Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 181 of 276
Found at i:59575075 original size:13 final size:14
Alignment explanation
Indices: 59575049--59575077 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
59575039 ACTAATGACG
59575049 AATTAAACCATTAT
1 AATTAAACCATTAT
59575063 AATTAAA-CATTAT
1 AATTAAACCATTAT
59575076 AA
1 AA
59575078 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:59580216 original size:9 final size:9
Alignment explanation
Indices: 59580202--59580283 Score: 76
Period size: 9 Copynumber: 9.1 Consensus size: 9
59580192 TATGTATTAC
*
59580202 GTAAGTTAA
1 GTAAGTTAT
*
59580211 GTAAGTTTT
1 GTAAGTTAT
59580220 GTAAGTTAT
1 GTAAGTTAT
59580229 GTAAGTTAT
1 GTAAGTTAT
* *
59580238 GTTA-TGAT
1 GTAAGTTAT
* *
59580246 ATACATTTAT
1 GTA-AGTTAT
*
59580256 GTAAGGTAT
1 GTAAGTTAT
59580265 GTAAGTTAT
1 GTAAGTTAT
*
59580274 GTAACTTAT
1 GTAAGTTAT
59580283 G
1 G
59580284 ATATGATATA
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
8 4 0.07
9 49 0.84
10 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:59580303 original size:13 final size:13
Alignment explanation
Indices: 59580285--59580314 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
59580275 TAACTTATGA
59580285 TATGATATATATT
1 TATGATATATATT
59580298 TATGATATATATT
1 TATGATATATATT
59580311 TATG
1 TATG
59580315 TATTATGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (13 bp):
TATGATATATATT
Found at i:59583218 original size:16 final size:16
Alignment explanation
Indices: 59583197--59583229 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
59583187 TTGAGTGCTG
59583197 AGCATTAACAACAGAA
1 AGCATTAACAACAGAA
*
59583213 AGCATTAACAATAGAA
1 AGCATTAACAACAGAA
59583229 A
1 A
59583230 TCTACGTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (16 bp):
AGCATTAACAACAGAA
Found at i:59583739 original size:84 final size:84
Alignment explanation
Indices: 59583586--59583786 Score: 294
Period size: 84 Copynumber: 2.4 Consensus size: 84
59583576 GTAATTCAGT
* * * * *
59583586 TTTTTTGTGGCATTTCTAAGATAGCGCCACTAATTCCTAAACCGCGCAAAATAAAACGGCATAGC
1 TTTTTAGTGGCGTTTATAAGATAGCACCACTAATTCCTAAACCGCGCAAAATAAAACGACATAGC
* *
59583651 TTTCATTTGGTTTCTCATA
66 TTTCATTCGGTTTCACATA
* * * * *
59583670 TTTTTAGTGGCGTTTATAAGATAGCACCACTAATTCCTAAACCGCGCCACATAAAATGACGTAGT
1 TTTTTAGTGGCGTTTATAAGATAGCACCACTAATTCCTAAACCGCGCAAAATAAAACGACATAGC
59583735 TTTCATTCGGTTTCACATA
66 TTTCATTCGGTTTCACATA
59583754 TTTTTAGTGGCGTTTATAAGATAGCACCACTAA
1 TTTTTAGTGGCGTTTATAAGATAGCACCACTAA
59583787 ATCCACTACC
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 105 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (84 bp):
TTTTTAGTGGCGTTTATAAGATAGCACCACTAATTCCTAAACCGCGCAAAATAAAACGACATAGC
TTTCATTCGGTTTCACATA
Found at i:59584158 original size:14 final size:14
Alignment explanation
Indices: 59584119--59584204 Score: 59
Period size: 14 Copynumber: 6.1 Consensus size: 14
59584109 CCCAAAACTA
*
59584119 ATAGACTAAACCCCA
1 ATAGACTAAA-CCCT
**
59584134 ATACCCTAAACCCT
1 ATAGACTAAACCCT
59584148 ATAGACTAAACCCT
1 ATAGACTAAACCCT
* *
59584162 A-A-ACCAAATACCCA
1 ATAGA-CTAA-ACCCT
**
59584176 ATACCCTAAACCCT
1 ATAGACTAAACCCT
*
59584190 ATAGACTAAATCCT
1 ATAGACTAAACCCT
59584204 A
1 A
59584205 AACCTAATAC
Statistics
Matches: 54, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
12 1 0.02
13 4 0.07
14 37 0.69
15 12 0.22
ACGTcount: A:0.44, C:0.34, G:0.03, T:0.19
Consensus pattern (14 bp):
ATAGACTAAACCCT
Found at i:59584160 original size:21 final size:21
Alignment explanation
Indices: 59584136--59584208 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
59584126 AAACCCCAAT
59584136 ACCCTAAACCCTATAGACTAA
1 ACCCTAAACCCTATAGACTAA
** * *
59584157 ACCCTAAACCAAATA-CCCAA
1 ACCCTAAACCCTATAGACTAA
59584177 TACCCTAAACCCTATAGACTAA
1 -ACCCTAAACCCTATAGACTAA
*
59584199 ATCCTAAACC
1 ACCCTAAACC
59584209 TAATACCCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 3 0.07
21 35 0.85
22 3 0.07
ACGTcount: A:0.44, C:0.36, G:0.03, T:0.18
Consensus pattern (21 bp):
ACCCTAAACCCTATAGACTAA
Found at i:59584226 original size:21 final size:20
Alignment explanation
Indices: 59584159--59584230 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
59584149 TAGACTAAAC
*
59584159 CCTAAACCAAATACCCAATA
1 CCTAAACCTAATACCCAATA
* **
59584179 CCCTAAACCCTATAGACTAAAT-
1 -CCTAAA-CCTA-ATACCCAATA
59584201 CCTAAACCTAATACCCAATA
1 CCTAAACCTAATACCCAATA
59584221 CTCTAAACCT
1 C-CTAAACCT
59584231 TATAAACTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
19 6 0.15
20 5 0.12
21 20 0.50
22 3 0.08
23 6 0.15
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.21
Consensus pattern (20 bp):
CCTAAACCTAATACCCAATA
Found at i:59584258 original size:42 final size:42
Alignment explanation
Indices: 59584130--59584242 Score: 181
Period size: 42 Copynumber: 2.7 Consensus size: 42
59584120 TAGACTAAAC
*
59584130 CCCAATACCCTAAACCCTATAGACTAAACCCTAAACCAAATA
1 CCCAATACCCTAAACCCTATAGACTAAATCCTAAACCAAATA
*
59584172 CCCAATACCCTAAACCCTATAGACTAAATCCTAAACCTAATA
1 CCCAATACCCTAAACCCTATAGACTAAATCCTAAACCAAATA
* * *
59584214 CCCAATACTCTAAACCTTATAAACTAAAT
1 CCCAATACCCTAAACCCTATAGACTAAAT
59584243 TCGGAACCCA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (42 bp):
CCCAATACCCTAAACCCTATAGACTAAATCCTAAACCAAATA
Found at i:59584759 original size:29 final size:28
Alignment explanation
Indices: 59584727--59584809 Score: 69
Period size: 29 Copynumber: 2.9 Consensus size: 28
59584717 AGATTTTAGG
59584727 GTTTATGATTTAAGAGTTTAGGGTTTATA
1 GTTTATG-TTTAAGAGTTTAGGGTTTATA
* * **
59584756 GTTTAATGTTTGAGA-TTTAAGGCCTATA
1 GTTT-ATGTTTAAGAGTTTAGGGTTTATA
* *
