Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 341 of 373
Found at i:114071900 original size:18 final size:18
Alignment explanation
Indices: 114071877--114071948 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
114071867 TGGAGAGGGT
*
114071877 ATATATAATATAATAATA
1 ATATATAATAAAATAATA
114071895 ATATATACATGAGAAATAATA
1 ATATATA-AT-A-AAATAATA
* *
114071916 ATAATATAA-ATAATAGTA
1 AT-ATATAATAAAATAATA
*
114071934 A-AAATAATAAAATAA
1 ATATATAATAAAATAA
114071949 AAAAAATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
16 5 0.12
17 5 0.12
18 14 0.33
19 3 0.07
20 1 0.02
21 10 0.23
22 5 0.12
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (18 bp):
ATATATAATAAAATAATA
Found at i:114071939 original size:24 final size:26
Alignment explanation
Indices: 114071886--114071949 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 26
114071876 TATATATAAT
114071886 ATAATAATAATAT--ATACATGAGAA
1 ATAATAATAATATAAATACATGAGAA
114071910 ATAATAATAATATAAATA-AT-AGTAA
1 ATAATAATAATATAAATACATGAG-AA
*
114071935 A-AATAATAAAATAAA
1 ATAATAATAATATAAA
114071950 AAAAATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
24 28 0.78
25 5 0.14
26 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (26 bp):
ATAATAATAATATAAATACATGAGAA
Found at i:114071945 original size:9 final size:9
Alignment explanation
Indices: 114071908--114071957 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
114071898 TATACATGAG
114071908 AAATAATAA
1 AAATAATAA
*
114071917 TAAT-ATAA
1 AAATAATAA
*
114071925 ATAATAGTAA
1 A-AATAATAA
114071935 AAATAAT-A
1 AAATAATAA
*
114071943 AAATAAAAA
1 AAATAATAA
114071952 AAATAA
1 AAATAA
114071958 AACAAAGCTC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
8 11 0.33
9 18 0.55
10 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (9 bp):
AAATAATAA
Found at i:114072468 original size:30 final size:30
Alignment explanation
Indices: 114072434--114072515 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
114072424 GATGGTGTAG
* *
114072434 GTGCAAGTGGGAGACAAGGTGGTGGAGTAA
1 GTGCAAGTAGGAGGCAAGGTGGTGGAGTAA
*
114072464 GTGCAAGTAGGAGGCAAGGTGGTGGAGTAG
1 GTGCAAGTAGGAGGCAAGGTGGTGGAGTAA
114072494 GTGCAAGTAGGAGGCAAGGTGG
1 GTGCAAGTAGGAGGCAAGGTGG
114072516 CTAGGGTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.28, C:0.07, G:0.49, T:0.16
Consensus pattern (30 bp):
GTGCAAGTAGGAGGCAAGGTGGTGGAGTAA
Found at i:114073827 original size:21 final size:20
Alignment explanation
Indices: 114073794--114073832 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
114073784 ATTTTATCCT
114073794 TTAATATTATTATAATAATA
1 TTAATATTATTATAATAATA
*
114073814 TTAATTTTAATTATAATAA
1 TTAATATT-ATTATAATAA
114073833 CAATCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAATATTATTATAATAATA
Found at i:114073841 original size:21 final size:21
Alignment explanation
Indices: 114073802--114073841 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
114073792 CTTTAATATT
* *
114073802 ATTATAATAATATTAATTTTA
1 ATTATAATAACAATAATTTTA
*
114073823 ATTATAATAACAATCATTT
1 ATTATAATAACAATAATTT
114073842 AAAACACGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTATAATAACAATAATTTTA
Found at i:114080487 original size:27 final size:27
Alignment explanation
Indices: 114080457--114080531 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
114080447 GACTTGCACT
* *
114080457 TGTAGTGCCCAGAGGAAAAG-TCTTAGC
1 TGTAGTGCCCA-AAGAAAAGCTCATAGC
* *
114080484 TGTAGTGCACAAAGAAAAGCTCATAGT
1 TGTAGTGCCCAAAGAAAAGCTCATAGC
**
114080511 TGTAGTGCCTGAAGAAAAGCT
1 TGTAGTGCCCAAAGAAAAGCT
114080532 TGGAGTTGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 7 0.17
27 33 0.82
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.23
Consensus pattern (27 bp):
TGTAGTGCCCAAAGAAAAGCTCATAGC
Found at i:114080538 original size:27 final size:27
Alignment explanation
Indices: 114080508--114080567 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
114080498 AAAAGCTCAT
*
114080508 AGTTGTAGTGCCTGAAGAAAAGCTTGG
1 AGTTGTAGTGCCTGAACAAAAGCTTGG
* * * *
114080535 AGTTGTAGTTCCTGGACTAAAGCTTGT
1 AGTTGTAGTGCCTGAACAAAAGCTTGG
114080562 AGTTGT
1 AGTTGT
114080568 GCTGATTGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (27 bp):
AGTTGTAGTGCCTGAACAAAAGCTTGG
Found at i:114087688 original size:32 final size:32
Alignment explanation
Indices: 114087652--114087717 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
114087642 ATGTTTTGGG
*
114087652 TTAGTTATTCGAAATGCTAAAGCGGAGGTTAT
1 TTAGTTATTCAAAATGCTAAAGCGGAGGTTAT
*
114087684 TTAGTTATTCAAAATGCTTAAGCGGAGGTTAT
1 TTAGTTATTCAAAATGCTAAAGCGGAGGTTAT
114087716 TT
1 TT
114087718 GCTCAAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGTTATTCAAAATGCTAAAGCGGAGGTTAT
Found at i:114089155 original size:16 final size:17
Alignment explanation
Indices: 114089125--114089157 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
114089115 TTCATAAGTA
114089125 TATATCAATTATTTCAT
1 TATATCAATTATTTCAT
114089142 TATATCAA-TATTTCAT
1 TATATCAATTATTTCAT
114089158 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATCAATTATTTCAT
Found at i:114089497 original size:46 final size:46
Alignment explanation
Indices: 114089445--114089717 Score: 361
Period size: 46 Copynumber: 5.9 Consensus size: 46
114089435 TTGACATGAA
* * * *
114089445 GCCATGGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTT
* * * *
114089491 GCCATGGTATTTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTT
* * * *
114089537 GCCATGGTATCTTTCAACCCTGGTCTTATTCATTTTC-CATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTT
*
114089583 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTT
* *
114089629 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTT
* *
114089675 GCCATGCTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
114089718 AGAGCACACT
Statistics
Matches: 206, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
45 8 0.04
46 194 0.94
47 4 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTT
Found at i:114101527 original size:12 final size:12
Alignment explanation
Indices: 114101510--114101534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114101500 AAGATTAGAC
114101510 AATAAAGAAGAT
1 AATAAAGAAGAT
114101522 AATAAAGAAGAT
1 AATAAAGAAGAT
114101534 A
1 A
114101535 GACGGAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AATAAAGAAGAT
Found at i:114112440 original size:19 final size:19
Alignment explanation
Indices: 114112416--114112464 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
114112406 ATCATTTTCT
*
114112416 ATAAATTATTTCTAGAAAA
1 ATAAATTATTTATAGAAAA
114112435 ATAAATTATTTATAGAAAA
1 ATAAATTATTTATAGAAAA
* *
114112454 GTAAATCATTT
1 ATAAATTATTT
114112465 TTCAGAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (19 bp):
ATAAATTATTTATAGAAAA
Found at i:114114642 original size:9 final size:9
Alignment explanation
Indices: 114114630--114114654 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
114114620 TACCAATTTG
114114630 TAAAATTAT
1 TAAAATTAT
114114639 TAAAATTAT
1 TAAAATTAT
114114648 TAAAATT
1 TAAAATT
114114655 TTTTAAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAAAATTAT
Found at i:114127053 original size:3 final size:3
Alignment explanation
Indices: 114127040--114127111 Score: 128
Period size: 3 Copynumber: 24.3 Consensus size: 3
114127030 TCGATTTTAC
114127040 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
114127087 TGT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
114127112 CCTAATATAT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:114127754 original size:3 final size:3
Alignment explanation
Indices: 114127746--114127796 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
114127736 CTATCATTGC
*
114127746 ATT ATT ATT ATT ATT AATT ATT ATT ATT ATT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
114127792 TTT AT
1 ATT AT
114127797 CATTGTTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:114132044 original size:30 final size:29
Alignment explanation
Indices: 114131977--114132069 Score: 105
Period size: 29 Copynumber: 3.1 Consensus size: 29
114131967 TGTAATCCAC
*
114131977 ACGGGCTGGAAACATGGCCGTGTGAGCCA
1 ACGGGCTGGAAACAAGGCCGTGTGAGCCA
* *
114132006 ACGGGCTGGAAATAAGGCCGTGTGATCCA
1 ACGGGCTGGAAACAAGGCCGTGTGAGCCA
* * * *
114132035 TATGGGCTGGACACACGGCCATGTGAGCCA
1 -ACGGGCTGGAAACAAGGCCGTGTGAGCCA
114132065 GACGG
1 -ACGG
114132070 ATTAGACACA
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 26 0.50
30 26 0.50
ACGTcount: A:0.25, C:0.24, G:0.37, T:0.15
Consensus pattern (29 bp):
ACGGGCTGGAAACAAGGCCGTGTGAGCCA
Found at i:114134389 original size:42 final size:42
Alignment explanation
Indices: 114134332--114134421 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
114134322 CATTCATAAG
* *
114134332 GAAGAT-GGTACTCTAATTGTCACAAAACATTGTACTGGCCT
1 GAAGATCGGCACTCTAATTGTCACAAAACATTGTACTGACCT
114134373 GAAGATCGGCACTCTAATTGTCACAAAACATTGTACTGACCT
1 GAAGATCGGCACTCTAATTGTCACAAAACATTGTACTGACCT
114134415 GAAGATC
1 GAAGATC
114134422 CTTACTTGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 6 0.13
42 40 0.87
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (42 bp):
GAAGATCGGCACTCTAATTGTCACAAAACATTGTACTGACCT
Found at i:114151828 original size:33 final size:34
Alignment explanation
Indices: 114151791--114151936 Score: 92
Period size: 33 Copynumber: 4.4 Consensus size: 34
114151781 TACCCAAATG
*
114151791 GTACAACTTGAAAAGGTTATGTACACTCT-GTGT
1 GTACAACTTGAAAAGGTAATGTACACTCTAGTGT
* * *
114151824 GTAC-ACTTGGAAAAGGTTAGGTATACT-TAGTGT
