153387 TTTTATACATTGGCATCGATATGTGACTCCGATGTATGTGTGCGAGTAAGACC
1 TTTTATACATTGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACC
77153440 CTATCTAGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (56 bp):
TTTTATACATTGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACCACG
Found at i:77153457 original size:56 final size:56
Alignment explanation
Indices: 77153341--77153468 Score: 170
Period size: 56 Copynumber: 2.3 Consensus size: 56
77153331 TTTTATACGT
* * * *
77153341 TGGCATCGATATGTGACTCTGATATATATGTGCGAGTAAGACCACGTTTTATACAT
1 TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACCACGTTCTAGACAG
* *
77153397 TGGCATCGATATGTGACTCCGATGTATGTGTGCGAGTAAGACC-C-TATCTAGGACAG
1 TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACCACGT-TCTA-GACAG
77153453 TGGCATCGATATGTGA
1 TGGCATCGATATGTGA
77153469 TTACATGTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
54 1 0.02
55 4 0.06
56 59 0.92
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACCACGTTCTAGACAG
Found at i:77155158 original size:46 final size:44
Alignment explanation
Indices: 77155074--77155183 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 44
77155064 CGATGTCGTG
*
77155074 CCCAAACATGGTCTTACACTGGCACATCTCGTAGCCGATGCATGT
1 CCCAAACAT-GTCTTACACTGACACATCTCGTAGCCGATGCATGT
*
77155119 CCCAAACATGTCTTACACTGACTTACGTCTCG-AGGCCGATGCATGT
1 CCCAAACATGTCTTACACTGAC--ACATCTCGTA-GCCGATGCATGT
***
77155165 ATGAAACATGTCTTACACT
1 CCCAAACATGTCTTACACT
77155184 AGCACTCGTC
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
44 12 0.21
45 10 0.18
46 35 0.61
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (44 bp):
CCCAAACATGTCTTACACTGACACATCTCGTAGCCGATGCATGT
Found at i:77155206 original size:46 final size:47
Alignment explanation
Indices: 77155122--77155211 Score: 105
Period size: 46 Copynumber: 1.9 Consensus size: 47
77155112 TGCATGTCCC
* *
77155122 AAACATGTCTTACACTGACTTACGTCTCGAGGCCGATG-CATGTATG
1 AAACATGTCTTACACTGACTTACGTCTCAAGACCGATGCCATGTATG
* *
77155168 AAACATGTCTTACACTAGCAC-T-CGTCTCAATACTGATGCCATGT
1 AAACATGTCTTACACT-G-ACTTACGTCTCAAGACCGATGCCATGT
77155212 CCCAGACATG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
46 28 0.76
47 7 0.19
48 2 0.05
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (47 bp):
AAACATGTCTTACACTGACTTACGTCTCAAGACCGATGCCATGTATG
Found at i:77162853 original size:47 final size:46
Alignment explanation
Indices: 77162787--77162912 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 46
77162777 GTTTCGAGGC
* *
77162787 CGATGCATGTCCTAGACATGTATTACACTAGCACTCGTC-TCAATGT-
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTC-TCAT-AATGTG
*
77162833 CGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCTCATAATGTGG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCTCATAATGT-G
*
77162880 CCGGTGCATGTCCCAGACATGTCTTACACTAGC
1 -CGATGCATGTCCCAGACATGTCTTACACTAGC
77162913 TCACAGTAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
45 7 0.10
46 19 0.28
47 29 0.43
48 13 0.19
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTCTCATAATGTG
Found at i:77168166 original size:7 final size:7
Alignment explanation
Indices: 77168147--77168193 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
77168137 ATCCAAACAA
77168147 AATAAAGT
1 AATAAA-T
77168155 AATAAAT
1 AATAAAT
77168162 AAT-AA-
1 AATAAAT
77168167 AATAAAAT
1 AAT-AAAT
77168175 AATAAAT
1 AATAAAT
77168182 AATAAA-
1 AATAAAT
77168188 AATAAA
1 AATAAA
77168194 ATTTGGGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 3 0.08
6 8 0.22
7 16 0.44
8 9 0.25
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (7 bp):
AATAAAT
Found at i:77168170 original size:20 final size:21
Alignment explanation
Indices: 77168145--77168195 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
77168135 ATATCCAAAC
*
77168145 AAAATAAAGTAATAAATAAT-
1 AAAATAAAATAATAAATAATA
77168165 AAAATAAAATAATAAATAATA
1 AAAATAAAATAATAAATAATA
77168186 AAAATAAAAT
1 AAAATAAAAT
77168196 TTGGGTTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAATAAAATAATAAATAATA
Found at i:77168189 original size:16 final size:13
Alignment explanation
Indices: 77168158--77168195 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
77168148 ATAAAGTAAT
77168158 AAATAATAAAATA
1 AAATAATAAAATA
77168171 AAATAAT-AAATA
1 AAATAATAAAATA
*
77168183 ATAAAAATAAAAT
1 A-AATAATAAAAT
77168196 TTGGGTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 6 0.27
13 12 0.55
14 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAATAAAATA
Found at i:77168716 original size:34 final size:34
Alignment explanation
Indices: 77168673--77168741 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
77168663 TTCATTCAGG
* *
77168673 TGACTAATAGTGTCATAAACGTTAAACTTCACGA
1 TGACTAATAGCGTCATAAACATTAAACTTCACGA
77168707 TGACTAATAGCGTCATAAACATTAAACTTCACGA
1 TGACTAATAGCGTCATAAACATTAAACTTCACGA
77168741 T
1 T
77168742 CTCCTCGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (34 bp):
TGACTAATAGCGTCATAAACATTAAACTTCACGA
Found at i:77171740 original size:3 final size:3
Alignment explanation
Indices: 77171727--77171778 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
77171717 TTTAGTTTAG
*
77171727 TAT TA- TAT TAT TAT TAT TAT TGT TAT TAT TAT T-T TAT T-T TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
77171771 TAAT TAT T
1 T-AT TAT T
77171779 GAAGGCACGT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 8 0.19
3 32 0.76
4 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:77176625 original size:27 final size:27
Alignment explanation
Indices: 77176579--77176843 Score: 289
Period size: 27 Copynumber: 9.8 Consensus size: 27
77176569 ATTACAGAAA
* * * ***