59584784 GTTTATGGGTTTAAGGGTTAAGGGTT
1 GTTTAT--GTTTAAGAGTTTAGGGTT
59584810 AGGAGTCAGG
Statistics
Matches: 40, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
27 2 0.05
28 14 0.35
29 16 0.40
30 8 0.20
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.45
Consensus pattern (28 bp):
GTTTATGTTTAAGAGTTTAGGGTTTATA
Found at i:59584761 original size:22 final size:22
Alignment explanation
Indices: 59584713--59584754 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
59584703 AAAATTTATT
*
59584713 TTTAAGATTTTAGGGTTTATGA
1 TTTAAGAGTTTAGGGTTTATGA
59584735 TTTAAGAGTTTAGGGTTTAT
1 TTTAAGAGTTTAGGGTTTAT
59584755 AGTTTAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (22 bp):
TTTAAGAGTTTAGGGTTTATGA
Found at i:59584891 original size:16 final size:16
Alignment explanation
Indices: 59584872--59584902 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59584862 GTTTTACGGG
59584872 TTTAAAGGTTTAGTGA
1 TTTAAAGGTTTAGTGA
*
59584888 TTTAAGGGTTTAGTG
1 TTTAAAGGTTTAGTG
59584903 CGTTAGGGTT
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:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (16 bp):
TTTAAAGGTTTAGTGA
Found at i:59584910 original size:15 final size:16
Alignment explanation
Indices: 59584873--59584915 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
59584863 TTTTACGGGT
* *
59584873 TTAAAGGTTTAGTGAT
1 TTAAGGGTTTAGTGAG
*
59584889 TTAAGGGTTTAGTGCG
1 TTAAGGGTTTAGTGAG
59584905 TT-AGGGTTTAG
1 TTAAGGGTTTAG
59584916 AGAAAATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.42
Consensus pattern (16 bp):
TTAAGGGTTTAGTGAG
Found at i:59588556 original size:15 final size:17
Alignment explanation
Indices: 59588526--59588558 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
59588516 ATTTATTTTG
59588526 AATATAAAAAGCGAAAA
1 AATATAAAAAGCGAAAA
59588543 AATA-AAAAAG-GAAAA
1 AATATAAAAAGCGAAAA
59588558 A
1 A
59588559 GGGAGTAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (17 bp):
AATATAAAAAGCGAAAA
Found at i:59589373 original size:25 final size:25
Alignment explanation
Indices: 59589292--59589378 Score: 88
Period size: 24 Copynumber: 3.5 Consensus size: 25
59589282 GTCTATATTG
*
59589292 AATTTTTATATATACTGTTTATTTTAA
1 AATTTTTATATA-A-TGTTCATTTTAA
* * * *
59589319 AATTTTTATTTATTATCCATTTT-A
1 AATTTTTATATAATGTTCATTTTAA
*
59589343 ATTTTTTATATAATGTTCATTTTAA
1 AATTTTTATATAATGTTCATTTTAA
59589368 AATTTTT-TATA
1 AATTTTTATATA
59589379 CATCATTTAC
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
24 23 0.48
25 14 0.29
27 11 0.23
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (25 bp):
AATTTTTATATAATGTTCATTTTAA
Found at i:59589393 original size:50 final size:50
Alignment explanation
Indices: 59589292--59589428 Score: 125
Period size: 50 Copynumber: 2.7 Consensus size: 50
59589282 GTCTATATTG
* ** * *
59589292 AATTTTTATATATACTGTTTATTTTAAAA-TTTTTATTTATTATCCATTTT
1 AATTTTT-TATATAATGTTTATTTTAAAATTTTTTATACATCATCCACTTT
* **
59589342 AATTTTTTATATAATGTTCATTTTAAAATTTTTTATACATCATTTACTTT
1 AATTTTTTATATAATGTTTATTTTAAAATTTTTTATACATCATCCACTTT
** * * *
59589392 AAAATTTTATGTATTATTTATTTT-AAATTATTTTATA
1 AATTTTTTATATAATGTTTATTTTAAAATT-TTTTATA
59589429 TTATTTATTT
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
49 24 0.34
50 47 0.66
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (50 bp):
AATTTTTTATATAATGTTTATTTTAAAATTTTTTATACATCATCCACTTT
Found at i:59589430 original size:24 final size:23
Alignment explanation
Indices: 59589309--59589438 Score: 102
Period size: 24 Copynumber: 5.3 Consensus size: 23
59589299 ATATATACTG
*
59589309 TTTATTTTAAAATTTTTAT-TTA
1 TTTATTTTAAATTTTTTATATTA
*
59589331 TTATCCATTTT-AATTTTTTATATAA
1 TT-T--ATTTTAAATTTTTTATATTA
*
59589356 TGTTCATTTTAAAATTTTTTATACATCA
1 T-TT-ATTTT-AAATTTTTTAT--ATTA
* * *
59589384 TTTACTTTAAAATTTTATGTATTA
1 TTTA-TTTTAAATTTTTTATATTA
59589408 TTTATTTTAAATTATTTTATATTA
1 TTTATTTTAAATT-TTTTATATTA
59589432 TTTATTT
1 TTTATTT
59589439 CATTTCTTTA
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
22 2 0.02
23 9 0.10
24 37 0.43
25 9 0.10
26 21 0.24
27 5 0.06
28 4 0.05
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTATTTTAAATTTTTTATATTA
Found at i:59590657 original size:19 final size:19
Alignment explanation
Indices: 59590635--59590679 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
59590625 AATAAATTAT
59590635 TAAAAA-ATATATAAAAATA
1 TAAAAAGATAT-TAAAAATA
*
59590654 TAAAAAGATGTTAAAAATA
1 TAAAAAGATATTAAAAATA
59590673 TAGAAAA
1 TA-AAAA
59590680 CCAATTCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (19 bp):
TAAAAAGATATTAAAAATA
Found at i:59592377 original size:68 final size:63
Alignment explanation
Indices: 59592298--59592445 Score: 174
Period size: 63 Copynumber: 2.3 Consensus size: 63
59592288 GAGTGCACAT
* * *
59592298 CATGTGTACAAGAGAGCTACAAGACATTATGA-TGTAGCTAGGTCGCATGGGTGATACTATGTGT
1 CATGTGTACAAGAGAGCTAC--GACA-TA-AACTG--GCTAGGTCACATGGGTGATACTAAGTGT
59592362 TCAC
60 TCAC
* *
59592366 CATGTAG-ACAAGAGGGCTACGAGATAAACTGGCTAGGTCACATGGGTGATACTAAGTGTTCAC
1 CATGT-GTACAAGAGAGCTACGACATAAACTGGCTAGGTCACATGGGTGATACTAAGTGTTCAC
59592429 CATGTGTACAAGAGAGC
1 CATGTGTACAAGAGAGC
59592446 CGAACTATAT
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
62 1 0.01
63 44 0.62
64 1 0.01
65 4 0.06
66 3 0.04
68 17 0.24
69 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (63 bp):
CATGTGTACAAGAGAGCTACGACATAAACTGGCTAGGTCACATGGGTGATACTAAGTGTTCAC
Found at i:59594859 original size:10 final size:10
Alignment explanation
Indices: 59594844--59595015 Score: 76
Period size: 9 Copynumber: 18.6 Consensus size: 10
59594834 GGCCAGACAA
59594844 AAAAATTATT
1 AAAAATTATT