1 GTACAACTT-GAAAAGGTAATGTACACTCTAGTGT
* * * * *
114151857 ATACTA-TATGAAAAGGAAATGTATACT-TTGTGT
1 GTACAACT-TGAAAAGGTAATGTACACTCTAGTGT
* * *
114151890 GTACCACTTGGAAAGG-AATGTACAC-CTCA-AGT
1 GTACAACTTGAAAAGGTAATGTACACTCT-AGTGT
*
114151922 GTACAACTGGAAAAG
1 GTACAACTTGAAAAG
114151937 AAAAGGTACA
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
32 28 0.31
33 59 0.66
34 3 0.03
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (34 bp):
GTACAACTTGAAAAGGTAATGTACACTCTAGTGT
Found at i:114152152 original size:17 final size:17
Alignment explanation
Indices: 114152130--114152164 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
114152120 AATTACTTGA
114152130 TGAACATAAATGGTAAG
1 TGAACATAAATGGTAAG
114152147 TGAACATAAATGGTAAG
1 TGAACATAAATGGTAAG
114152164 T
1 T
114152165 TTATTTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.26
Consensus pattern (17 bp):
TGAACATAAATGGTAAG
Found at i:114155749 original size:26 final size:26
Alignment explanation
Indices: 114155718--114155825 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
114155708 TGAAATGCCC
114155718 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
114155744 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
114155770 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
114155796 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
114155822 ATCA
1 ATCA
114155826 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:114161250 original size:25 final size:27
Alignment explanation
Indices: 114161213--114161265 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
114161203 TCAAACATGC
*
114161213 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
*
114161239 ATTTCGGT-AATTTAACTACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
114161265 A
1 A
114161266 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTACTAGGGGT
Found at i:114162783 original size:26 final size:26
Alignment explanation
Indices: 114162754--114162858 Score: 167
Period size: 26 Copynumber: 4.0 Consensus size: 26
114162744 AATGCCCATA
114162754 ATGGAACATTTACCTAAACCATTATC
1 ATGGAACATTTACCTAAACCATTATC
114162780 ATGGAACATTTACCT-AACCTATTATC
1 ATGGAACATTTACCTAAACC-ATTATC
* *
114162806 ATGGAATATTTACCTAATCCATTATC
1 ATGGAACATTTACCTAAACCATTATC
*
114162832 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAAACCATTATC
114162858 A
1 A
114162859 ATTTTACCAT
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 66 0.90
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATGGAACATTTACCTAAACCATTATC
Found at i:114168195 original size:16 final size:17
Alignment explanation
Indices: 114168163--114168195 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
114168153 TGAGTTCTAG
*
114168163 TAGCTATAAGGATTAAA
1 TAGCTATAAGAATTAAA
114168180 TAGCTAT-AGAATTAAA
1 TAGCTATAAGAATTAAA
114168196 AGTGACAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (17 bp):
TAGCTATAAGAATTAAA
Found at i:114175433 original size:39 final size:37
Alignment explanation
Indices: 114175363--114175499 Score: 112
Period size: 39 Copynumber: 3.5 Consensus size: 37
114175353 CACACCAGTA
* *
114175363 TGACACCCAGTGCCTCATCGGATAATTCGAAGCAATAGT
1 TGACACCCAGTGCCTCATCGGACAATCCGAAG-AA-AGT
* * * *
114175402 TGACACCCAGTGTCTCATCGGCCAAGCCGAAGTAAGT
1 TGACACCCAGTGCCTCATCGGACAATCCGAAGAAAGT
** * * *
114175439 TGGTACCCAGTACCTCATCGAATCTATCCGAAGTAACAGT
1 TGACACCCAGTGCCTCATCGGA-CAATCCGAAG-AA-AGT
*
114175479 ATGACACCCAGTGTCTCATCG
1 -TGACACCCAGTGCCTCATCG
114175500 ACTCGAGGGT
Statistics
Matches: 75, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
37 19 0.25
38 9 0.12
39 28 0.37
40 3 0.04
41 16 0.21
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (37 bp):
TGACACCCAGTGCCTCATCGGACAATCCGAAGAAAGT
Found at i:114187213 original size:128 final size:124
Alignment explanation
Indices: 114186940--114187267 Score: 388
Period size: 128 Copynumber: 2.6 Consensus size: 124
114186930 TATTTAATCC
* * * * ** *
114186940 AACGAAAAACCGAAACCCAGCACGGTAGGGCACGATTCCTCAAACTTCCAAACATTGAACATTTC
1 AACGAGAAATCGAAACCCAGCACGGTAGGGCACGATTCCT-GAATTTCCAAACATCAAAC-TTGC
* * * *
114187005 TTTGTTTTAGAATTTACAGAATACGAATAAAATTCTAAAGGAATATTCGATTATTTTGAACA
64 CTTG-TTTAGAATTTAAAAAACACGAATAAAATTCTAAAGGAATATTCGATTATTTTGAACA
*
114187067 AACGAGAAATCGAAACCCAGCACGATAGGGCACGATTCCCTGAATTTCCAAACATCAAACGTTGC
1 AACGAGAAATCGAAACCCAGCACGGTAGGGCACGATT-CCTGAATTTCCAAACATCAAAC-TTGC
* * * *
114187132 CTTGTTTAGAATTTGGAAAAAACACGAGTGAAATTCTAAAGGAATATTTGATTATTTTGTACA
64 CTTGTTTAGAATTT--AAAAAACACGAATAAAATTCTAAAGGAATATTCGATTATTTTGAACA
* *
114187195 AACGGGAAATCGAGACCCAGCACGGTAGGGCACGATTTTCC-GAATTTCCAAACATCAAAACTTG
1 AACGAGAAATCGAAACCCAGCACGGTAGGGCACGA--TTCCTGAATTTCCAAACATC-AAACTTG
114187259 CCTTCGTTT
63 CCTT-GTTT
114187268 TAAGGAATTC
Statistics
Matches: 174, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
126 10 0.06
127 55 0.32
128 97 0.56
129 10 0.06
130 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (124 bp):
AACGAGAAATCGAAACCCAGCACGGTAGGGCACGATTCCTGAATTTCCAAACATCAAACTTGCCT
TGTTTAGAATTTAAAAAACACGAATAAAATTCTAAAGGAATATTCGATTATTTTGAACA
Found at i:114192547 original size:24 final size:25
Alignment explanation
Indices: 114192512--114192588 Score: 140
Period size: 24 Copynumber: 3.2 Consensus size: 25
114192502 CATGAATTCC
114192512 ATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
114192537 ATCAT-GAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
114192561 ATCATGGAA-ATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
114192585 ATCA
1 ATCA
114192589 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
24 43 0.84
25 8 0.16
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (25 bp):
ATCATGGAACATTTACCTAACCATT
Found at i:114197960 original size:25 final size:27
Alignment explanation
Indices: 114197923--114197975 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
114197913 TCAAACATGC
*
114197923 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
*
114197949 ATTTCGGT-AATTTAACTACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
114197975 A
1 A
114197976 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTACTAGGGGT
Found at i:114199491 original size:26 final size:26
Alignment explanation
Indices: 114199462--114199566 Score: 167
Period size: 26 Copynumber: 4.0 Consensus size: 26
114199452 AATGCCCATA
114199462 ATGGAACATTTACCTAAACCATTATC
1 ATGGAACATTTACCTAAACCATTATC
114199488 ATGGAACATTTACCT-AACCTATTATC
1 ATGGAACATTTACCTAAACC-ATTATC
* *
114199514 ATGGAATATTTACCTAATCCATTATC
1 ATGGAACATTTACCTAAACCATTATC
*
114199540 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAAACCATTATC
114199566 A
1 A
114199567 ATTTTTACCA
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 66 0.90
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATGGAACATTTACCTAAACCATTATC
Found at i:114204905 original size:16 final size:17
Alignment explanation
Indices: 114204873--114204905 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
114204863 TGAGTTCTAG
*
114204873 TAGCTATAAGGATTAAA
1 TAGCTATAAGAATTAAA
114204890 TAGCTAT-AGAATTAAA
1 TAGCTATAAGAATTAAA
114204906 AGTGACAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (17 bp):
TAGCTATAAGAATTAAA
Found at i:114212380 original size:39 final size:37
Alignment explanation
Indices: 114212310--114212446 Score: 112
Period size: 39 Copynumber: 3.5 Consensus size: 37
114212300 CACACCAGTA
* *
114212310 TGACACCCAGTGCCTCATCGGATAATTCGAAGCAATAGT
1 TGACACCCAGTGCCTCATCGGACAATCCGAAG-AA-AGT
* * * *
114212349 TGACACCCAGTGTCTCATCGGCCAAGCCGAAGTAAGT
1 TGACACCCAGTGCCTCATCGGACAATCCGAAGAAAGT
** * * *
114212386 TGGTACCCAGTACCTCATCGAATCTATCCGAAGTAACAGT
1 TGACACCCAGTGCCTCATCGGA-CAATCCGAAG-AA-AGT
*
114212426 ATGACACCCAGTGTCTCATCG
1 -TGACACCCAGTGCCTCATCG
114212447 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
37 19 0.25
38 9 0.12
39 28 0.37
40 3 0.04
41 16 0.21
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (37 bp):
TGACACCCAGTGCCTCATCGGACAATCCGAAGAAAGT
Found at i:114213583 original size:19 final size:18
Alignment explanation
Indices: 114213559--114213608 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
114213549 TTATATTAAT
114213559 ATAATATAATAATAATTTA
1 ATAATATAATAAT-ATTTA
*
114213578 ATAATAAAAATAATATTTA
1 ATAAT-ATAATAATATTTA
* *
114213597 CTTATATAATAA
1 ATAATATAATAA
114213609 GTAAATAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 6 0.23
19 13 0.50
20 7 0.27
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATATAATAATATTTA
Found at i:114213795 original size:20 final size:21
Alignment explanation
Indices: 114213768--114213819 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
114213758 TAATCCTTAT
114213768 ACCTAATTAACCCTAACTC-AA
1 ACCTAATTAACCCTAAC-CAAA
*
114213789 A-CTAATTCA-CCTAACCAAA
1 ACCTAATTAACCCTAACCAAA
114213808 ACCTAATTAACC
1 ACCTAATTAACC
114213820 ACACAACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 1 0.04
19 9 0.35
20 14 0.54
21 2 0.08
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (21 bp):
ACCTAATTAACCCTAACCAAA
Found at i:114216140 original size:22 final size:22
Alignment explanation
Indices: 114216107--114216154 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 22
114216097 AATATTACAA
114216107 TAAATAATAAAATAAAATAAAATTC
1 TAAATAA-AAAAT-AAA-AAAATTC
114216132 TAAATAAAAAATAAAAAAATTC
1 TAAATAAAAAATAAAAAAATTC
114216154 T
1 T
114216155 TATTACAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.35
23 3 0.13
24 5 0.22
25 7 0.30