77176579 TACCCTCGACTTATAAAATTACCAAAG
1 TACCCTCGATTTACAGAATTACCATTT
**
77176606 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
**
77176633 TACCCTCGATTTACAGAATTACCGCTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
77176660 TACCCTCGATTTATAAAATAACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* ** *
77176687 TACCCTCAATTTATGGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
77176714 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
77176741 TACCCTCGATTTACAGAATTA-TAGTCT
1 TACCCTCGATTTACAGAATTACCA-TTT
*
77176768 TACCATCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
77176795 TACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
77176822 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTACAGAATTAC
77176844 TAAAATACCC
Statistics
Matches: 202, Mismatches: 34, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.00
27 200 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:77176699 original size:81 final size:81
Alignment explanation
Indices: 77176579--77176871 Score: 345
Period size: 81 Copynumber: 3.6 Consensus size: 81
77176569 ATTACAGAAA
* * * *
77176579 TACCCTCGACTTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
*
77176644 TACAGAATTACCGCTT
66 TACAGAATTACCGTTT
* * * **
77176660 TACCCTCGATTTATAAAATAACCATTTTACCCTCAATTTATGGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* *
77176725 TATAGAATTACCATTT
66 TACAGAATTACCGTTT
* * * * * *
77176741 TACCCTCGATTTACAGAATTA-TAGTCTTACCATCGATTTACAGAATTACCATTTTACCCTCGAT
1 TACCCTCGATTTATAAAATTACCA-TATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
*
77176805 TTACATAATTACCGTTT
65 TTACAGAATTACCGTTT
* * * * * *
77176822 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 TACCCTCGATTTATAAAATTACCATATTACCCTCGATTTACAGAATTACC
77176872 AAAATACCCT
Statistics
Matches: 176, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
80 1 0.01
81 173 0.98
82 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCATATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
TACAGAATTACCGTTT
Found at i:77176852 original size:27 final size:27
Alignment explanation
Indices: 77176567--77176962 Score: 179
Period size: 27 Copynumber: 14.7 Consensus size: 27
77176557 TTAGTTTACC
*
77176567 AAATTA-CAGAAATACCCTCGACTTATA
1 AAATTACCA-AAATACCCTCGATTTATA
* *
77176594 AAATTACCAAAGTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ***** *
77176621 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
77176648 GAATTACCGCTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* *** * *
77176675 AAATAACCATTTTACCCTCAATTTATG
1 AAATTACCAAAATACCCTCGATTTATA
* ****
77176702 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* *** *
77176729 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** * *
77176756 GAATTA-TAGTCTTACCATCGATTTACA
1 AAATTACCA-AAATACCCTCGATTTATA
* *** *
77176783 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
77176810 TAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
77176837 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* **
77176864 AAATTACCAAAATACCCTTGATCAATA
1 AAATTACCAAAATACCCTCGATTTATA
* *
77176891 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
77176918 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTATA
*
77176945 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
77176963 TGTAGGATAG
Statistics
Matches: 307, Mismatches: 56, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.01
27 301 0.98
28 4 0.01
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:77176871 original size:54 final size:54
Alignment explanation
Indices: 77176606--77176843 Score: 323
Period size: 54 Copynumber: 4.4 Consensus size: 54
77176596 ATTACCAAAG
* * ** *
77176606 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGCTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
* * **
77176660 TACCCTCGATTTATAAAATAACCATTTTACCCTCAATTTATGGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
* ** *
77176714 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATAGTCT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
* * * *
77176768 TACCATCGATTTACAGAATTACCATTTTACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
77176822 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTATAAAATTAC
77176844 TAAAATACCC
Statistics
Matches: 158, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 158 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:77176976 original size:27 final size:27
Alignment explanation
Indices: 77176946--77177114 Score: 230
Period size: 27 Copynumber: 6.3 Consensus size: 27
77176936 TAATTTGTGA
*
77176946 AATTACCGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
77176973 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
77177000 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
77177027 AATTACCGAAATACCCTTATAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
77177054 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
77177081 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
77177108 AATTACC
1 AATTACC
77177115 AGTTTGCCCC
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:77177125 original size:54 final size:54
Alignment explanation
Indices: 77176944--77177110 Score: 255
Period size: 54 Copynumber: 3.1 Consensus size: 54
77176934 CCTAATTTGT
* * *
77176944 GAAATTACCGAAATACCCTTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTA
1 GAAA-TACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
* *
77176999 GAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAAGGTA
1 GAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
* *
77177053 GAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTA
1 GAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
77177107 -AAAT
1 GAAAT
77177111 TACCAGTTTG
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.04
54 95 0.92
55 4 0.04
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (54 bp):
GAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
Found at i:77177553 original size:25 final size:25
Alignment explanation
Indices: 77177525--77177588 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
77177515 TATTCACATT
* *
77177525 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
77177550 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
*
77177575 CTAATTCTGATTCT
1 CTGATTCTGATTCT
77177589 AGTTCTGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:77177561 original size:6 final size:6
Alignment explanation
Indices: 77177522--77177597 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
77177512 TTGTATTCAC
* * *
77177522 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
77177572 ATTCTA ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
77177598 AATTTTCTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
5 4 0.07
6 41 0.76
7 7 0.13
8 2 0.04
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:77179571 original size:27 final size:27
Alignment explanation
Indices: 77179514--77179778 Score: 314
Period size: 27 Copynumber: 9.8 Consensus size: 27
77179504 ATTACAGAAA
* * ****
77179514 TACCCTCGACTTATAAAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCGTTT
*
77179541 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
77179568 TACCCTCGATTTACAGAATTACCGCTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
77179595 TACCCTCGATTTATAGAATAACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
77179622 TACCCTCAATTTATGGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
77179649 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* ** *
77179676 TACCCTCGATTTACAGAATTATAGTCT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
77179703 TACCATCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
77179730 TACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
77179757 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTATAGAATTAC
77179779 TAAAATACCC
Statistics
Matches: 202, Mismatches: 36, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 202 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:77179787 original size:27 final size:27
Alignment explanation
Indices: 77179502--77179897 Score: 179
Period size: 27 Copynumber: 14.7 Consensus size: 27
77179492 TTAGTTTACC
*
77179502 AAATTA-CAGAAATACCCTCGACTTATA
1 AAATTACCA-AAATACCCTCGATTTATA
*
77179529 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ***** *
77179556 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
77179583 GAATTACCGCTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** * *
77179610 GAATAACCATTTTACCCTCAATTTATG
1 AAATTACCAAAATACCCTCGATTTATA
* ****
77179637 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* *** *
77179664 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** * *
77179691 GAATTA-TAGTCTTACCATCGATTTACA
1 AAATTACCA-AAATACCCTCGATTTATA
* *** *
77179718 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
77179745 TAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
77179772 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* **
77179799 AAATTACCAAAATACCCTTGATCAATA
1 AAATTACCAAAATACCCTCGATTTATA
* *
77179826 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
77179853 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTATA
*
77179880 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
77179898 TGTAGGATAG
Statistics
Matches: 309, Mismatches: 54, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 303 0.98
28 4 0.01
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:77179806 original size:54 final size:54
Alignment explanation
Indices: 77179541--77179778 Score: 350
Period size: 54 Copynumber: 4.4 Consensus size: 54
77179531 ATTACCAAAG
** *
77179541 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGCTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
* * **
77179595 TACCCTCGATTTATAGAATAACCATTTTACCCTCAATTTATGGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
** *
77179649 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATAGTCT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
* * *
77179703 TACCATCGATTTACAGAATTACCATTTTACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
*
77179757 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTATAGAATTAC
77179779 TAAAATACCC
Statistics
Matches: 161, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 161 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:77179911 original size:27 final size:27
Alignment explanation
Indices: 77179881--77180005 Score: 178
Period size: 27 Copynumber: 4.6 Consensus size: 27
77179871 TAATTTGTGA
*
77179881 AATTACCGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
77179908 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
77179935 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
77179962 AATTATCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
77179989 AAATACTGAAATACCCT
1 AATTACCGAAATACCCT
77180006 AGGGTGTTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:77179946 original size:54 final size:54
Alignment explanation
Indices: 77179879--77180005 Score: 200
Period size: 54 Copynumber: 2.3 Consensus size: 54
77179869 CCTAATTTGT
* *
77179879 GAAATTACCGAAATACCCTTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTA
1 GAAA-TACTGAAATACCCTTGTAGGATAGAATTACCGAAATACCCTTATAGGGTA
* * *