*
59594854 AAAAATGTA-C
1 AAAAAT-TATT
**
59594864 AAAAAAAATAT
1 AAAAATTAT-T
59594875 AAAAA-TATT
1 AAAAATTATT
*
59594884 CAAAATTA-T
1 AAAAATTATT
59594893 AAAAA-TA-T
1 AAAAATTATT
*
59594901 --AAATTTTT
1 AAAAATTATT
59594909 AAATAA-TA--
1 AAA-AATTATT
59594917 AAAAATTA-T
1 AAAAATTATT
**
59594926 AAAAATTACA
1 AAAAATTATT
59594936 AAAAATTA-T
1 AAAAATTATT
*
59594945 GAAAATTATT
1 AAAAATTATT
59594955 -AAAATTATT
1 AAAAATTATT
59594964 AAAAATT-TT
1 AAAAATTATT
59594973 AAAAA--A-T
1 AAAAATTATT
59594980 -AAAATTATTT
1 AAAAATTA-TT
*
59594990 AAGAAATTATC
1 AA-AAATTATT
*
59595001 AGAAA-TATT
1 AAAAATTATT
59595010 AAAAAT
1 AAAAAT
59595016 GACTAGTAAG
Statistics
Matches: 124, Mismatches: 16, Indels: 44
0.67 0.09 0.24
Matches are distributed among these distances:
6 7 0.06
7 4 0.03
8 10 0.08
9 49 0.40
10 36 0.29
11 12 0.10
12 6 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAATTATT
Found at i:59594865 original size:22 final size:21
Alignment explanation
Indices: 59594840--59594880 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
59594830 TATTGGCCAG
*
59594840 ACAAAAAAATTATTAAAAATGT
1 ACAAAAAAAATA-TAAAAATGT
59594862 ACAAAAAAAATATAAAAAT
1 ACAAAAAAAATATAAAAAT
59594881 ATTCAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (21 bp):
ACAAAAAAAATATAAAAATGT
Found at i:59594880 original size:8 final size:8
Alignment explanation
Indices: 59594867--59594931 Score: 51
Period size: 8 Copynumber: 7.8 Consensus size: 8
59594857 AATGTACAAA
59594867 AAAAATAT
1 AAAAATAT
59594875 AAAAATATT
1 AAAAATA-T
*
59594884 CAAAATTAT
1 -AAAAATAT
59594893 AAAAATAT
1 AAAAATAT
** *
59594901 AAATTTTT
1 AAAAATAT
59594909 AAATAATA-
1 AAA-AATAT
59594917 AAAAATTAT
1 AAAAA-TAT
59594926 AAAAAT
1 AAAAAT
59594932 TACAAAAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
7 2 0.05
8 28 0.64
9 8 0.18
10 6 0.14
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAAATAT
Found at i:59594887 original size:21 final size:22
Alignment explanation
Indices: 59594840--59594888 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
59594830 TATTGGCCAG
* *
59594840 ACAAAAAAATTATTAAAAATGT
1 ACAAAAAAAATATTAAAAATAT
59594862 ACAAAAAAAATA-TAAAAATAT
1 ACAAAAAAAATATTAAAAATAT
*
59594883 TCAAAA
1 ACAAAA
59594889 TTATAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (22 bp):
ACAAAAAAAATATTAAAAATAT
Found at i:59594893 original size:18 final size:17
Alignment explanation
Indices: 59594867--59595013 Score: 84
Period size: 18 Copynumber: 8.2 Consensus size: 17
59594857 AATGTACAAA
*
59594867 AAAAATATAAAAATATT
1 AAAATTATAAAAATATT
59594884 CAAAATTATAAAAATA-T
1 -AAAATTATAAAAATATT
* * *
59594901 AAATTTTTAAATAATA-A
1 AAAATTATAAA-AATATT
**
59594918 AAAATTATAAAAATTACAA
1 AAAATTATAAAAA-TA-TT
*
59594937 AAAATTATGAAAATTATT
1 AAAATTAT-AAAAATATT
*
59594955 AAAATTATTAAAAATTTT
1 AAAATTA-TAAAAATATT
* *
59594973 AAAA-AATAAAATTATTT
1 AAAATTATAAAAATA-TT
*
59594990 AAGAAATTATCAGAAATATT
1 -A-AAATTAT-AAAAATATT
59595010 AAAA
1 AAAA
59595014 ATGACTAGTA
Statistics
Matches: 101, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
16 17 0.17
17 19 0.19
18 36 0.36
19 16 0.16
20 8 0.08
21 5 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATTATAAAAATATT
Found at i:59595212 original size:24 final size:24
Alignment explanation
Indices: 59595180--59595228 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
59595170 TTTCATTGTT
59595180 ATAAAATAA-AAGATAGAAAA-TAA
1 ATAAAATAATAA-ATAGAAAAGTAA
59595203 ATAATAATAATAAATAGAAAAGTAA
1 ATAA-AATAATAAATAGAAAAGTAA
59595228 A
1 A
59595229 GAGAGAGCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
24 13 0.57
25 6 0.26
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.20
Consensus pattern (24 bp):
ATAAAATAATAAATAGAAAAGTAA
Found at i:59596416 original size:30 final size:30
Alignment explanation
Indices: 59596372--59596434 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
59596362 ACTTAACAAG
59596372 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* * *
59596402 CAAATGTCTTTAAAATAATAACAAAGTTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
59596432 CAA
1 CAA
59596435 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:59596489 original size:22 final size:22
Alignment explanation
Indices: 59596464--59596506 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
59596454 TATCCAAACA
59596464 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* *
59596486 ATAATAGTAAAATAGTAGCAA
1 ATAACAATAAAATAGTAGCAA
59596507 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:59596510 original size:11 final size:11
Alignment explanation
Indices: 59596472--59596511 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
59596462 CAATAACAAT
59596472 AAAATAGTAGC
1 AAAATAGTAGC
* * *
59596483 AACATAATAGT
1 AAAATAGTAGC
59596494 AAAATAGTAGC
1 AAAATAGTAGC
59596505 AAAATAG
1 AAAATAG
59596512 GGAGAAAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:59596936 original size:30 final size:29
Alignment explanation
Indices: 59596902--59596972 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
59596892 TCATCGACAA
*
59596902 ATGAAAAGGGATAGCTCCGGCTATCGATCC
1 ATGAAAAGGGATAGCTCCGGCTATCAAT-C
** *
59596932 ATGAAAAGGGATAGCTTTGGCTATCAATT
1 ATGAAAAGGGATAGCTCCGGCTATCAATC
59596961 ATGAAAAGGGAT
1 ATGAAAAGGGAT
59596973 GGTGACGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 12 0.32
30 25 0.68
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTCCGGCTATCAATC
Found at i:59597026 original size:30 final size:29
Alignment explanation
Indices: 59596954--59597033 Score: 124
Period size: 29 Copynumber: 2.7 Consensus size: 29
59596944 AGCTTTGGCT