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAATAAAAAATAAAAAAATTC
Found at i:114224955 original size:23 final size:23
Alignment explanation
Indices: 114224925--114224970 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
114224915 CTTTAAGATC
114224925 AATGGTGTTTTTGACGATGCCAT
1 AATGGTGTTTTTGACGATGCCAT
114224948 AATGGTGTTTTTGACGATGCCAT
1 AATGGTGTTTTTGACGATGCCAT
114224971 TCGCCTTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (23 bp):
AATGGTGTTTTTGACGATGCCAT
Found at i:114228183 original size:13 final size:13
Alignment explanation
Indices: 114228160--114228194 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
114228150 TTTTTATCTC
114228160 ATTTTATTTTAGTT
1 ATTTTA-TTTAGTT
114228174 ATTTTATTTAGTT
1 ATTTTATTTAGTT
114228187 A-TTTATTT
1 ATTTTATTT
114228195 TCATAACCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.33
13 8 0.38
14 6 0.29
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
ATTTTATTTAGTT
Found at i:114229698 original size:33 final size:31
Alignment explanation
Indices: 114229661--114229732 Score: 74
Period size: 33 Copynumber: 2.2 Consensus size: 31
114229651 TTTGAAGACT
**
114229661 TTTATTTATTATTT-CTACCTTTTTACTTTTAT
1 TTTATTTATT-TTTACTTACTTTTTA-TTTTAT
*
114229693 CTTTATTTGTTTTTAACTTACTTTTTATTTTAT
1 -TTTATTTATTTTT-ACTTACTTTTTATTTTAT
114229726 TTTATTT
1 TTTATTT
114229733 CTCTTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 10 0.29
33 15 0.44
34 9 0.26
ACGTcount: A:0.18, C:0.10, G:0.01, T:0.71
Consensus pattern (31 bp):
TTTATTTATTTTTACTTACTTTTTATTTTAT
Found at i:114229751 original size:32 final size:33
Alignment explanation
Indices: 114229679--114229762 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 33
114229669 TTATTTCTAC
* *
114229679 CTTTTTACTTTTATCTTTATTTGTTTTTAACTTA
1 CTTTTTACTTTTATCTTTATTTCTCTTTAAC-TA
114229713 CTTTTTA-TTTTAT-TTTATTTCTCTTTAA-TA
1 CTTTTTACTTTTATCTTTATTTCTCTTTAACTA
*
114229743 CTAATTTTAC-TTCATCTTTA
1 CT--TTTTACTTTTATCTTTA
114229763 GGTTTTATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
30 4 0.09
32 22 0.51
33 10 0.23
34 7 0.16
ACGTcount: A:0.20, C:0.13, G:0.01, T:0.65
Consensus pattern (33 bp):
CTTTTTACTTTTATCTTTATTTCTCTTTAACTA
Found at i:114238779 original size:16 final size:15
Alignment explanation
Indices: 114238758--114238802 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
114238748 TAATCATATT
114238758 AATATTAAATTAATAA
1 AATATTAAATTAAT-A
*
114238774 AATATT-ATTTAGATA
1 AATATTAAATTA-ATA
114238789 AATATTAAATTAAT
1 AATATTAAATTAAT
114238803 TTTAATATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
AATATTAAATTAATA
Found at i:114238820 original size:61 final size:61
Alignment explanation
Indices: 114238751--114238884 Score: 223
Period size: 61 Copynumber: 2.2 Consensus size: 61
114238741 CTAGAATTAA
** * * *
114238751 TCATATTAATATTAAATTAATAAAATATTATTTAGATAAATATTAAATTAATTTTAATATC
1 TCATATTAATATTAAATTAATAAAATACCATCTAGATAAATATTAAAATAAATTTAATATC
114238812 TCATATTAATATTAAATTAATAAAATACCATCTAGATAAATATTAAAATAAATTTAATATC
1 TCATATTAATATTAAATTAATAAAATACCATCTAGATAAATATTAAAATAAATTTAATATC
114238873 TCATATTAATAT
1 TCATATTAATAT
114238885 CTAGATGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (61 bp):
TCATATTAATATTAAATTAATAAAATACCATCTAGATAAATATTAAAATAAATTTAATATC
Found at i:114238825 original size:30 final size:29
Alignment explanation
Indices: 114238751--114238884 Score: 106
Period size: 31 Copynumber: 4.4 Consensus size: 29
114238741 CTAGAATTAA
** *
114238751 TCATATTAATATTAAATTAATAAAATATTAT
1 TCATATTAATATTAAATTAATTTAATA-T-C
* * *
114238782 TTAGATAAATATTAAATTAATTTTAATATC
1 TCATATTAATATTAAATTAA-TTTAATATC
** *
114238812 TCATATTAATATTAAATTAATAAAATACC
1 TCATATTAATATTAAATTAATTTAATATC
* * *
114238841 ATCTAGATAAATATTAAAATAAATTTAATATC
1 -TC-ATATTAATATT-AAATTAATTTAATATC
114238873 TCATATTAATAT
1 TCATATTAATAT
114238885 CTAGATGAAT
Statistics
Matches: 79, Mismatches: 20, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
29 6 0.08
30 27 0.34
31 29 0.37
32 17 0.22
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (29 bp):
TCATATTAATATTAAATTAATTTAATATC
Found at i:114241846 original size:8 final size:7
Alignment explanation
Indices: 114241828--114241884 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 7
114241818 GCTTTCTCCG
114241828 TTCTTTCT
1 TTCTTT-T
114241836 TTCTCTTT
1 TTCT-TTT
114241844 TTCTTTT
1 TTCTTTT
114241851 TTCGTTTT
1 TTC-TTTT
114241859 GCTTCTTTGT
1 --TTCTTT-T
114241869 TTCTTTCT
1 TTCTTT-T
114241877 TTCTTTT
1 TTCTTTT
114241884 T
1 T
114241885 CTATTTCTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
7 8 0.19
8 26 0.60
9 5 0.12
10 4 0.09
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.75
Consensus pattern (7 bp):
TTCTTTT
Found at i:114246172 original size:32 final size:32
Alignment explanation
Indices: 114246128--114246191 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
114246118 TGCATATGTG
*
114246128 AATTTGCTTGCTTATTTGGTTGTATGGAAGTT
1 AATTGGCTTGCTTATTTGGTTGTATGGAAGTT
114246160 AATTGGCTTGCTTATTTGGTTGTATGGAAGTT
1 AATTGGCTTGCTTATTTGGTTGTATGGAAGTT
114246192 GGTTGTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.19, C:0.06, G:0.27, T:0.48
Consensus pattern (32 bp):
AATTGGCTTGCTTATTTGGTTGTATGGAAGTT
Found at i:114250039 original size:197 final size:198
Alignment explanation
Indices: 114249703--114250098 Score: 785
Period size: 197 Copynumber: 2.0 Consensus size: 198
114249693 ATACCTATCT
114249703 TAGTAATACATATTAAAACCATCAAAAATAATTAAGCGGCCTTATTACATTTAAAAGCCCAAAAT
1 TAGTAATACATATTAAAACCATCAAAAATAATTAAGCGGCCTTATTACATTTAAAAGCCCAAAAT
114249768 GTAAATAAAAGGATGTCCAGTTCACCAGAAGAAAATCAAACTTTCAGAACGGGTAGCCACTCCGA
66 GTAAATAAAAGGATGTCCAGTTCACCAGAAGAAAATCAAACTTTCAGAACGGGTAGCCACTCCGA
114249833 ATTCCCTCACAGCTCCAAGCCCACTATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGT
131 ATTCCCTCACAGCTCCAAGCCCACTATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGT
114249898 GAG
196 GAG
114249901 TAGTAATACATATTAAAACCATC-AAAATAATTAAGCGGCCTTATTACATTTAAAAGCCCAAAAT
1 TAGTAATACATATTAAAACCATCAAAAATAATTAAGCGGCCTTATTACATTTAAAAGCCCAAAAT
114249965 GTAAATAAAAGGATGTCCAGTTCACCAGAAGAAAATCAAACTTTCAGAACGGGTAGCCACTCCGA
66 GTAAATAAAAGGATGTCCAGTTCACCAGAAGAAAATCAAACTTTCAGAACGGGTAGCCACTCCGA
114250030 ATTCCCTCACAGCTCCAAGCCCACTATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGT
131 ATTCCCTCACAGCTCCAAGCCCACTATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGT
114250095 GAG
196 GAG
114250098 T
1 T
114250099 TTGGGGAAAC
Statistics
Matches: 198, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
197 175 0.88
198 23 0.12
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (198 bp):
TAGTAATACATATTAAAACCATCAAAAATAATTAAGCGGCCTTATTACATTTAAAAGCCCAAAAT
GTAAATAAAAGGATGTCCAGTTCACCAGAAGAAAATCAAACTTTCAGAACGGGTAGCCACTCCGA
ATTCCCTCACAGCTCCAAGCCCACTATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAGGGGT
GAG
Found at i:114252130 original size:26 final size:26
Alignment explanation
Indices: 114252091--114252198 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
114252081 TGAAATTCCC
* *
114252091 ATCATGGAAGATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
114252117 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
114252143 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
114252169 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
114252195 ATCA
1 ATCA
114252199 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:114252148 original size:52 final size:52
Alignment explanation
Indices: 114252091--114252198 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
114252081 TGAAATTCCC
114252091 ATCATGGAAGATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
1 ATCATGGAAGATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
* * *
114252143 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAAGATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
114252195 ATCA
1 ATCA
114252199 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGGAAGATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
Found at i:114252630 original size:18 final size:18
Alignment explanation
Indices: 114252607--114252665 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
114252597 AGATCAAAAT
114252607 ATTTATAAAAATTCTAAA
1 ATTTATAAAAATTCTAAA
** *
114252625 ATTTAT--ATCTTTTAAA
1 ATTTATAAAAATTCTAAA
*
114252641 AATTATAAAAATTCTAAA
1 ATTTATAAAAATTCTAAA
*
114252659 ATATATA
1 ATTTATA
114252666 TATAAAGAAA
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
16 12 0.40
18 18 0.60
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTATAAAAATTCTAAA
Found at i:114253449 original size:5 final size:5
Alignment explanation
Indices: 114253439--114253471 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
114253429 CTGTGTGTTC
114253439 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
114253472 TCACAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:114256861 original size:14 final size:14
Alignment explanation
Indices: 114256842--114256869 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
114256832 TAGCCATAAA
114256842 GATAAATATAGTTT
1 GATAAATATAGTTT
114256856 GATAAATATAGTTT
1 GATAAATATAGTTT
114256870 AAAAGTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
GATAAATATAGTTT
Found at i:114257338 original size:20 final size:20
Alignment explanation
Indices: 114257313--114257364 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
114257303 CTACTAGTGT
*
114257313 GAGTGTCAAAGACATCTTTG
1 GAGTGTCGAAGACATCTTTG