77179934 GAAATACTGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTATAGGGTA
1 GAAATACTGAAATACCCTTGTAGGATAGAATTACCGAAATACCCTTATAGGGTA
77179988 GAAATACTGAAATACCCT
1 GAAATACTGAAATACCCT
77180006 AGGGTGTTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
54 62 0.94
55 4 0.06
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (54 bp):
GAAATACTGAAATACCCTTGTAGGATAGAATTACCGAAATACCCTTATAGGGTA
Found at i:77180433 original size:25 final size:25
Alignment explanation
Indices: 77180405--77180468 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
77180395 TATTCACATT
* *
77180405 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
* *
77180430 CTGATTCTGATTTTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
*
77180455 CTAATTCTGATTCT
1 CTGATTCTGATTCT
77180469 AGTTCTGATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:77182440 original size:27 final size:27
Alignment explanation
Indices: 77182421--77182658 Score: 350
Period size: 27 Copynumber: 8.8 Consensus size: 27
77182411 ATTACCAAAG
*
77182421 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
77182448 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
77182475 TACCCTCGATTTATAGAATAACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* ** *
77182502 TACCCTCAATTTATGGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
77182529 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
77182556 TACCCTCGATTTACAGAATTACCGTCT
1 TACCCTCGATTTACAGAATTACCATTT
77182583 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
77182610 TACCTTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
77182637 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
77182659 TGAAATACCC
Statistics
Matches: 189, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 189 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:77182667 original size:27 final size:27
Alignment explanation
Indices: 77182394--77182696 Score: 188
Period size: 27 Copynumber: 11.2 Consensus size: 27
77182384 ATTACTGAAA
* *
77182394 TACCCTCGACTTGTA-A-AATTACCAAAG
1 TACCCTCGA-TT-TACAGAATTACCCAAT
* *
77182421 TACCCTCGATTTACAGAATTA-CTATTT
1 TACCCTCGATTTACAGAATTACCCA-AT
***
77182448 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCCAAT
* * *
77182475 TACCCTCGATTTATAGAA-TAACCATTT
1 TACCCTCGATTTACAGAATTACCCA-AT
* ** ***
77182502 TACCCTCAATTTATGGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCCAAT
* *
77182529 TACCCTCGATTTATAGAATTA-CCATTT
1 TACCCTCGATTTACAGAATTACCCA-AT
***
77182556 TACCCTCGATTTACAGAATTACCGTCT
1 TACCCTCGATTTACAGAATTACCCAAT
*
77182583 TACCCTCGATTTACAGAATTA-CCATTT
1 TACCCTCGATTTACAGAATTACCCA-AT
* * *
77182610 TACCTTCGATTTACAGAATTA-TCATTT
1 TACCCTCGATTTACAGAATTACCCA-AT
* ** *
77182637 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTACAGAATTACCCAAT
* * * * *
77182664 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAGAATTACCCAAT
77182691 TACCCT
1 TACCCT
77182697 TGATCAATAA
Statistics
Matches: 230, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.01
26 10 0.04
27 211 0.92
28 7 0.03
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCCAAT
Found at i:77182668 original size:81 final size:80
Alignment explanation
Indices: 77182394--77182687 Score: 327
Period size: 81 Copynumber: 3.6 Consensus size: 80
77182384 ATTACTGAAA
* ** *
77182394 TACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCAAA-TACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
*
77182459 TACAGAATTACCGTTT
65 TACAGAATTACCATTT
* * * ** * ** *
77182475 TACCCTCGATTTATAGAATAACCATTTTACCCTCAATTTATGGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCA-AATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
*
77182540 TATAGAATTACCATTT
65 TACAGAATTACCATTT
* *** *
77182556 TACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTACAGAATTACCATTTTACCTTCGATT
1 TACCCTCGATTTACAAAATTACC-AAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
*
77182621 TACAGAATTATCATTT
65 TACAGAATTACCATTT
* * * *
77182637 TACCCTCGATTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTAC-CAAATACCCTCGATTTACAGAATTACCA
77182688 AAATACCCTT
Statistics
Matches: 178, Mismatches: 32, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
81 178 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACCAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATTT
ACAGAATTACCATTT
Found at i:77182677 original size:54 final size:54
Alignment explanation
Indices: 77182421--77182687 Score: 214
Period size: 54 Copynumber: 4.9 Consensus size: 54
77182411 ATTACCAAAG
* * ** * * *
77182421 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATAATACCCTTGATTTACAGAATTACCATCT
* * * ** ** ** * *
77182475 TACCCTCGATTTATAGAATAACCATTTTACCCTCAATTTATGGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATAATACCCTTGATTTACAGAATTACCATCT
* * ** * *
77182529 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTCT
1 TACCCTCGATTTACAAAATTACCATAATACCCTTGATTTACAGAATTACCATCT
* ** * *
77182583 TACCCTCGATTTACAGAATTACCATTTTA-CCTTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAAAATTACCATAATACCCTT-GATTTACAGAATTACCATCT
* * *
77182637 TACCCTCGATTTACAAAATTACTGA-AATACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTAC-CATAATACCCTTGATTTACAGAATTACCA
77182688 AAATACCCTT
Statistics
Matches: 187, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
53 3 0.02
54 179 0.96
55 5 0.03
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCATAATACCCTTGATTTACAGAATTACCATCT
Found at i:77182697 original size:27 final size:27
Alignment explanation
Indices: 77182529--77182779 Score: 135
Period size: 27 Copynumber: 9.3 Consensus size: 27
77182519 ATTACCGTTT
* * * ***