*
59596954 ATCAATTATGAAAAGGGATGGTGACGACC
1 ATCAACTATGAAAAGGGATGGTGACGACC
* *
59596983 ATCAACAATGAAAAGGAATGGTGACGACC
1 ATCAACTATGAAAAGGGATGGTGACGACC
59597012 ATCGAACTATGAAAAGGGATGG
1 ATC-AACTATGAAAAGGGATGG
59597034 CTTCAGCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 29 0.64
30 16 0.36
ACGTcount: A:0.41, C:0.14, G:0.28, T:0.17
Consensus pattern (29 bp):
ATCAACTATGAAAAGGGATGGTGACGACC
Found at i:59597046 original size:30 final size:30
Alignment explanation
Indices: 59597012--59597181 Score: 103
Period size: 30 Copynumber: 5.7 Consensus size: 30
59597002 GGTGACGACC
*
59597012 ATCGAACTATGAAAAGGGATGGCTTCAGCT
1 ATCGAACTATGAAAAGGGATAGCTTCAGCT
* * **
59597042 ATCGATCTATGAAAGGGGATAGCTTTGGCT
1 ATCGAACTATGAAAAGGGATAGCTTCAGCT
* * * * * *
59597072 ATCAAATTATGAAAAGAGAT-G-GTGACGACC
1 ATCGAACTATGAAAAGGGATAGCTTCA-G-CT
* * * *
59597102 ATCAAATTATGAAAAGGGATAACTTCGGCT
1 ATCGAACTATGAAAAGGGATAGCTTCAGCT
* * * * *
59597132 GTCGAACTATGAAAAGGGAAAACTTCGGTT
1 ATCGAACTATGAAAAGGGATAGCTTCAGCT
*
59597162 ATCGAATTATTG-AAAGGGAT
1 ATCGAACTA-TGAAAAGGGAT
59597182 GTGTCAACCA
Statistics
Matches: 107, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
28 1 0.01
29 2 0.02
30 100 0.93
31 3 0.03
32 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.25
Consensus pattern (30 bp):
ATCGAACTATGAAAAGGGATAGCTTCAGCT
Found at i:59597113 original size:60 final size:60
Alignment explanation
Indices: 59596932--59597150 Score: 191
Period size: 60 Copynumber: 3.7 Consensus size: 60
59596922 CTATCGATCC
* *
59596932 ATGAAAAGGGATAGCTTTGGCTATC-AATTATGAAAAGGGATGGTGACGACCATCAACA--
1 ATGAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGATGGTGACGACCATCAA-ATT
* * * * * * * *
59596990 ATGAAAAGGAAT-GGTGACGACCATCGAACTATGAAAAGGGATGGCT-TC-AGCTATC-GATCT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAACTATGAAAAGGGATGG-TGACGA-CCATCAAAT-T
* * * * *
59597050 ATGAAAGGGGATAGCTTTGGCTATCAAATTATGAAAAGAGATGGTGACGACCATCAAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGATGGTGACGACCATCAAATT
* *
59597110 ATGAAAAGGGATAACTTCGGCTGTCGAACTATGAAAAGGGA
1 ATGAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGA
59597151 AAACTTCGGT
Statistics
Matches: 120, Mismatches: 30, Indels: 20
0.71 0.18 0.12
Matches are distributed among these distances:
57 3 0.03
58 17 0.14
59 23 0.19
60 72 0.60
61 5 0.04
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.22
Consensus pattern (60 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAACTATGAAAAGGGATGGTGACGACCATCAAATT
Found at i:59597170 original size:90 final size:90
Alignment explanation
Indices: 59596990--59597176 Score: 232
Period size: 90 Copynumber: 2.1 Consensus size: 90
59596980 ACCATCAACA
* ** *
59596990 ATGAAAAGGAATGGTGACGACCATCGAACTATGAAAAGGGATGGCTTCAGCTATCGATCTATGAA
1 ATGAAAAGGAATGGTGACGACCATCAAACTATGAAAAGGGATAACTTCAGCTATCGAACTATGAA
* * * *
59597055 AGGGGATAGCTTTGGCTATCAAATT
66 AAGGGAAAACTTCGGCTATCAAATT
* * *
59597080 ATGAAAA-GAGATGGTGACGACCATCAAATTATGAAAAGGGATAACTTCGGCTGTCGAACTATGA
1 ATGAAAAGGA-ATGGTGACGACCATCAAACTATGAAAAGGGATAACTTCAGCTATCGAACTATGA
* *
59597144 AAAGGGAAAACTTCGGTTATCGAATT
65 AAAGGGAAAACTTCGGCTATCAAATT
59597170 ATTGAAA
1 A-TGAAA
59597177 GGGATGTGTC
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
89 2 0.02
90 75 0.91
91 5 0.06
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (90 bp):
ATGAAAAGGAATGGTGACGACCATCAAACTATGAAAAGGGATAACTTCAGCTATCGAACTATGAA
AAGGGAAAACTTCGGCTATCAAATT
Found at i:59599971 original size:267 final size:266
Alignment explanation
Indices: 59599497--59600020 Score: 838
Period size: 267 Copynumber: 2.0 Consensus size: 266
59599487 GAAACGAGGA
* *
59599497 TGTAACACCCCGTACCCGAGACCGTTGCCGGAGTCGGACACGAGGGGTTCACAGACTAAATTCGC
1 TGTAACACCCCGTACCCGAGACCGTCGCCGGAGTCGGACACGAGGGGTTCACAGACTAAATTCAC
* *
59599562 TTACTATCGCAGTCCATTTTAAAATTTTCCAGGCAGTTGGCTAACTGCAACACTGTCACCTTAAA
66 TTACTATCGCAATCCATTTTAAAAATTTCCAGGCAGTTGGCTAACTGCAACACTGTCACCTTAAA
* **
59599627 AATCATATCTTGAGTTTCACAACTCGAAAATCAGTTTCGTAATTTTTCCCTGAAACTAGACTCAT
131 AATCATATCTTGAGTTTCACAACTCAAAAATCAGTTTCGTAAAATTTCCCTGAAACTAGACTCAT
*
59599692 ATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGTCGG
196 ATGCCCATCTACATATTGTTTTCTAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGTCGG
59599757 TGTTTT
261 TGTTTT
* ** *
59599763 TGTAACACCCCGTACCCGAGTCCGTCGCCGGAGTCGGACACGAGGGGGTTTGCAGACT-TATCTC
1 TGTAACACCCCGTACCCGAGACCGTCGCCGGAGTCGGACACGA-GGGGTTCACAGACTAAAT-TC
* **
59599827 ACTT-CT-TTGTACAATCCATTTTAAAAATTTCCAGGCAGTTGGCTAACTGCGTCACTGTCACCT
64 ACTTACTATCG--CAATCCATTTTAAAAATTTCCAGGCAGTTGGCTAACTGCAACACTGTCACCT
59599890 TAAAAATCATATCTTGAGTTTCACAACTCAAAAATCAGTTTCGTAAAATTTCCCTGAAACTAGAC
127 TAAAAATCATATCTTGAGTTTCACAACTCAAAAATCAGTTTCGTAAAATTTCCCTGAAACTAGAC
* *
59599955 TCATATTCCCATCTACATATTGTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAG
192 TCATATGCCCATCTACATATTGTTTTCTAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTAG
59600020 T
257 T
59600021 AAAAGTCTCC
Statistics
Matches: 237, Mismatches: 17, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
265 2 0.01
266 45 0.19
267 190 0.80
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (266 bp):
TGTAACACCCCGTACCCGAGACCGTCGCCGGAGTCGGACACGAGGGGTTCACAGACTAAATTCAC
TTACTATCGCAATCCATTTTAAAAATTTCCAGGCAGTTGGCTAACTGCAACACTGTCACCTTAAA
AATCATATCTTGAGTTTCACAACTCAAAAATCAGTTTCGTAAAATTTCCCTGAAACTAGACTCAT
ATGCCCATCTACATATTGTTTTCTAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGTCGG
TGTTTT
Found at i:59600805 original size:41 final size:41
Alignment explanation
Indices: 59600728--59600805 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59600718 TTTGTATCTC