114257333 GAGTGTCGAAGACATCTTTG
1 GAGTGTCGAAGACATCTTTG
114257353 GAGTGTCGAAGA
1 GAGTGTCGAAGA
114257365 GGCTGAAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (20 bp):
GAGTGTCGAAGACATCTTTG
Found at i:114266848 original size:20 final size:19
Alignment explanation
Indices: 114266806--114266849 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
114266796 GGTCACCTAC
*
114266806 TAAAACATTTTGTTCCACT
1 TAAAACATTTTGTTCCACG
114266825 TAAAACAATTTTGGTT-CACG
1 TAAAAC-ATTTT-GTTCCACG
114266845 TAAAA
1 TAAAA
114266850 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 13 0.59
21 3 0.14
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (19 bp):
TAAAACATTTTGTTCCACG
Found at i:114275837 original size:3 final size:3
Alignment explanation
Indices: 114275829--114275912 Score: 59
Period size: 3 Copynumber: 28.0 Consensus size: 3
114275819 TTACTATATA
* * * *
114275829 TAT TAT TAT TAT TAT TAT TATT TAT TAT ATCT TAT TGT TCACA AAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT T-A-T TAT TAT
*
114275878 TAT TAT T-T TA- CAT TAT TAT T-T TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
114275913 AACTTACTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
2 7 0.11
3 50 0.79
4 6 0.10
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:114275894 original size:13 final size:13
Alignment explanation
Indices: 114275876--114275910 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
114275866 TTCACAAATT
114275876 ATTATTATTTTAC
1 ATTATTATTTTAC
*
114275889 ATTATTATTTTAT
1 ATTATTATTTTAC
114275902 ATTATTATT
1 ATTATTATT
114275911 ATAACTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTATTATTTTAC
Found at i:114276101 original size:12 final size:11
Alignment explanation
Indices: 114276084--114276125 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
114276074 ATATATAACA
114276084 TATATTATCTAT
1 TATATTAT-TAT
114276096 TATATTA-T-T
1 TATATTATTAT
114276105 TATATTATTCAT
1 TATATTATT-AT
114276117 TATATTATT
1 TATATTATT
114276126 TAAAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.30
10 2 0.07
12 17 0.63
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATTATTAT
Found at i:114276108 original size:21 final size:21
Alignment explanation
Indices: 114276084--114276127 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
114276074 ATATATAACA
114276084 TATATTA-TCTATTATATTATT
1 TATATTATTC-ATTATATTATT
114276105 TATATTATTCATTATATTATT
1 TATATTATTCATTATATTATT
114276126 TA
1 TA
114276128 AAATTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTATTCATTATATTATT
Found at i:114276589 original size:32 final size:29
Alignment explanation
Indices: 114276526--114276582 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
114276516 GTAGTACTCT
*
114276526 TTTTTGTATGTCATGCATTATTTTATTAC
1 TTTTTGTATATCATGCATTATTTTATTAC
*
114276555 TTTTTGTATATCATGCATTATTTAATTA
1 TTTTTGTATATCATGCATTATTTTATTA
114276583 TTACTTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.58
Consensus pattern (29 bp):
TTTTTGTATATCATGCATTATTTTATTAC
Found at i:114280222 original size:15 final size:15
Alignment explanation
Indices: 114280186--114280235 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
114280176 CGATATTCTT
114280186 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
114280200 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
114280216 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
114280229 TTTGCAT
1 TTTGCAT
114280236 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:114288606 original size:210 final size:210
Alignment explanation
Indices: 114288237--114288888 Score: 1081
Period size: 210 Copynumber: 3.1 Consensus size: 210
114288227 TAAGCTGCAG
*
114288237 CATAGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCGAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCGAAGATGACAGATCTTATCTCTC
* * **
114288302 TGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAACA
66 TGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACAATGAAGTA
* * * * *
114288367 AATCTAAGATGATTTGTCGTCTTTGTATTGTCAGAGAACAAATCGAAGTTTGGCATTTCCACTTT
131 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTC
* *
114288432 GATGGA-AGGCAGACA
196 AATAGAGA-GCAGACA
* *
114288447 CATAGCAGATTTCACCTTCAGATGTTTACGCTGAAGCAGATTGAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCGAAGATGACAGATCTTATCTCTC
*
114288512 TGTATTCGGCGGGGAGTAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACAATGAAGTA
66 TGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACAATGAAGTA
114288577 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTC
131 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTC
114288642 AATAGAGAGCAGACA
196 AATAGAGAGCAGACA
* *
114288657 CATAGCAAATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
1 CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCGAAGATGACAGATCTTATCTCTC
*
114288722 TGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCGCGTGTTTACAATGAAGTA
66 TGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACAATGAAGTA
* *
114288787 AATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGCCATCTCTACTTC
131 AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTC
*
114288852 AATAGAGAGCAGATA
196 AATAGAGAGCAGACA
* *
114288867 CATAGCAGATTTGACCTTCAGA
1 CATAGCAGATCTCACCTTCAGA
114288889 CGATTAGACT
Statistics
Matches: 414, Mismatches: 27, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
210 413 1.00
211 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (210 bp):
CATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCGAAGATGACAGATCTTATCTCTC
TGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGTTTACAATGAAGTA
AATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTC
AATAGAGAGCAGACA
Found at i:114293570 original size:13 final size:13
Alignment explanation
Indices: 114293530--114293573 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
114293520 GTTCACAAAT
*
114293530 TATTGTTATTTTA
1 TATTATTATTTTA
*
114293543 CATTATTATTTTA
1 TATTATTATTTTA
*
114293556 TATTATTATTGTA
1 TATTATTATTTTA
114293569 TATTA
1 TATTA
114293574 CTTGTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (13 bp):
TATTATTATTTTA
Found at i:114298733 original size:8 final size:8
Alignment explanation
Indices: 114298720--114298748 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
114298710 CCTATTAAAA
114298720 TTTTTTCT
1 TTTTTTCT
114298728 TTTTTTC-
1 TTTTTTCT
114298735 TTTTTTCT
1 TTTTTTCT
114298743 TTTTTT
1 TTTTTT
114298749 TTGTAATCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTCT
Found at i:114298740 original size:15 final size:15
Alignment explanation
Indices: 114298720--114298748 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
114298710 CCTATTAAAA
114298720 TTTTTTCTTTTTTTC
1 TTTTTTCTTTTTTTC
114298735 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
114298749 TTGTAATCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:114301976 original size:23 final size:23
Alignment explanation
Indices: 114301946--114301991 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
114301936 TAAGTATGAA
114301946 AAAAAAAATTACTTTGTTAAAAT
1 AAAAAAAATTACTTTGTTAAAAT
114301969 AAAAAAAATTACTTTGTTAAAAT
1 AAAAAAAATTACTTTGTTAAAAT
114301992 GACGATGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
AAAAAAAATTACTTTGTTAAAAT
Found at i:114303331 original size:27 final size:27
Alignment explanation
Indices: 114303280--114303331 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
114303270 GTTACTAAAA
* *
114303280 TTCTCTTTGAGTTTTCTTTTTAAGAAT
1 TTCTCTTTAAGTTTTCTTTTGAAGAAT
114303307 TTCTC-TTAAGTTTTCTTTTAGAAGA
1 TTCTCTTTAAGTTTTCTTTT-GAAGA
114303332 GTTTTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.56
Consensus pattern (27 bp):
TTCTCTTTAAGTTTTCTTTTGAAGAAT
Found at i:114307713 original size:25 final size:25
Alignment explanation
Indices: 114307666--114307720 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
114307656 GGCAACTTAT
** *
114307666 AGAATACACCACAAAGGTGTCATTC
1 AGAATACACCACAAAGGCATCATAC
* *
114307691 AGAATACGCCACGAAGGCATCATAC
1 AGAATACACCACAAAGGCATCATAC
114307716 AGAAT
1 AGAAT
114307721 CATGTATCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (25 bp):
AGAATACACCACAAAGGCATCATAC
Found at i:114316578 original size:19 final size:19
Alignment explanation
Indices: 114316556--114316623 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 19
114316546 AATGACATGA
114316556 AAATATAAAAAATAATAAG
1 AAATATAAAAAATAATAAG
*
114316575 AAATA-ATAAAAT-A-AAG
1 AAATATAAAAAATAATAAG
* *
114316591 AAA-ATAATAAATAATAAT
1 AAATATAAAAAATAATAAG
* *
114316609 AAAGATAATAAATAA
1 AAATATAAAAAATAA
114316624 AAAATTACGC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
15 1 0.02
16 11 0.27
17 2 0.05
18 11 0.27
19 16 0.39
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (19 bp):
AAATATAAAAAATAATAAG
Found at i:114316587 original size:27 final size:27
Alignment explanation
Indices: 114316555--114316628 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
114316545 AAATGACATG
114316555 AAAATATAAAAAATAATAAGA-AATAAT
1 AAAATATAAAAAATAATAA-ATAATAAT
114316582 AAAATA-AAGAAAATAATAAATAATAAT
1 AAAATATAA-AAAATAATAAATAATAAT
* * *
114316609 -AAAGATAATAAATAAAAAAT
1 AAAATATAAAAAATAATAAAT
114316629 TACGCAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 17 0.41
27 24 0.59
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (27 bp):
AAAATATAAAAAATAATAAATAATAAT
Found at i:114321064 original size:20 final size:20
Alignment explanation