77182529 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTTGATTTACAAAATTACCAAAA
* * ****
77182556 TACCCTCGATTTACAGAATTACCGTCT
1 TACCCTTGATTTACAAAATTACCAAAA
* * ***
77182583 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTTGATTTACAAAATTACCAAAA
* * ***
77182610 TA-CCTTCGATTTACAGAATTATCATTT
1 TACCCTT-GATTTACAAAATTACCAAAA
* **
77182637 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
*
77182664 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
** *
77182691 TACCCTTGATCAATAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* * **
77182718 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* * *** *
77182745 TACCCCTAATTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
77182772 TACCCTTG
1 TACCCTTG
77182780 TAGGATAGAA
Statistics
Matches: 188, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 3 0.02
27 182 0.97
28 3 0.02
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:77182711 original size:81 final size:81
Alignment explanation
Indices: 77182545--77182714 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 81
77182535 CGATTTATAG
* *** * ***
77182545 AATTACCATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTACAGAATTACCATTT
1 AATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCAAAA
** *
77182610 TACCTTCGATTTACAG
66 TACCTTCGATCAACAA
* * * *
77182626 AATTATCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAA
1 AATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCAAAA
*
77182691 TACCCTT-GATCAATAA
66 TA-CCTTCGATCAACAA
77182707 AATTACCA
1 AATTACCA
77182715 AAATACCCCT
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
81 67 0.94
82 4 0.06
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCAAAA
TACCTTCGATCAACAA
Found at i:77182764 original size:54 final size:54
Alignment explanation
Indices: 77182651--77182776 Score: 153
Period size: 54 Copynumber: 2.3 Consensus size: 54
77182641 CTCGATTTAC
* * * *
77182651 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGATCAAT
1 AAAATTACCGAAATACCCCTGGTTTACAAAATTACCAAAATACCCCTAATCAAT
* ** ***
77182705 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCGAAATACCCCTGGTTTACAAAATTACCAAAATACCCCTAATCAAT
*
77182759 GAAATTACCGAAATACCC
1 AAAATTACCGAAATACCC
77182777 TTGTAGGATA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (54 bp):
AAAATTACCGAAATACCCCTGGTTTACAAAATTACCAAAATACCCCTAATCAAT
Found at i:77182791 original size:27 final size:27
Alignment explanation
Indices: 77182761--77182929 Score: 212
Period size: 27 Copynumber: 6.3 Consensus size: 27
77182751 TAATTTGTGA
*
77182761 AATTACCGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
77182788 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
77182815 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
77182842 AATTACCGAAATACCCTTATAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
77182869 AAATACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
77182896 AATTACCGAGATACCCTTGTAAGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
77182923 AATTACC
1 AATTACC
77182930 AGTTTGCCCC
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:77182792 original size:54 final size:55
Alignment explanation
Indices: 77182734--77182911 Score: 184
Period size: 54 Copynumber: 3.3 Consensus size: 55
77182724 TGGTTTGTAA
* ** *
77182734 AATTACCAAAATACCCCTAAT-TTGT-GAAATTACCGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCCTAATAGGGTAGAAA-TACCGAAATACCCCTGTAGGATAG
* ** * *
77182788 AATTACTGAAATA-CCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTAATAGGGTAGAAATACCGAAATACCCCTGTAGGATAG
* * * * *
77182842 AATTACCGAAATA-CCCTTATAAGGTAGAAATACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTAATAGGGTAGAAATACCGAAATACCCCTGTAGGATAG
*
77182896 AATTACCGAGATACCC
1 AATTACCGAAATACCC
77182912 TTGTAAGGTA
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
53 5 0.05
54 96 0.90
55 6 0.06
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (55 bp):
AATTACCGAAATACCCCTAATAGGGTAGAAATACCGAAATACCCCTGTAGGATAG
Found at i:77182912 original size:54 final size:54
Alignment explanation
Indices: 77182759--77182925 Score: 246
Period size: 54 Copynumber: 3.1 Consensus size: 54
77182749 CCTAATTTGT
* * * * *
77182759 GAAATTACCGAAATACCCTTGTAGGATAGAATTACTGAAATACCCTTGTAGGGTA
1 GAAA-TACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAAGGTA
*
77182814 GAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAAGGTA
1 GAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAAGGTA
* *
77182868 GAAATACTGAAATACCCCTATAGGGTAGAATTACCGAGATACCCTTGTAAGGTA
1 GAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAAGGTA
77182922 -AAAT
1 GAAAT
77182926 TACCAGTTTG
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.04
54 95 0.92
55 4 0.04
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (54 bp):
GAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAAGGTA
Found at i:77183368 original size:25 final size:25
Alignment explanation
Indices: 77183340--77183403 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
77183330 TATTCACATT
* *
77183340 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
77183365 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
*
77183390 CTAATTCTGATTCT
1 CTGATTCTGATTCT
77183404 AGTTTTGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:77185132 original size:18 final size:18
Alignment explanation
Indices: 77185109--77185146 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
77185099 GATGGGCCGA
77185109 AAGGGGCCATGTGGGCCC
1 AAGGGGCCATGTGGGCCC
77185127 AAGGGGCCATGTGGGCCC
1 AAGGGGCCATGTGGGCCC
77185145 AA
1 AA
77185147 TTGGATAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.42, T:0.11
Consensus pattern (18 bp):