* * *
59600728 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59600769 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59600806 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:59607786 original size:40 final size:40
Alignment explanation
Indices: 59607642--59607935 Score: 216
Period size: 40 Copynumber: 7.7 Consensus size: 40
59607632 TTGAATGATG
*
59607642 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAG-TGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGAT-ACTAA-A
* * *
59607681 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGTGAGATACTAAA
*
59607721 TCTGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGATACTAAA
*
59607760 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGA-TACTA-AA
* *** *
59607801 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGATA-CTAAA
* * *
59607840 TCC-GGTTAAATTCCG-A---A-----GTGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGATACTAAA
*
59607870 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGA-TACTA-AA
*
59607911 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59607936 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 27, Indels: 49
0.73 0.10 0.18
Matches are distributed among these distances:
30 10 0.05
31 12 0.06
32 1 0.00
35 2 0.01
38 1 0.00
39 65 0.32
40 100 0.49
41 12 0.06
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGATACTAAA
Found at i:59607847 original size:79 final size:79
Alignment explanation
Indices: 59607694--59607857 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
59607684 GGACTAAGAT
* * ***
59607694 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGTGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
*
59607759 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
59607773 CCGAAGGCATTTGTGTGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGATA-
* *
59607835 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
59607852 CCGAAG
1 CCGAAG
59607858 TGAGATACTA
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.04
79 44 0.62
80 24 0.34
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
ATCCGGGTTAAATC
Found at i:59607940 original size:110 final size:110
Alignment explanation
Indices: 59607747--59607967 Score: 424
Period size: 110 Copynumber: 2.0 Consensus size: 110
59607737 AGGCATTTGT
59607747 GTGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAACCGGGCTATGT
1 GTGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAACCGGGCTATGT
*
59607812 CCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAA
66 CCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAA
59607857 GTGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAACCGGGCTATGT
1 GTGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAACCGGGCTATGT
*
59607922 CCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCTGAA
66 CCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAA
59607967 G
1 G
59607968 GTACGTGATT
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (110 bp):
GTGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAACCGGGCTATGT
CCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAA
Found at i:59608716 original size:45 final size:45
Alignment explanation
Indices: 59608662--59608750 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
59608652 AGATGATGAC
59608662 AGCAGCAGTGAGGTAGATTTGGAAAATCACTAAAAATAGCAGGAA
1 AGCAGCAGTGAGGTAGATTTGGAAAATCACTAAAAATAGCAGGAA
* *
59608707 AGCAGCAGTGATGTAGATTTGGAAAATCACTAAAAATAGTAGGA
1 AGCAGCAGTGAGGTAGATTTGGAAAATCACTAAAAATAGCAGGA
59608751 TTGGAATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.20
Consensus pattern (45 bp):
AGCAGCAGTGAGGTAGATTTGGAAAATCACTAAAAATAGCAGGAA
Found at i:59613663 original size:47 final size:47
Alignment explanation
Indices: 59613524--59613980 Score: 794
Period size: 47 Copynumber: 9.7 Consensus size: 47
59613514 NNNNNNNNNN
*
59613524 ACATCGGTCATTAGGCCTTATCACATATAT---CTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
59613568 GCATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
*
59613617 ACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
59613664 ACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
59613711 ACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
59613758 ACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
59613805 ACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
59613852 ACTTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
59613899 ACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
59613946 ACATCGGCCATTAGGCCTTATCACATATATACACT
1 ACATCGGCCATTAGGCCTTATCACATATATACACT
59613981 GTCTTGGCTG
Statistics
Matches: 397, Mismatches: 11, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
44 22 0.06
46 6 0.02
47 333 0.84
49 36 0.09
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
Found at i:59617622 original size:39 final size:39
Alignment explanation
Indices: 59617565--59617724 Score: 248
Period size: 39 Copynumber: 4.1 Consensus size: 39
59617555 ATGCAAGACA
* *
59617565 CTGGAAATGTATTCGGGCTAAAGTCTCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
59617604 CTAGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
59617643 CTGGAAATGTATTCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
59617682 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
59617721 CTGG
1 CTGG
59617725 TAATATAATT
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:59622239 original size:16 final size:16
Alignment explanation
Indices: 59622204--59622242 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
59622194 TGAATTACTG