Indices: 114321024--114321064 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
114321014 TGCTCTTGAT
*
114321024 GTACAAAAATAGATATTAGA
1 GTACAAAAATAGATATGAGA
114321044 GTACAAAAATAAGATA-GAGA
1 GTACAAAAAT-AGATATGAGA
114321064 G
1 G
114321065 AGAAGTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.56, C:0.05, G:0.20, T:0.20
Consensus pattern (20 bp):
GTACAAAAATAGATATGAGA
Found at i:114321261 original size:17 final size:16
Alignment explanation
Indices: 114321227--114321264 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
114321217 CTTTAAAACT
114321227 TAATAAAAGAAAAATA
1 TAATAAAAGAAAAATA
*
114321243 TAATAAGAGAAATAATA
1 TAATAAAAGAAA-AATA
114321260 TAATA
1 TAATA
114321265 TTTTTTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (16 bp):
TAATAAAAGAAAAATA
Found at i:114332675 original size:24 final size:24
Alignment explanation
Indices: 114332642--114332698 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
114332632 TATCAAAAAT
*
114332642 AATAAGAAATAATAA-AATAACGAG
1 AATAAAAAATAATAACAATAA-GAG
*
114332666 AATAAAAAATAATAACAATAATAG
1 AATAAAAAATAATAACAATAAGAG
114332690 -ATAAAAAAT
1 AATAAAAAAT
114332699 TACGCAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 9 0.30
24 16 0.53
25 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.07, T:0.19
Consensus pattern (24 bp):
AATAAAAAATAATAACAATAAGAG
Found at i:114332934 original size:12 final size:13
Alignment explanation
Indices: 114332897--114332926 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
114332887 GTAAATAAAT
*
114332897 AAAATAATACATA
1 AAAATAATATATA
114332910 AAAATAATATATA
1 AAAATAATATATA
114332923 AAAA
1 AAAA
114332927 AATCTATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATAATATATA
Found at i:114334350 original size:30 final size:31
Alignment explanation
Indices: 114334314--114334373 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
114334304 GTGGCCTGGA
*
114334314 ACATGGCCGTGTGGCAAGCCCGTG-GGGATC
1 ACATGGCCATGTGGCAAGCCCGTGTGGGATC
* *
114334344 ACATGGCCATGTGGCCAGCTCGTGTGGGAT
1 ACATGGCCATGTGGCAAGCCCGTGTGGGAT
114334374 TCTGACTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.17, C:0.25, G:0.38, T:0.20
Consensus pattern (31 bp):
ACATGGCCATGTGGCAAGCCCGTGTGGGATC
Found at i:114335469 original size:53 final size:54
Alignment explanation
Indices: 114335403--114335561 Score: 164
Period size: 54 Copynumber: 3.0 Consensus size: 54
114335393 TTACCACTTC
* * *
114335403 TCTGATGCTATAGCCCAGCTATGGTCTTATA-TAGA-TCGCTTGTATCACTT-TAA
1 TCTGATGCCATAGCCCAGCTATGGTCTTATACGAGAGTCAC-T-TATCACTTGTAA
* * **
114335456 TCTGAAGCCATAGCCCAGCTATGGTCTTGTACGAGAGTCACTTATCACTTGTTT
1 TCTGATGCCATAGCCCAGCTATGGTCTTATACGAGAGTCACTTATCACTTGTAA
* * * *
114335510 TCCGATTCCATAGCCCAGCTATGGTCTTATAC-AGAAATCGCTTATCACTTGT
1 TCTGATGCCATAGCCCAGCTATGGTCTTATACGAG-AGTCACTTATCACTTGT
114335562 TGCCATGGTC
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
53 38 0.43
54 48 0.54
55 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
TCTGATGCCATAGCCCAGCTATGGTCTTATACGAGAGTCACTTATCACTTGTAA
Found at i:114349844 original size:37 final size:37
Alignment explanation
Indices: 114349794--114349868 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
114349784 CGTCTTTGCC
114349794 TTGAGTATTTATGGTTTCGTAATCTTTCCTAAAACTT
1 TTGAGTATTTATGGTTTCGTAATCTTTCCTAAAACTT
114349831 TTGAGTATTTATGGTTTCGTAATCTTTCCTAAAACTT
1 TTGAGTATTTATGGTTTCGTAATCTTTCCTAAAACTT
114349868 T
1 T
114349869 AAGGCATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.49
Consensus pattern (37 bp):
TTGAGTATTTATGGTTTCGTAATCTTTCCTAAAACTT
Found at i:114352710 original size:27 final size:27
Alignment explanation
Indices: 114352653--114352716 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
114352643 TATTATCTCT
*
114352653 TTTTATTAT-TCATTATATTATTTTTA
1 TTTTATTATGTCATTATATTATTATTA
* *
114352679 TTTTACTATGTCATTTTATTATTAATTA
1 TTTTATTATGTCATTATATTATT-ATTA
114352707 -TTTATTATGT
1 TTTTATTATGT
114352717 ATAATTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.25
27 21 0.66
28 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTATTATGTCATTATATTATTATTA
Found at i:114368369 original size:45 final size:45
Alignment explanation
Indices: 114368320--114368647 Score: 239
Period size: 45 Copynumber: 7.3 Consensus size: 45
114368310 GTAGATCACT
*
114368320 GATAGCAGATTTGGCGTCTCTGTATTAGA-CGGGGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTAGATC-GGGAGCAGATCGAA
* * * * *
114368365 GATAGCAGATCTGACAT-TCATGTGTTTAAATC-GAAG-AGATCGAA
1 GATAGCAGATTTGGCATCTC-TGT-ATTAGATCGGGAGCAGATCGAA
114368409 GAT-GACAGATTTGGCATCTCTGTATTAGA-CAGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCATCTCTGTATTAGATC-GGGAGCAGATCGAA
* * * * *
114368454 GATAGCAGATCTGACAT-TCGTGTGTTTACATC-GAAGCAGATCGAA
1 GATAGCAGATTTGGCATCTC-TGT-ATTAGATCGGGAGCAGATCGAA
* * **
114368499 GAT-GACAGATTTGGCGTCTCTGTATTAGATGGGGGATTAGATCGAA
1 GATAG-CAGATTTGGCATCTCTGTATTAGAT-CGGGAGCAGATCGAA
* * ** * * *
114368545 GATAGAAGATCTAACATTCGCGTGT-TTACATC-GAAGCAGATCGAA
1 GATAGCAGATTTGGCA-TCTC-TGTATTAGATCGGGAGCAGATCGAA
* * *
114368590 GATAACAGATTTGGCGTCTCTGTATTAGA-CAGGGAGAAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTAGATC-GGGAGCAGATCGAA
114368635 GATAGCAGATTTG
1 GATAGCAGATTTG
114368648 ACATTCGAAG
Statistics
Matches: 214, Mismatches: 47, Indels: 44
0.70 0.15 0.14
Matches are distributed among these distances:
42 1 0.00
43 9 0.04
44 44 0.21
45 116 0.54
46 30 0.14
47 11 0.05
48 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (45 bp):
GATAGCAGATTTGGCATCTCTGTATTAGATCGGGAGCAGATCGAA
Found at i:114368575 original size:91 final size:90
Alignment explanation
Indices: 114368325--114368654 Score: 518
Period size: 91 Copynumber: 3.7 Consensus size: 90
114368315 TCACTGATAG
*
114368325 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCATGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
*
114368390 TTAAATCGAAG-AGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* *
114368414 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
114368479 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* ** * * *
114368504 CAGATTTGGCGTCTCTGTATTAGATGGGGGATTAGATCGAAGATAGAAGATCTAACATTCGCGTG
1 CAGATTTGGCGTCTCTGTATTAGA-CGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTG
*
114368569 TTTACATCGAAGCAGATCGAAGATAA
65 TTTACATCGAAGCAGATCGAAGATGA
* * *
114368595 CAGATTTGGCGTCTCTGTATTAGACAGGGAGAAGATCGAAGATAGCAGATTTGACATTCG
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
114368655 AAGCAGATCA
Statistics
Matches: 219, Mismatches: 20, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
89 72 0.33
90 65 0.30
91 82 0.37
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (90 bp):
CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
TTACATCGAAGCAGATCGAAGATGA
Found at i:114368658 original size:77 final size:77
Alignment explanation
Indices: 114368575--114368721 Score: 267
Period size: 77 Copynumber: 1.9 Consensus size: 77
114368565 CGTGTTTACA
*
114368575 TCGAAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGAAGATCGAAGATAG
1 TCGAAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGAAGATCGAAGATAG
114368640 CAGATTTGACAT
66 CAGATTTGACAT
* *
114368652 TCGAAGCAGATCAAAGATAACAGATTTGGCGTCTTTGTATTAGACAGGGAGCAGATCGAAGATAG
1 TCGAAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGAAGATCGAAGATAG
114368717 CAGAT
66 CAGAT
114368722 CTAATATTCG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 67 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.23
Consensus pattern (77 bp):
TCGAAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACAGGGAGAAGATCGAAGATAG
CAGATTTGACAT
Found at i:114368798 original size:45 final size:45
Alignment explanation
Indices: 114368654--114368890 Score: 144
Period size: 45 Copynumber: 5.3 Consensus size: 45
114368644 TTTGACATTC
* * * *
114368654 GAAGCAGATCAAAGATAACAGATTTGGCGTCTTTGTATTAGACAGG
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGA-TGG
***** * * *
114368700 G-AGCAGATCGAAGAT-AGCAGATCTAATATTCGTATGT-TTACAT-C
1 GAAGCAGATCGAAGATGA-CAGAT-TTGGCGTC-TCTGTATTAGATGG
* *
114368744 GAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTAATAGATGG
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGATGG
* * ** * * * * * *
114368789 GGAGCAGATCAAAGAAAACAGATCTGACAT-TCGTGTGTTTACAT-C
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTC-TGT-ATTAGATGG
* *
114368834 GAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGG
1 GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGATGG
114368879 GAAGCAGATCGA
1 GAAGCAGATCGA
114368891 GGATAGCAGA
Statistics
Matches: 135, Mismatches: 45, Indels: 23
0.67 0.22 0.11
Matches are distributed among these distances:
43 4 0.03
44 15 0.11
45 97 0.72
46 15 0.11
47 4 0.03
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (45 bp):
GAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGATGG
Found at i:114368901 original size:90 final size:89
Alignment explanation
Indices: 114368652--114368904 Score: 362
Period size: 90 Copynumber: 2.8 Consensus size: 89
114368642 GATTTGACAT
* * * *
114368652 TCGAAGCAGATCAAAGATAACAGATTTGGCGTCTTTGTATTAGACAGGGAGCAGATCGAAGATAG
1 TCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGAC-GGGAGCAGATCGAAGATAG
*
114368717 CAGATCTAATATTCGTATGTTTACA
65 CAGATCTAACATTCGTATGTTTACA
* * * * *
114368742 TCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTAATAGATGGGGAGCAGATCAAAGAAAA
1 TCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGA-CGGGAGCAGATCGAAGATAG
* *