AAGGGGCCATGTGGGCCC
Found at i:77185376 original size:27 final size:27
Alignment explanation
Indices: 77185357--77185594 Score: 332
Period size: 27 Copynumber: 8.8 Consensus size: 27
77185347 ATTACCAAAG
*
77185357 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
77185384 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
77185411 TACCCTCGATTTATAGAATAACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
77185438 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
77185465 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
** *
77185492 TACCCTCGATTTACAGAATTACTGTCT
1 TACCCTCGATTTACAGAATTACCATTT
*
77185519 TACCATCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
77185546 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
77185573 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTACAGAATTAC
77185595 TAAAATACCC
Statistics
Matches: 187, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 187 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:77185593 original size:81 final size:81
Alignment explanation
Indices: 77185357--77185623 Score: 354
Period size: 81 Copynumber: 3.3 Consensus size: 81
77185347 ATTACCAAAG
*
77185357 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* * *
77185422 TATAGAATAACCATTT
66 TATAGAATTACTATCT
* * * * *
77185438 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* *
77185503 TACAGAATTACTGTCT
66 TATAGAATTACTATCT
* *
77185519 TACCATCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* ***
77185584 TATAAAATTACTAAAA
66 TATAGAATTACTATCT
* * *
77185600 TACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAGAATTACCA
77185624 AAATACCCTT
Statistics
Matches: 158, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 158 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
TATAGAATTACTATCT
Found at i:77185603 original size:27 final size:27
Alignment explanation
Indices: 77185318--77185685 Score: 171
Period size: 27 Copynumber: 13.6 Consensus size: 27
77185308 TTAGTTTACC
** * *
77185318 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
77185345 AAATTACCAAAGTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** *
77185372 GAATTACTATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
77185399 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** *
77185426 GAATAACCATTTTACCCTCAATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
77185453 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* *** *
77185480 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ***** * *
77185507 GAATTACTGTCTTACCATCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *** * *
77185534 GAATTACCATTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
77185561 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
77185588 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* **
77185615 AAATTACCAAAATACCCTTGATCAATA
1 AAATTACCAAAATACCCTCGATTTATA
* *
77185642 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
77185669 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
77185686 CTAATTTGTG
Statistics
Matches: 287, Mismatches: 53, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 287 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:77185622 original size:54 final size:54
Alignment explanation
Indices: 77185357--77185594 Score: 377
Period size: 54 Copynumber: 4.4 Consensus size: 54
77185347 ATTACCAAAG
* *
77185357 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
* * *
77185411 TACCCTCGATTTATAGAATAACCATTTTACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
* *
77185465 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTCT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
* * *
77185519 TACCATCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
*
77185573 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTATAGAATTAC
77185595 TAAAATACCC
Statistics
Matches: 166, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 166 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:77185686 original size:27 final size:27
Alignment explanation
Indices: 77185575--77185712 Score: 141
Period size: 27 Copynumber: 5.1 Consensus size: 27
77185565 TACCGTTTTA
*
77185575 CCCTCGATTTATAAAATTACTAAAATAC
1 CCCT-GATTTATAAAATTACCAAAATAC
* * *
77185603 CCTTGGTTTACAAAATTACCAAAATAC
1 CCCTGATTTATAAAATTACCAAAATAC
* **
77185630 CCTTGATCAATAAAATTACCAAAATAC
1 CCCTGATTTATAAAATTACCAAAATAC
* *
77185657 CCCTGGTTTGTAAAATTACCAAAATAC
1 CCCTGATTTATAAAATTACCAAAATAC
* * * * *
77185684 CCCTAATTTGTGAAATTATCGAAATAC
1 CCCTGATTTATAAAATTACCAAAATAC
77185711 CC
1 CC
77185713 TTGTAGGGAG
Statistics
Matches: 92, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 89 0.97
28 3 0.03
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
CCCTGATTTATAAAATTACCAAAATAC
Found at i:77185861 original size:27 final size:27
Alignment explanation
Indices: 77185697--77185864 Score: 214
Period size: 27 Copynumber: 6.3 Consensus size: 27
77185687 TAATTTGTGA
*
77185697 AATTATCGAAATACCCTTGTAGGG-AG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
77185723 AATTATCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
77185750 AATTACTGAAATACTCC-TGTAGGGTAG
1 AATTACCGAAATAC-CCTTGTAGGGTAG
77185777 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
77185804 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
77185831 AATTACCGAGATACCCTTGTGGGGCAA
1 AATTACCGAAATACCCTTGTAGGGTAG
77185858 AATTACC
1 AATTACC
77185865 AGTTTACCCC
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
26 25 0.20
27 97 0.78
28 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:77186302 original size:6 final size:6
Alignment explanation