**
59622204 ATTACAGCTCTATTTT
1 ATTACAGCTCTATTAC
*
59622220 ATTACAGCTTTATTAC
1 ATTACAGCTCTATTAC
59622236 ATTACAG
1 ATTACAG
59622243 TTCAATTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.44
Consensus pattern (16 bp):
ATTACAGCTCTATTAC
Found at i:59622392 original size:15 final size:15
Alignment explanation
Indices: 59622374--59622403 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59622364 TTTTTACAAT
*
59622374 TTTTTATTATTTTAA
1 TTTTTAATATTTTAA
59622389 TTTTTAATATTTTAA
1 TTTTTAATATTTTAA
59622404 GTAAAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTAATATTTTAA
Found at i:59623487 original size:16 final size:16
Alignment explanation
Indices: 59623452--59623490 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
59623442 TGAATTACTG
**
59623452 ATTACAGCTCTATTTT
1 ATTACAGCTCTATTAC
*
59623468 ATTACAGCTTTATTAC
1 ATTACAGCTCTATTAC
59623484 ATTACAG
1 ATTACAG
59623491 TTCAATTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.44
Consensus pattern (16 bp):
ATTACAGCTCTATTAC
Found at i:59623640 original size:15 final size:15
Alignment explanation
Indices: 59623622--59623651 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59623612 TTTTTACAAT
*
59623622 TTTTTATTATTTTAA
1 TTTTTAATATTTTAA
59623637 TTTTTAATATTTTAA
1 TTTTTAATATTTTAA
59623652 GTAAAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTAATATTTTAA
Found at i:59635667 original size:3 final size:3
Alignment explanation
Indices: 59635659--59635692 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
59635649 ACCAAAAACT
*
59635659 TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
59635693 ACTCTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:59637447 original size:19 final size:20
Alignment explanation
Indices: 59637423--59637465 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
59637413 AATCTTTAAG
59637423 GATATGCAATCTT-AGATAT
1 GATATGCAATCTTAAGATAT
*
59637442 GATATGCAGTCTTGAAGATAT
1 GATATGCAATCTT-AAGATAT
59637463 GAT
1 GAT
59637466 CTTGTAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (20 bp):
GATATGCAATCTTAAGATAT
Found at i:59639214 original size:8 final size:8
Alignment explanation
Indices: 59639201--59639237 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
59639191 AACGCCCCAA
59639201 AAATCCCG
1 AAATCCCG
59639209 AAATCCCG
1 AAATCCCG
**
59639217 AAATCCAA
1 AAATCCCG
59639225 AAATCCCG
1 AAATCCCG
59639233 AAATC
1 AAATC
59639238 TTGAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.46, C:0.32, G:0.08, T:0.14
Consensus pattern (8 bp):
AAATCCCG
Found at i:59640586 original size:18 final size:19
Alignment explanation
Indices: 59640551--59640588 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
59640541 AGAATTGACC
59640551 AAATGGGCCGGAATGGGCT
1 AAATGGGCCGGAATGGGCT
*
59640570 AAATGGGCCTG-ATGGGCT
1 AAATGGGCCGGAATGGGCT
59640588 A
1 A
59640589 TTGGGCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.26, C:0.16, G:0.39, T:0.18
Consensus pattern (19 bp):
AAATGGGCCGGAATGGGCT
Found at i:59640654 original size:16 final size:16
Alignment explanation
Indices: 59640633--59640666 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
59640623 GCTATGTGTT
59640633 AGAAAATTTATATGTG
1 AGAAAATTTATATGTG
*
59640649 AGAAAATTTGTATGTG
1 AGAAAATTTATATGTG
59640665 AG
1 AG
59640667 CATGAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (16 bp):
AGAAAATTTATATGTG
Found at i:59643917 original size:24 final size:24
Alignment explanation
Indices: 59643883--59643929 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
59643873 AAGTAGATGT
* *
59643883 TTAACTTTTCACCTTTCATCTTCA
1 TTAACTCTTCACCTTTCACCTTCA
59643907 TTAACTCTTCACCTTTCACCTTC
1 TTAACTCTTCACCTTTCACCTTC
59643930 TTATAACCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (24 bp):
TTAACTCTTCACCTTTCACCTTCA
Found at i:59644594 original size:22 final size:23
Alignment explanation
Indices: 59644568--59644610 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
59644558 ATATAAATTT
59644568 TTAAATT-C-GAAAAGTAAAAAAA
1 TTAAATTCCTGAAAA-TAAAAAAA
59644590 TTAAATTCCTGAAAATAAAAA
1 TTAAATTCCTGAAAATAAAAA
59644611 TATAGAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (23 bp):
TTAAATTCCTGAAAATAAAAAAA
Found at i:59645267 original size:75 final size:75
Alignment explanation
Indices: 59645183--59645332 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
59645173 TTCTACTTCA
59645183 ATCAATTTTATATCCAAAAGATAAAGTCATTTAAATTTAGTGTGTAATGCTGCATCAAATAAACA
1 ATCAATTTTATATCCAAAAGATAAAGTCATTTAAATTTAGTGTGTAATGCTGCATCAAATAAACA
59645248 ATAATTGACG
66 ATAATTGACG
*
59645258 ATCAATTTTATATTCAAAAGATAAAGTCATTTAAATTTAGTGTGTAATGCTGCATCAAATAAACA
1 ATCAATTTTATATCCAAAAGATAAAGTCATTTAAATTTAGTGTGTAATGCTGCATCAAATAAACA
59645323 ATAATTGACG
66 ATAATTGACG
59645333 GTTTTATGGA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (75 bp):
ATCAATTTTATATCCAAAAGATAAAGTCATTTAAATTTAGTGTGTAATGCTGCATCAAATAAACA
ATAATTGACG
Found at i:59647989 original size:49 final size:49
Alignment explanation
Indices: 59647913--59648015 Score: 188
Period size: 49 Copynumber: 2.1 Consensus size: 49
59647903 CAAAGTATAA
* *
59647913 ATTTTATTTTCCGAGAATAATAATTCTACCAGTTTCTATAAAGAGAAAG
1 ATTTAATTTTCCGAGAATAACAATTCTACCAGTTTCTATAAAGAGAAAG
59647962 ATTTAATTTTCCGAGAATAACAATTCTACCAGTTTCTATAAAGAGAAAG
1 ATTTAATTTTCCGAGAATAACAATTCTACCAGTTTCTATAAAGAGAAAG
59648011 ATTTA
1 ATTTA
59648016 CTTTCCTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.36
Consensus pattern (49 bp):
ATTTAATTTTCCGAGAATAACAATTCTACCAGTTTCTATAAAGAGAAAG
Found at i:59649600 original size:40 final size:40
Alignment explanation