114368807 CAGATCTGACATTCGTGTGTTTACA
65 CAGATCTAACATTCGTATGTTTACA
*
114368832 TCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGAAGCAGATCGAGGATAG
1 TCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGG-AGCAGATCGAAGATAG
114368897 CAGATCTA
65 CAGATCTA
114368905 TAACACCCCA
Statistics
Matches: 142, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
89 3 0.02
90 139 0.98
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (89 bp):
TCGAAGTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGAGCAGATCGAAGATAGC
AGATCTAACATTCGTATGTTTACA
Found at i:114373448 original size:20 final size:19
Alignment explanation
Indices: 114373425--114373497 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
114373415 TATGTAAAAA
114373425 TTATTATATATTATATCTTT
1 TTATTAT-TATTATATCTTT
*
114373445 TTATTATTAATTATATTATTT
1 TTATTATT-ATTATA-TCTTT
* *
114373466 TTATT-TTACTATATCATT
1 TTATTATTATTATATCTTT
114373484 TTATTATTAATTAT
1 TTATTATT-ATTAT
114373498 TTATTATGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 8 0.18
19 8 0.18
20 19 0.43
21 9 0.20
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATTATTATATCTTT
Found at i:114373484 original size:19 final size:21
Alignment explanation
Indices: 114373436--114373493 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 21
114373426 TATTATATAT
*
114373436 TATATC-TTTTTATTATTAAT
1 TATATCATTTTTATTATTAAC
*
114373456 TATATTATTTTTATT-TT-AC
1 TATATCATTTTTATTATTAAC
114373475 TATATCA-TTTTATTATTAA
1 TATATCATTTTTATTATTAA
114373494 TTATTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 7 0.22
19 9 0.28
20 8 0.25
21 8 0.25
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (21 bp):
TATATCATTTTTATTATTAAC
Found at i:114373657 original size:23 final size:25
Alignment explanation
Indices: 114373616--114373672 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
114373606 TGTTCCTATT
*
114373616 TAATATATTAATATTTTATA-AATA
1 TAATATATTAATATATTATATAATA
*
114373640 T-ATATATTAAGT-TATTATATCATA
1 TAATATATTAA-TATATTATATAATA
114373664 TAATATATT
1 TAATATATT
114373673 TTTATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 15 0.54
24 6 0.21
25 7 0.25
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
TAATATATTAATATATTATATAATA
Found at i:114378260 original size:16 final size:16
Alignment explanation
Indices: 114378239--114378269 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
114378229 GCAAGATTCC
*
114378239 GGTGCCGAAATTATCA
1 GGTGCCAAAATTATCA
114378255 GGTGCCAAAATTATC
1 GGTGCCAAAATTATC
114378270 CAAAGCTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (16 bp):
GGTGCCAAAATTATCA
Found at i:114382582 original size:61 final size:62
Alignment explanation
Indices: 114382487--114382605 Score: 195
Period size: 61 Copynumber: 1.9 Consensus size: 62
114382477 AAGGAAAGAT
*
114382487 GCCAAAGTGAAAACCCACAAAGGGCTCTTTGAGACCTTCAAAAAAAAGAAAAA-AAAATAGG
1 GCCAAAGTGAAAACCCACAAAGGGCACTTTGAGACCTTCAAAAAAAAGAAAAATAAAATAGG
* * *
114382548 GCCAAAGTGAAAACCTACAAAGGGCACTTTGAGACTTTCAAAAAAAATAAAAATAAAA
1 GCCAAAGTGAAAACCCACAAAGGGCACTTTGAGACCTTCAAAAAAAAGAAAAATAAAA
114382606 AATAAAAAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
61 49 0.92
62 4 0.08
ACGTcount: A:0.52, C:0.17, G:0.16, T:0.15
Consensus pattern (62 bp):
GCCAAAGTGAAAACCCACAAAGGGCACTTTGAGACCTTCAAAAAAAAGAAAAATAAAATAGG
Found at i:114382606 original size:7 final size:7
Alignment explanation
Indices: 114382589--114382621 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
114382579 AGACTTTCAA
114382589 AAAAAAT
1 AAAAAAT
114382596 -AAAAAT
1 AAAAAAT
114382602 AAAAAAT
1 AAAAAAT
114382609 AAAAAGAT
1 AAAAA-AT
114382617 AAAAA
1 AAAAA
114382622 TGAAAGGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:114382620 original size:13 final size:13
Alignment explanation
Indices: 114382589--114382622 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
114382579 AGACTTTCAA
*
114382589 AAAAAATAAAAAT
1 AAAAAATAAAAAG
114382602 AAAAAATAAAAAG
1 AAAAAATAAAAAG
114382615 ATAAAAAT
1 A-AAAAAT
114382623 GAAAGGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAG
Found at i:114384125 original size:44 final size:43
Alignment explanation
Indices: 114383899--114384217 Score: 162
Period size: 44 Copynumber: 7.1 Consensus size: 43
114383889 AGCCACTAGC
* * * *
114383899 CTTATCTCCCTGAGGTAGCAAGCGAGCAGGCTAATGATTGTAGT
1 CTTATCT-TCTGAGGTAGCAAGGGAGTAGACTAATGATTGTAGT
* *
114383943 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGAT
1 CTTATCTT-CTGAGGTAGCAAGGGAGTAGACTAATGATTGTAG-T
* ** * * * *
114383988 CTTGT-TTCCCTGAAATAGC-AGTGGAGTAGATCGAA-GATGGCGAAT
1 CTTATCTT--CTGAGGTAGCAAG-GGAGTAGA-CTAATGATTG-TAGT
* * ** **** *
114384033 CTTATCTTCCCGAGGTAGCAAGGGAGTA-AATTTTAGCCACTAGC
1 CTTATCTT-CTGAGGTAGCAAGGGAGTAGACTAAT-GATTGTAGT
*
114384077 CTTATCTCTCTGAGGTAGCAAGGGAGTAGGCTAATGATTGTAGT
1 CTTATCT-TCTGAGGTAGCAAGGGAGTAGACTAATGATTGTAGT
* *
114384121 CTTATCTTCTTGAGGTAGCAAGGGAGCAGATTGATGATTCAGATTGTAGT
1 CTTATCTTC-TGAGGTAGCAAGGGAGTAGACT-A--A-T--GATTGTAGT
* ** *
114384171 CTCATCTTCCTGAGGTAGCAAGGGAACAGACTGATGA-TGTAGAT
1 CTTATCTT-CTGAGGTAGCAAGGGAGTAGACTAATGATTGTAG-T
114384215 CTT
1 CTT
114384218 GTATCCTTGA
Statistics
Matches: 209, Mismatches: 45, Indels: 42
0.71 0.15 0.14
Matches are distributed among these distances:
43 7 0.03
44 104 0.50
45 49 0.23
46 9 0.04
47 2 0.01
48 1 0.00
50 36 0.17
51 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
CTTATCTTCTGAGGTAGCAAGGGAGTAGACTAATGATTGTAGT
Found at i:114384187 original size:50 final size:50
Alignment explanation
Indices: 114384112--114384208 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
114384102 GTAGGCTAAT
* * * *
114384112 GATTGTAGTCTTATCTTCTTGAGGTAGCAAGGGAGCAGATTGATGATTCA
1 GATTGTAGTCTCATCTTCCTGAGGTAGCAAGGGAACAGACTGATGATTCA
114384162 GATTGTAGTCTCATCTTCCTGAGGTAGCAAGGGAACAGACTGATGAT
1 GATTGTAGTCTCATCTTCCTGAGGTAGCAAGGGAACAGACTGATGAT
114384209 GTAGATCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (50 bp):
GATTGTAGTCTCATCTTCCTGAGGTAGCAAGGGAACAGACTGATGATTCA
Found at i:114385990 original size:27 final size:27
Alignment explanation
Indices: 114385960--114386016 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
114385950 TATACCATTC
* *
114385960 ATTTTAAATTATTTTTATATATTATTT
1 ATTTTAAATTATTTTAATATAATATTT
** *
114385987 ATTTTAGCTTGTTTTAATATAATATTT
1 ATTTTAAATTATTTTAATATAATATTT
114386014 ATT
1 ATT
114386017 AAAGTTTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (27 bp):
ATTTTAAATTATTTTAATATAATATTT
Found at i:114386025 original size:27 final size:27
Alignment explanation
Indices: 114385971--114386029 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
114385961 TTTTAAATTA
* * **
114385971 TTTTTATATATTATTTATTTTAGCTTG
1 TTTTAATATAATATTTATTAAAGCTTG
*
114385998 TTTTAATATAATATTTATTAAAGTTTG
1 TTTTAATATAATATTTATTAAAGCTTG
114386025 TTTTA
1 TTTTA
114386030 CTATTATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.63
Consensus pattern (27 bp):
TTTTAATATAATATTTATTAAAGCTTG
Found at i:114387944 original size:24 final size:24
Alignment explanation
Indices: 114387916--114387961 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
114387906 CTATTAAAAT
114387916 GTGATTGATAATTAATCATTAACG
1 GTGATTGATAATTAATCATTAACG
* *
114387940 GTGATTGGTTATTAATCATTAA
1 GTGATTGATAATTAATCATTAA
114387962 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (24 bp):
GTGATTGATAATTAATCATTAACG
Found at i:114393304 original size:31 final size:29
Alignment explanation
Indices: 114393245--114393304 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
114393235 CAACAAAAAC
* *
114393245 CAGCAAATATAGCATGAAATGCAACCAAA
1 CAGCAAATATAGCATAAAATACAACCAAA
*
114393274 CAGCAAATTTAGCATACAAAATACAACCAAA
1 CAGCAAATATAGCAT--AAAATACAACCAAA
114393305 AACATAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 14 0.54
31 12 0.46
ACGTcount: A:0.53, C:0.22, G:0.10, T:0.15
Consensus pattern (29 bp):
CAGCAAATATAGCATAAAATACAACCAAA
Found at i:114394008 original size:13 final size:14
Alignment explanation
Indices: 114393982--114394010 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
114393972 CCTAACGATG
114393982 AATTAAACCATTAT
1 AATTAAACCATTAT
114393996 AATTAAA-CATTAT
1 AATTAAACCATTAT
114394009 AA
1 AA
114394011 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:114399255 original size:52 final size:48
Alignment explanation
Indices: 114399188--114399339 Score: 171
Period size: 43 Copynumber: 3.3 Consensus size: 48
114399178 GCAAGCTATG
*
114399188 ATATGATATAAATTTATATAAGGTATGTATTATGTAAGTTTTGTAAGTTATT
1 ATATGATATATA-TTATAT-A--TATGTATTATGTAAGTTTTGTAAGTTATT
*
114399240 ATATG--ATATA-TAT-T-TATGTATTATGTAAGTTTTGTAAATTATT
1 ATATGATATATATTATATATATGTATTATGTAAGTTTTGTAAGTTATT
*
114399283 ATATGACATATATT-TATATAT-TA-TA--TAAGTTTTGTAAGTTATT
1 ATATGATATATATTATATATATGTATTATGTAAGTTTTGTAAGTTATT
114399326 ATATGATATATATT
1 ATATGATATATATT
114399340 TAACATTAAG
Statistics
Matches: 91, Mismatches: 4, Indels: 19
0.80 0.04 0.17
Matches are distributed among these distances:
43 63 0.69
45 8 0.09
46 4 0.04
47 4 0.04
48 3 0.03
50 4 0.04
52 5 0.05
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.51
Consensus pattern (48 bp):
ATATGATATATATTATATATATGTATTATGTAAGTTTTGTAAGTTATT
Found at i:114399258 original size:43 final size:43
Alignment explanation
Indices: 114399211--114399341 Score: 226
Period size: 43 Copynumber: 3.0 Consensus size: 43
114399201 TTATATAAGG
114399211 TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
* *
114399254 TATGTATTATGTAAGTTTTGTAAATTATTATATGACATATATT