Indices: 77186271--77186358 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
77186261 TTGCATTCAC
* *
77186271 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
77186320 -TCACCTG ATTCTA ATTCTG TTTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
77186359 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:77186306 original size:31 final size:31
Alignment explanation
Indices: 77186271--77186349 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
77186261 TTGCATTCAC
* *
77186271 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTGATACTA
* *
77186302 ATTCTGATTCTGATTCTGTCACCTGATTCTA
1 ATTCTGATTTTGATTCTGTCACCTGATACTA
77186333 ATTCTG-TTTCTGATTCT
1 ATTCTGATTT-TGATTCT
77186350 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 2 0.05
31 40 0.95
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTGATACTA
Found at i:77187220 original size:21 final size:21
Alignment explanation
Indices: 77187190--77187275 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
77187180 GCCATGTCCC
77187190 TAGTCCACACGGGCGTGTGCCT
1 TAGT-CACACGGGCGTGTGCCT
*
77187212 TAGTCACACGAGCGTGTGCCT
1 TAGTCACACGGGCGTGTGCCT
** * *
77187233 CTCTTCACACGGGTGTGCGCCT
1 -TAGTCACACGGGCGTGTGCCT
* * * *
77187255 TTGCCACATGGCCGTGTGCCT
1 TAGTCACACGGGCGTGTGCCT
77187276 CTCTTTATGC
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
21 30 0.60
22 20 0.40
ACGTcount: A:0.13, C:0.33, G:0.29, T:0.26
Consensus pattern (21 bp):
TAGTCACACGGGCGTGTGCCT
Found at i:77188874 original size:37 final size:37
Alignment explanation
Indices: 77188824--77188902 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
77188814 TTATTACGAA
* * *
77188824 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
77188861 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
77188898 GTCTT
1 GTCTT
77188903 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:77189131 original size:47 final size:47
Alignment explanation
Indices: 77189020--77189195 Score: 316
Period size: 47 Copynumber: 3.7 Consensus size: 47
77189010 GCCCTTCGGG
*
77189020 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
77189070 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
77189117 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
77189164 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
77189196 ATACTATCAT
Statistics
Matches: 125, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
47 87 0.70
49 34 0.27
50 4 0.03
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:77192823 original size:80 final size:80
Alignment explanation
Indices: 77192722--77193098 Score: 445
Period size: 80 Copynumber: 4.7 Consensus size: 80
77192712 AGCATGATTA
* * * * * * ** *
77192722 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
77192787 TCACTAGCACGAATG
66 TCACTAGCACGAATG
* *
77192802 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGTTCCTCGGGACTTAGCCCGGATATA
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
*
77192867 TCACTAGCATGAATG
66 TCACTAGCACGAATG
* * *
77192882 CTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGATACA
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
77192947 TCGCTAGCATGAATG
66 TCACTAGCACGAATG
* * * *
77192962 CTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
77193027 GTAACTCGCACCAATG
66 -TCACTAGCACGAATG
* * ** *
77193043 C-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCC
1 CTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCACGAATGCTCTTCGGGACTTAGCC
77193099 TGGACATCAT
Statistics
Matches: 258, Mismatches: 36, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
80 235 0.91
81 18 0.07
82 5 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
TCACTAGCACGAATG
Found at i:77192939 original size:120 final size:120
Alignment explanation
Indices: 77192726--77193098 Score: 428
Period size: 120 Copynumber: 3.1 Consensus size: 120
77192716 TGATTACTCT
* * * * * ** * *
77192726 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATATCAC
1 TCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
*
77192791 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGTTCC
66 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
*
77192846 TCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCAC
1 TCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
* * * * * *
77192911 TAGCATGAATGCTCTTTGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCT
66 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
* * ** *
77192966 TCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAA
1 TCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA-TCA
* * * * ** * *
77193031 CTCGCACCAATGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CT
65 CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCACGAATGCTCC
77193086 TCGGGACTTAGCC
1 TCGGGACTTAGCC
77193099 TGGACATCAT
Statistics
Matches: 215, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
120 191 0.89
121 19 0.09
122 5 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
TCGGGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
Found at i:77193049 original size:40 final size:40
Alignment explanation
Indices: 77192707--77193023 Score: 427
Period size: 40 Copynumber: 7.9 Consensus size: 40
77192697 CGAATACACG
* * * * *
77192707 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * ** * *
77192747 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
77192787 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * *
77192827 TCACTAGCACGAATGTTCCTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
77192867 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