Indices: 59649555--59649719 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
59649545 GAAAATAGAC
* * *
59649555 CAGATGCTCATAAAAGCTAGTTCAACCGAAATGCACCAGA
1 CAGATGCTCATAAAAGCTAGTCCAACTGAAATGCACCAAA
* *
59649595 CAGATGCTCATAAGAGCTAGTCCAACTG-AA--CACCCAAG
1 CAGATGCTCATAAAAGCTAGTCCAACTGAAATGCA-CCAAA
* * **
59649633 CAGATACTCATAAAAGCTAGTTCAACTGAAGCGCACCAAA
1 CAGATGCTCATAAAAGCTAGTCCAACTGAAATGCACCAAA
*
59649673 CAGATGCTCATAAGAGCTAGTCCAACTGAACATG--CCAAA
1 CAGATGCTCATAAAAGCTAGTCCAACTGAA-ATGCACCAAA
59649712 CAGATGCT
1 CAGATGCT
59649720 GTAACACCTC
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
37 2 0.02
38 28 0.27
39 16 0.15
40 56 0.53
41 3 0.03
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
CAGATGCTCATAAAAGCTAGTCCAACTGAAATGCACCAAA
Found at i:59649647 original size:78 final size:78
Alignment explanation
Indices: 59649555--59649704 Score: 255
Period size: 78 Copynumber: 1.9 Consensus size: 78
59649545 GAAAATAGAC
* * *
59649555 CAGATGCTCATAAAAGCTAGTTCAACCGAAATGCACCAGACAGATGCTCATAAGAGCTAGTCCAA
1 CAGATACTCATAAAAGCTAGTTCAACCGAAACGCACCAAACAGATGCTCATAAGAGCTAGTCCAA
59649620 CTGAACACCCAAG
66 CTGAACACCCAAG
* *
59649633 CAGATACTCATAAAAGCTAGTTCAACTGAAGCGCACCAAACAGATGCTCATAAGAGCTAGTCCAA
1 CAGATACTCATAAAAGCTAGTTCAACCGAAACGCACCAAACAGATGCTCATAAGAGCTAGTCCAA
59649698 CTGAACA
66 CTGAACA
59649705 TGCCAAACAG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.17
Consensus pattern (78 bp):
CAGATACTCATAAAAGCTAGTTCAACCGAAACGCACCAAACAGATGCTCATAAGAGCTAGTCCAA
CTGAACACCCAAG
Found at i:59651018 original size:22 final size:22
Alignment explanation
Indices: 59650993--59651047 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
59650983 TAAATATCAA
59650993 TTCAATCAA-AA-TTTCTCACATT
1 TTCAATCAATAATTTTC-CAC-TT
*
59651015 TTCAATTCAATCATTTTCCACTT
1 TTCAA-TCAATAATTTTCCACTT
59651038 TTCAATCAAT
1 TTCAATCAAT
59651048 TTTCAATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 10 0.34
23 11 0.38
24 4 0.14
25 4 0.14
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.44
Consensus pattern (22 bp):
TTCAATCAATAATTTTCCACTT
Found at i:59651039 original size:23 final size:26
Alignment explanation
Indices: 59650989--59651047 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
59650979 CATATAAATA
59650989 TCAATTCAATCAAAATTTCTCACATTT
1 TCAATTCAATC-AAATTTCTCACATTT
*
59651016 TCAATTCAATC-ATTTTC-CAC-TTT
1 TCAATTCAATCAAATTTCTCACATTT
59651039 TCAA-TCAAT
1 TCAATTCAAT
59651048 TTTCAATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 5 0.16
23 7 0.23
24 3 0.10
25 5 0.16
27 11 0.35
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.42
Consensus pattern (26 bp):
TCAATTCAATCAAATTTCTCACATTT
Found at i:59652394 original size:26 final size:26
Alignment explanation
Indices: 59652365--59652414 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
59652355 ATTGATAAAA
59652365 GGTTAGGTAAATGTTCCATGATAATG
1 GGTTAGGTAAATGTTCCATGATAATG
*
59652391 GGTTAGGTAAATGTTTCATGATAA
1 GGTTAGGTAAATGTTCCATGATAA
59652415 GAATTTCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
GGTTAGGTAAATGTTCCATGATAATG
Found at i:59659445 original size:26 final size:26
Alignment explanation
Indices: 59659416--59659523 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
59659406 TGGTACAAAT
59659416 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
59659442 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59659468 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59659494 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59659520 TGAT
1 TGAT
59659524 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59662451 original size:25 final size:23
Alignment explanation
Indices: 59662406--59662462 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
59662396 ATAAATTATA
* *
59662406 TTATAACAAGTGTACATATATCTAT
1 TTATTACAAATGTACATATAT-T-T
59662431 TTATTACAAATGTACCA-ATATTT
1 TTATTACAAATGTA-CATATATTT
59662454 TTATTACAA
1 TTATTACAA
59662463 TTTGTCATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.34
24 1 0.03
25 16 0.55
26 2 0.07
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (23 bp):
TTATTACAAATGTACATATATTT
Found at i:59662851 original size:3 final size:3
Alignment explanation
Indices: 59662843--59662891 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
59662833 TTAATTTATT
* * * *
59662843 TAA TAA TAA TAA TAA TAA TAT TAA TAA TAC TAC TAC TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59662891 T
1 T
59662892 TAAATCTACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:59667147 original size:25 final size:23
Alignment explanation
Indices: 59667102--59667158 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
59667092 ATAAATTATA
* *
59667102 TTATAACAAGTGTACATATATCTAT
1 TTATTACAAATGTACATATAT-T-T
59667127 TTATTACAAATGTACCA-ATATTT
1 TTATTACAAATGTA-CATATATTT
59667150 TTATTACAA
1 TTATTACAA
59667159 TTTGTCATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.34
24 1 0.03
25 16 0.55
26 2 0.07
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (23 bp):
TTATTACAAATGTACATATATTT
Found at i:59667547 original size:3 final size:3
Alignment explanation
Indices: 59667539--59667587 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
59667529 TTAATTTATT
* * * *
59667539 TAA TAA TAA TAA TAA TAA TAT TAA TAA TAC TAC TAC TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59667587 T
1 T
59667588 TAAATCTACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:59672347 original size:44 final size:45
Alignment explanation
Indices: 59672297--59672386 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
59672287 CCAAAACATG
* *
59672297 TGTCACATACATCATGAACTC-GACCACAACTCAATGAGTTCAGA