1 TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
* *
114399297 TATATATTATATAAGTTTTGTAAGTTATTATATGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
114399340 TA
1 TA
114399342 ACATTAAGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.35, C:0.01, G:0.11, T:0.53
Consensus pattern (43 bp):
TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
Found at i:114402388 original size:116 final size:115
Alignment explanation
Indices: 114402191--114402403 Score: 295
Period size: 116 Copynumber: 1.8 Consensus size: 115
114402181 TTTAACATTA
* *
114402191 GCGGCGTTTATAACCTAGCGCCGCTAAAAACACATCTATTGCGGCGTTTAACCTCAAAACGCCAC
1 GCGGCGTTTATAACCTAGCGCCGCTAAAAACACACCTATTGCGGCGTTTAACCACAAAACGCCAC
** *
114402256 TAGTAATATAACAAAACGTCACCGTTTTTGTTTTAACCGAAATCACCTTTT
66 TAACAATATAACAAAACGACACCG-TTTTGTTTTAACCGAAATCACCTTTT
* * *
114402307 GCGGCGTTTATACCCTAGCGCCGCTAAAAACGCACCTATTGCGGCGTTTTA-CACAAAACGCCAC
1 GCGGCGTTTATAACCTAGCGCCGCTAAAAACACACCTATTGCGGCGTTTAACCACAAAACGCCAC
* *
114402371 TAACAA-ATCCAATAAAACGACACTGTTTTGTTT
66 TAACAATAT--AACAAAACGACACCGTTTTGTTT
114402404 AATACATAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
114 2 0.02
115 24 0.28
116 59 0.69
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (115 bp):
GCGGCGTTTATAACCTAGCGCCGCTAAAAACACACCTATTGCGGCGTTTAACCACAAAACGCCAC
TAACAATATAACAAAACGACACCGTTTTGTTTTAACCGAAATCACCTTTT
Found at i:114402538 original size:16 final size:17
Alignment explanation
Indices: 114402517--114402551 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
114402507 ACTATTTAAT
114402517 ATATAAATT-AAAAACA
1 ATATAAATTAAAAAACA
114402533 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
114402550 AT
1 AT
114402552 CACTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:114402715 original size:17 final size:17
Alignment explanation
Indices: 114402664--114402721 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
114402654 ATTACATAAA
*
114402664 ATTTGAAATCTTGAAATTT
1 ATTTAAAAT-TTGAAA-TT
* *
114402683 TTTTAAAATTT-TAATT
1 ATTTAAAATTTGAAATT
*
114402699 CTTTAAAATTTGAAATT
1 ATTTAAAATTTGAAATT
114402716 ATTTAA
1 ATTTAA
114402722 TATATAGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 12 0.38
17 11 0.34
18 2 0.06
19 7 0.22
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (17 bp):
ATTTAAAATTTGAAATT
Found at i:114402838 original size:7 final size:7
Alignment explanation
Indices: 114402823--114402959 Score: 53
Period size: 7 Copynumber: 18.9 Consensus size: 7
114402813 ACACTAATTA
114402823 CCCTAAAC
1 CCCT-AAC
114402831 CCCTAAC
1 CCCTAAC
*
114402838 CCTTAAC
1 CCCTAAC
*
114402845 CCTTAAC
1 CCCTAAC
114402852 CCCTAA-
1 CCCTAAC
114402858 CCCTAAAC
1 CCCT-AAC
* **
114402866 CCATGTC
1 CCCTAAC
*
114402873 CCTTAA-
1 CCCTAAC
114402879 CCCTAAAAC
1 CCCT--AAC
114402888 CCCTAAC
1 CCCTAAC
* * *
114402895 ACATAAA
1 CCCTAAC
* *
114402902 TCCTAAA
1 CCCTAAC
114402909 CCCTAAAC
1 CCCT-AAC
114402917 CCCATAAC
1 CCC-TAAC
*
114402925 CCATAAAC
1 CCCT-AAC
*
114402933 CCATAAC
1 CCCTAAC
* *
114402940 TCTTAAC
1 CCCTAAC
*
114402947 CCCTAAA
1 CCCTAAC
114402954 CCCTAA
1 CCCTAA
114402960 GCCATAAAAT
Statistics
Matches: 99, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
6 7 0.07
7 61 0.62
8 26 0.26
9 5 0.05
ACGTcount: A:0.37, C:0.43, G:0.01, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:114402845 original size:14 final size:14
Alignment explanation
Indices: 114402822--114402957 Score: 67
Period size: 14 Copynumber: 9.4 Consensus size: 14
114402812 CACACTAATT
*
114402822 ACCCTAAACCCCTA
1 ACCCTTAACCCCTA
*
114402836 ACCCTTAACCCTTA
1 ACCCTTAACCCCTA
*
114402850 ACCCCTAA-CCCTAA
1 ACCCTTAACCCCT-A
* ** *
114402864 ACCCATGTCCCTTA
1 ACCCTTAACCCCTA
*
114402878 ACCCTAAAACCCCTA
1 ACCCT-TAACCCCTA
* * **
114402893 ACACATAAATCCTAA
1 ACCCTTAACCCCT-A
*
114402908 ACCCTAAACCCCATA
1 ACCCTTAACCCC-TA
* *
114402923 ACCCATAAACCCATA
1 ACCC-TTAACCCCTA
*
114402938 ACTCTTAACCCCTAA
1 ACCCTTAACCCCT-A
114402953 ACCCT
1 ACCCT
114402958 AAGCCATAAA
Statistics
Matches: 87, Mismatches: 28, Indels: 13
0.68 0.22 0.10
Matches are distributed among these distances:
13 3 0.03
14 42 0.48
15 34 0.39
16 8 0.09
ACGTcount: A:0.37, C:0.43, G:0.01, T:0.19
Consensus pattern (14 bp):
ACCCTTAACCCCTA
Found at i:114402852 original size:21 final size:21
Alignment explanation
Indices: 114402822--114402959 Score: 93
Period size: 21 Copynumber: 6.3 Consensus size: 21
114402812 CACACTAATT
*
114402822 ACCCTAAACCCCTAACCCTTA
1 ACCCTAAACCCCTAACCCTAA
*
114402843 ACCCTTAACCCCTAACCCTAA
1 ACCCTAAACCCCTAACCCTAA
** *
114402864 ACCC-ATGTCCCTTAACCCTAAA
1 ACCCTA-AACCCCTAACCCT-AA
* * *
114402886 ACCCCT-AACACATAAATCCTAA
1 A-CCCTAAACCCCT-AACCCTAA
114402908 ACCCTAAACCCCATAACCCATAA
1 ACCCTAAACCCC-TAACCC-TAA
* *
114402931 ACCC-ATAACTCTTAACCCCTAA
1 ACCCTA-AACCCCTAA-CCCTAA
114402953 ACCCTAA
1 ACCCTAA
114402960 GCCATAAAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 21
0.71 0.13 0.17
Matches are distributed among these distances:
21 37 0.41
22 29 0.32
23 24 0.27
ACGTcount: A:0.38, C:0.43, G:0.01, T:0.19
Consensus pattern (21 bp):
ACCCTAAACCCCTAACCCTAA
Found at i:114403643 original size:40 final size:40
Alignment explanation
Indices: 114403574--114403863 Score: 330
Period size: 40 Copynumber: 7.2 Consensus size: 40
114403564 CTGTAAAACA
* *
114403574 CCGCCAATGCTCTGTTTTTTAGCGGCGTTTTATCAAAAGCG
1 CCGCTAATGCTCTG-TTTTTAGCGGCGTTTTACCAAAAGCG
** *
114403615 CCTATAATGCTCTGTTTTTAGCAGCGTTTTACCAAAAGCG
1 CCGCTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
* *
114403655 TCGCTAATGCTCTATTTTTTAGC-GCGTTTTACCAAAAGCG
1 CCGCTAATGCTCT-GTTTTTAGCGGCGTTTTACCAAAAGCG
* * *
114403695 CCGCTGATGCTCTATTTTTTAGCGGCATTTTACCAAAAGCG
1 CCGCTAATGCTCT-GTTTTTAGCGGCGTTTTACCAAAAGCG
* * * * * *
114403736 CCGCTAGTGCTCTGTTTTTAACAGCATTTTACTAAAAGTG
1 CCGCTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
* * *
114403776 CCGTTAATGCTCTGTTTTTAGCGGCGTTTTATCAAAAAACG
1 CCGCTAATGCTCTGTTTTTAGCGGCGTTTTA-CCAAAAGCG
* * * *
114403817 CCGCTATTGCTCAGTTTTTAGCGGTGTTTTACCAAAAACG
1 CCGCTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
114403857 CCGCTAA
1 CCGCTAA
114403864 AGCCCTATTT
Statistics
Matches: 213, Mismatches: 33, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
40 134 0.63
41 79 0.37
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (40 bp):
CCGCTAATGCTCTGTTTTTAGCGGCGTTTTACCAAAAGCG
Found at i:114403726 original size:81 final size:81
Alignment explanation
Indices: 114403574--114403863 Score: 327
Period size: 81 Copynumber: 3.6 Consensus size: 81
114403564 CTGTAAAACA
* * ** *
114403574 CCGCCAATGCTCT-GTTTTTTAGCGGCGTTTTATCAAAAGCGCCTATAATGCTCTGTTTTTAGCA
1 CCGCTAATGCTCTAG-TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCG
114403638 GCGTTTTACCAAAAGCG
65 GCGTTTTACCAAAAGCG
* * * *
114403655 TCGCTAATGCTCTATTTTTTAGC-GCGTTTTACCAAAAGCGCCGCTGATGCTCTATTTTTTAGCG
1 CCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCG
*
114403719 GCATTTTACCAAAAGCG
65 GCGTTTTACCAAAAGCG
* * * * * * *
114403736 CCGCTAGTGCTCT-GTTTTTAACAGCATTTTACTAAAAGTGCCGTTAATGCTCTGTTTTTAGCGG
1 CCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGG
* *
114403800 CGTTTTATCAAAAAACG
66 CGTTTTA-CCAAAAGCG
* * *
114403817 CCGCTATTGCTC-AGTTTTTAGCGGTGTTTTACCAAAAACGCCGCTAA
1 CCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAA
114403864 AGCCCTATTT
Statistics
Matches: 172, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
80 49 0.28
81 123 0.72
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (81 bp):
CCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGG
CGTTTTACCAAAAGCG
Found at i:114403794 original size:121 final size:121
Alignment explanation
Indices: 114403580--114403863 Score: 358
Period size: 121 Copynumber: 2.3 Consensus size: 121
114403570 AACACCGCCA
* * ** * *
114403580 ATGCTCTGTTTTTTAGCGGCGTTTTATCAAAAGCGCCTATAATGCTCTGTTTTTAGCAGCGTTTT
1 ATGCTCTATTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAACAGCATTTT
* * *
114403645 ACCAAAAGCGTCGCTAATGCTCTATTTTTTAGC-GCGTTTTA-CCAAAAGCGCCGCT
66 ACCAAAAGCGCCGCTAATGCTCTA-TTTTTAGCGGCGTTTTATCAAAAAACGCCGCT
* *
114403700 GATGCTCTATTTTTTAGCGGCATTTTACCAAAAGCGCCGCTAGTGCTCTGTTTTTAACAGCATTT
1 -ATGCTCTATTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAACAGCATTT
* * * *
114403765 TACTAAAAGTGCCGTTAATGCTCTGTTTTTAGCGGCGTTTTATCAAAAAACGCCGCT
65 TACCAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTATCAAAAAACGCCGCT
* * *
114403822 ATTGCTC-AGTTTTTAGCGGTGTTTTACCAAAAACGCCGCTAA
1 A-TGCTCTATTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAA
114403864 AGCCCTATTT
Statistics
Matches: 140, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
120 8 0.06
121 115 0.82
122 17 0.12
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (121 bp):
ATGCTCTATTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAACAGCATTTT
ACCAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTTATCAAAAAACGCCGCT
Found at i:114406352 original size:46 final size:47
Alignment explanation
Indices: 114406292--114406519 Score: 304
Period size: 46 Copynumber: 5.0 Consensus size: 47
114406282 TTTGACGTGA
* * ** * * *
114406292 TGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* ** * *
114406338 TGCCATGGTATCTTTCAATCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
114406384 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
114406430 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
114406476 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