77192907 TCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
77192947 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
77192987 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
77193024 TTAGTAACTC
Statistics
Matches: 247, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 247 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:77193096 original size:40 final size:40
Alignment explanation
Indices: 77192724--77193098 Score: 169
Period size: 40 Copynumber: 9.4 Consensus size: 40
77192714 CATGATTACT
* * * *
77192724 CTTCGGGACCTAGCCCGGATATA--ACACCAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTA-ACTAGCACCAAAGC
* ** * * * *
77192763 TCTTTGGGGTTTAGCACGGATATA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
* * * * *
77192803 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAATGTTC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAG--C
* ** *
77192845 C-TCGGGACTTAGCCCGGATATA-TCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
* * * ** *
77192883 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
* * ** ** *
77192923 TCTTTGGGACTTAGCCCGGATACA-TCGCTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
* ** ** *
77192963 TCTTCGGGACTTAGCCCGGATACA-TCGCTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
* * *
77193003 TCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
* * *
77193044 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCACCAAAGC
77193084 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
77193099 TGGACATCAT
Statistics
Matches: 290, Mismatches: 36, Indels: 18
0.84 0.10 0.05
Matches are distributed among these distances:
38 1 0.00
39 4 0.01
40 265 0.91
41 19 0.07
42 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAAAGC
Found at i:77193449 original size:29 final size:29
Alignment explanation
Indices: 77193410--77193488 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
77193400 CTTAATAATC
*
77193410 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
77193440 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
77193469 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
77193489 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:77193582 original size:42 final size:43
Alignment explanation
Indices: 77193470--77193614 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
77193460 TGCATTTCAA
77193470 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
77193513 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
77193556 GCCCGCACA-TTAGTGACAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
77193598 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
77193615 TGAAAACCAA
Statistics
Matches: 99, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
42 41 0.41
43 58 0.59
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:77195529 original size:37 final size:37
Alignment explanation
Indices: 77195479--77195557 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
77195469 TTATTACGAA
* * * *
77195479 GTCTTACTCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
77195516 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
77195553 GTCTT
1 GTCTT
77195558 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:77195835 original size:47 final size:48
Alignment explanation
Indices: 77195675--77195899 Score: 391
Period size: 47 Copynumber: 4.7 Consensus size: 48
77195665 GCCCTTCGGG
77195675 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
77195725 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
*
77195774 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATAC
*
77195821 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATAC
77195868 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
77195900 ATACTATCAT
Statistics
Matches: 174, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
47 87 0.50
49 83 0.48
50 4 0.02
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (48 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATAC
Found at i:77195858 original size:96 final size:95
Alignment explanation
Indices: 77195675--77195899 Score: 389
Period size: 96 Copynumber: 2.3 Consensus size: 95
77195665 GCCCTTCGGG
77195675 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATACACTTTCACATTCATC
77195740 ACATCGGCCATTAGGCCCTATCACATATATATAC
64 ACATCGGCCATTAGGCCCTATCAC--ATATATAC
*
77195774 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACACTTTCACATTCATCAC
*
77195838 ATCGGCCATTAGGCCTTATCACATATATAC
66 ATCGGCCATTAGGCCCTATCACATATATAC
77195868 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
77195900 ATACTATCAT
Statistics
Matches: 124, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
94 40 0.32
96 46 0.37
98 34 0.27
99 4 0.03
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (95 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCCTATCACATATATAC
Found at i:77209751 original size:28 final size:28
Alignment explanation
Indices: 77209688--77209869 Score: 321
Period size: 28 Copynumber: 6.5 Consensus size: 28
77209678 ATATTAAGTC
* *
77209688 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
77209715 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
77209743 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
77209771 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
77209799 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
77209827 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
77209855 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77209870 GTACAATTTA
Statistics
Matches: 150, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
27 21 0.14
28 129 0.86
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Done.