114406520 AGAGCACACT
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 5 0.03
46 163 0.97
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:114406991 original size:19 final size:19
Alignment explanation
Indices: 114406969--114407007 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
114406959 TTTTAAATAG
*
114406969 ATACACATGTATTAATAAT
1 ATACACATGTATAAATAAT
114406988 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
114407007 A
1 A
114407008 AATAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:114407899 original size:15 final size:15
Alignment explanation
Indices: 114407851--114407900 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
114407841 TTTATCAAAT
114407851 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
114407866 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
114407881 TTATATTGATTGAAA
1 TTATATTGATTGAAA
114407896 TTATA
1 TTATA
114407901 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:114413489 original size:19 final size:19
Alignment explanation
Indices: 114413467--114413505 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
114413457 TTTTAAATAG
*
114413467 ATACACATGTATTAATAAT
1 ATACACATGTATAAATAAT
114413486 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
114413505 A
1 A
114413506 AATAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:114413651 original size:13 final size:13
Alignment explanation
Indices: 114413633--114413662 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
114413623 GGAAGGAAGG
*
114413633 AAAGAAAGAAAGA
1 AAAGAAAGAAAAA
114413646 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
114413659 AAAG
1 AAAG
114413663 GGAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAA
Found at i:114414409 original size:15 final size:15
Alignment explanation
Indices: 114414361--114414410 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
114414351 TTTATCAAAT
114414361 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
114414376 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
114414391 TTATATTGATTGAAA
1 TTATATTGATTGAAA
114414406 TTATA
1 TTATA
114414411 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:114415070 original size:18 final size:19
Alignment explanation
Indices: 114415047--114415087 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
114415037 AATGAAATGA
114415047 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
114415065 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
114415084 GAAA
1 GAAA
114415088 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:114415085 original size:13 final size:13
Alignment explanation
Indices: 114415035--114415074 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
114415025 TTGAGCTATT
114415035 AGAA-TGAAA-TG
1 AGAATTGAAATTG
114415046 AGAAATTG-AATTG
1 AG-AATTGAAATTG
114415059 AGAATTGAAATTG
1 AGAATTGAAATTG
114415072 AGA
1 AGA
114415075 TATGAGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 9 0.36
13 14 0.56
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (13 bp):
AGAATTGAAATTG
Found at i:114417686 original size:10 final size:11
Alignment explanation
Indices: 114417660--114417692 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
114417650 TTCTACACCA
114417660 TTTCTCTTCAC
1 TTTCTCTTCAC
*
114417671 TTTCTCTT-AT
1 TTTCTCTTCAC
114417681 TTTCTCTTCAC
1 TTTCTCTTCAC
114417692 T
1 T
114417693 AACATATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTCTCTTCAC
Found at i:114418099 original size:64 final size:64
Alignment explanation
Indices: 114417999--114418137 Score: 269
Period size: 64 Copynumber: 2.2 Consensus size: 64
114417989 GAAAGCAAAA
*
114417999 CTTTCTTTCTTCCTCTCTTTCTCTCACGTTAGTGCATGGGAAAATATGGATAAGAATTTCTCAT
1 CTTTCTTTCTTCCTCTCTTTCTCTCACATTAGTGCATGGGAAAATATGGATAAGAATTTCTCAT
114418063 CTTTCTTTCTTCCTCTCTTTCTCTCACATTAGTGCATGGGAAAATATGGATAAGAATTTCTCAT
1 CTTTCTTTCTTCCTCTCTTTCTCTCACATTAGTGCATGGGAAAATATGGATAAGAATTTCTCAT
114418127 CTTTCTTTCTT
1 CTTTCTTTCTT
114418138 TATATACTAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (64 bp):
CTTTCTTTCTTCCTCTCTTTCTCTCACATTAGTGCATGGGAAAATATGGATAAGAATTTCTCAT
Found at i:114418161 original size:11 final size:11
Alignment explanation
Indices: 114418145--114418192 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
114418135 CTTTATATAC
114418145 TAATAAAATAA
1 TAATAAAATAA
*
114418156 TAATAAAATATCT
1 TAATAAAATA--A
* *
114418169 TATTAAAATAT
1 TAATAAAATAA
114418180 TAATAAAATAA
1 TAATAAAATAA
114418191 TA
1 TA
114418193 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:114433598 original size:22 final size:22
Alignment explanation
Indices: 114433554--114433600 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
114433544 TATTAACAAA
* *
114433554 TTATTAAGAAATAGAATATTAT
1 TTATTAAGAAATAGAAAAATAT
* *
114433576 TTATTAAGAACTATAAAAATAT
1 TTATTAAGAAATAGAAAAATAT
114433598 TTA
1 TTA
114433601 AAAATTAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.40
Consensus pattern (22 bp):
TTATTAAGAAATAGAAAAATAT
Found at i:114434821 original size:16 final size:17
Alignment explanation
Indices: 114434791--114434823 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
114434781 ACACGTAAAG
114434791 TTAAGACATTAAAATTT
1 TTAAGACATTAAAATTT
*
114434808 TTAA-ACATTCAAATTT
1 TTAAGACATTAAAATTT
114434824 ATCATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAAGACATTAAAATTT
Found at i:114443695 original size:284 final size:284
Alignment explanation
Indices: 114443328--114443895 Score: 1118
Period size: 284 Copynumber: 2.0 Consensus size: 284
114443318 CCTACTAATG
114443328 ATATCTCAAAGAACTCATCCATCAGCAACAGAACCTTCCCAACAAGAAGAATATAAACAAAGTGC
1 ATATCTCAAAGAACTCATCCATCAGCAACAGAACCTTCCCAACAAGAAGAATATAAACAAAGTGC
114443393 ATATCAGGTGTACAAACACCTAACATATTTGTTGCTATGTAAACTTTTTGCATTCAATATCTAGG
66 ATATCAGGTGTACAAACACCTAACATATTTGTTGCTATGTAAACTTTTTGCATTCAATATCTAGG
114443458 TTTATCAACTTTTGGAACCCTAATCTTGATGTGGGTTTCAAAGCACCTAAGTAATTCTACATCAC
131 TTTATCAACTTTTGGAACCCTAATCTTGATGTGGGTTTCAAAGCACCTAAGTAATTCTACATCAC
114443523 ATGTATAAAACATCAGGTTAGGATACTATATTTAAATCTAAATCAATTGAATTATATACAAGTTA
196 ATGTATAAAACATCAGGTTAGGATACTATATTTAAATCTAAATCAATTGAATTATATACAAGTTA
114443588 TATATGAAACTCATGCCAATACCT
261 TATATGAAACTCATGCCAATACCT
*
114443612 ATATCTCAAAGAACTCATCCATCAGCAACAGAACCTTCCCAACAGGAAGAATATAAACAAAGTGC
1 ATATCTCAAAGAACTCATCCATCAGCAACAGAACCTTCCCAACAAGAAGAATATAAACAAAGTGC
*
114443677 ATATCAGGTGTACAAACACTTAACATATTTGTTGCTATGTAAACTTTTTGCATTCAATATCTAGG
66 ATATCAGGTGTACAAACACCTAACATATTTGTTGCTATGTAAACTTTTTGCATTCAATATCTAGG
114443742 TTTATCAACTTTTGGAACCCTAATCTTGATGTGGGTTTCAAAGCACCTAAGTAATTCTACATCAC
131 TTTATCAACTTTTGGAACCCTAATCTTGATGTGGGTTTCAAAGCACCTAAGTAATTCTACATCAC
114443807 ATGTATAAAACATCAGGTTAGGATACTATATTTAAATCTAAATCAATTGAATTATATACAAGTTA
196 ATGTATAAAACATCAGGTTAGGATACTATATTTAAATCTAAATCAATTGAATTATATACAAGTTA
114443872 TATATGAAACTCATGCCAATACCT
261 TATATGAAACTCATGCCAATACCT
114443896 TGAACCATTT
Statistics
Matches: 282, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
284 282 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (284 bp):
ATATCTCAAAGAACTCATCCATCAGCAACAGAACCTTCCCAACAAGAAGAATATAAACAAAGTGC
ATATCAGGTGTACAAACACCTAACATATTTGTTGCTATGTAAACTTTTTGCATTCAATATCTAGG
TTTATCAACTTTTGGAACCCTAATCTTGATGTGGGTTTCAAAGCACCTAAGTAATTCTACATCAC
ATGTATAAAACATCAGGTTAGGATACTATATTTAAATCTAAATCAATTGAATTATATACAAGTTA
TATATGAAACTCATGCCAATACCT
Found at i:114450871 original size:26 final size:27
Alignment explanation
Indices: 114450823--114450887 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
114450813 TACGAAGAAG
* *
114450823 TATATATAATATAATAATAATATTATA
1 TATAAATAATATAAAAATAATATTATA
114450850 -ATACAATAAT-TAAAAATAATATTATA
1 TATA-AATAATATAAAAATAATATTATA
114450876 TATAAAT-ATATA
1 TATAAATAATATA
114450888 CAATATTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
25 2 0.06
26 23 0.70
27 8 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
TATAAATAATATAAAAATAATATTATA
Found at i:114453576 original size:73 final size:74
Alignment explanation
Indices: 114453485--114453884 Score: 467
Period size: 73 Copynumber: 5.4 Consensus size: 74
114453475 ATTAAAAGGT
* ** * * * *
114453485 TCAACCCACCTCTCGCAATATGAGTTGATTTTTTG-AAAGTAGAATTTGAAAATACCTCGGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAATTACCTCAGCGTG
* *
114453549 CCCCGAGGC
66 TCCTGAGGC
*
114453558 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAATTACCTCAGCGTG
114453622 TCCTGAGGC
66 TCCTGAGGC
*
114453631 TTAACTCACCTCTCGCAATATGAGTTGA--TTTTGAAAAACAAAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAATTACCTCAGCGTG
114453694 TCCTGAGGC
66 TCCTGAGGC
** * ** *
114453703 TCAA-TCCATTTCTCGCAACATGAGTTGA-AATTTGGAAAACAAAAATTGAAATTACCTCAGCGT
1 TCAACT-CACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAATTACCTCAGCGT
114453766 GTCCTGAGGC
65 GTCCTGAGGC
*
114453776 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAAAAATTTAAAAGAAA-TACCTCG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAA-TT----GAAATTACCTCA
* * * *
114453839 GCATGACCCGAAGC
61 GCGTGTCCTGAGGC
* *
114453853 TCAACTCACCTCT-GTATTATGAGTTGATTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
114453885 GAACACAGAA
Statistics
Matches: 288, Mismatches: 29, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
71 1 0.00
72 71 0.25
73 159 0.55
74 7 0.02
76 17 0.06
77 29 0.10
78 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (74 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAATTACCTCAGCGTG
TCCTGAGGC
Done.