1 TGTCACAAACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
*
59672341 TGTCACAAATATCATGAACTCAAACCACAACTCAATGAGTTCAGA
1 TGTCACAAACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
59672386 T
1 T
59672387 CATATGGTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 19 0.45
45 23 0.55
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (45 bp):
TGTCACAAACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
Found at i:59675698 original size:40 final size:39
Alignment explanation
Indices: 59675667--59675876 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
59675657 GGACTAAGAT
* *
59675667 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
59675707 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
59675747 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
59675787 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
59675827 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
59675866 CCGAAGGCATT
1 CCGAAGGCATT
59675877 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:59675830 original size:120 final size:120
Alignment explanation
Indices: 59675614--59675876 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
59675604 TTGAATGCTG
* *
59675614 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
59675678 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
59675734 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
59675797 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
59675853 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
59675877 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:59675896 original size:79 final size:80
Alignment explanation
Indices: 59675667--59675911 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
59675657 GGACTAAGAT
* * * * * * * ** *
59675667 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
59675730 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
59675747 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
59675812 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
59675827 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
59675891 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
59675905 CCGAAGG
1 CCGAAGG
59675912 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:59677949 original size:24 final size:23
Alignment explanation
Indices: 59677900--59677949 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
59677890 TAAAGTAGGT
*
59677900 TATATAATATTTTTATAATATTA
1 TATATAATATTTTTATAATATCA
*
59677923 TATATTATGATTTTTATTAAT-TCA
1 TATATAAT-ATTTTTA-TAATATCA
59677947 TAT
1 TAT
59677950 CTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 7 0.30
24 12 0.52
25 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATAATATTTTTATAATATCA
Found at i:59678091 original size:61 final size:60
Alignment explanation
Indices: 59677917--59678080 Score: 183
Period size: 61 Copynumber: 2.7 Consensus size: 60
59677907 TATTTTTATA
* * *
59677917 ATATTATATATTATGATTTTTATT-AATTCATATCTTAATAATAATTATATTAAGA-ATGTT
1 ATATTATTTATTATTATTTTTATTAAATT-ATAT-TTAATAATAATTATATTAAAATATGTT
* * * * *
59677977 AT-TAAATTATATATTA-TTTTATTAAATTTTATTTAATGATAATTATGTTAAAATATGATT
1 ATATTATTTAT-TATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATG-TT
*
59678037 ATATTATTTATTTTTATTTTTATTAAATTATATTTAATAATAAT
1 ATATTATTTATTATTATTTTTATTAAATTATATTTAATAATAAT
59678081 CTTATCAAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
58 18 0.21
59 18 0.21
60 18 0.21
61 31 0.36
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (60 bp):
ATATTATTTATTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGTT
Found at i:59682998 original size:17 final size:20
Alignment explanation
Indices: 59682972--59683008 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
59682962 TATAAAAACT
59682972 TAAAAGAATT-T-AAAAATA
1 TAAAAGAATTATCAAAAATA
59682990 TAAAA-AATTATCAAAAATA
1 TAAAAGAATTATCAAAAATA
59683009 AATATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 6 0.35
19 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (20 bp):
TAAAAGAATTATCAAAAATA
Found at i:59683181 original size:40 final size:38
Alignment explanation
Indices: 59683087--59683197 Score: 116
Period size: 39 Copynumber: 2.8 Consensus size: 38
59683077 TAAAAACTAT
** *
59683087 AAAAAATTATAAAATTATTAGAAATTGTAAGGTATTATA
1 AAAAAATTATAAAATTATTAGAAAAAGTAA-ATATTATA
* *
59683126 AAAAAATTAGAAAAATTATTAGAAAAAGTAAATATTGTA
1 AAAAAATTA-TAAAATTATTAGAAAAAGTAAATATTATA
*
59683165 AAAAAATTATTCAAAATT-TTAAAAAATAGTAAA
1 AAAAAATTA-T-AAAATTATTAGAAAA-AGTAAA
59683198 AAGATTTGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
39 31 0.51
40 30 0.49
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (38 bp):
AAAAAATTATAAAATTATTAGAAAAAGTAAATATTATA
Found at i:59692987 original size:24 final size:24
Alignment explanation
Indices: 59692955--59693003 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
59692945 TTGTGTCTAT
*
59692955 ATAGTAATAGTGCAAGCTATGATG
1 ATAGTAATAGTGCAAACTATGATG
59692979 ATAGTAATAGTGCAAACTATGATG
1 ATAGTAATAGTGCAAACTATGATG
59693003 A
1 A
59693004 CAGTGACAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAGTAATAGTGCAAACTATGATG
Found at i:59693014 original size:24 final size:24
Alignment explanation
Indices: 59692957--59693014 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
59692947 GTGTCTATAT
* * *
59692957 AGTAATAGTGCAAGCTATGATGAT
1 AGTAACAGTGCAAACTATGATGAC
*
59692981 AGTAATAGTGCAAACTATGATGAC
1 AGTAACAGTGCAAACTATGATGAC
*
59693005 AGTGACAGTG
1 AGTAACAGTG
59693015 AACTTTGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (24 bp):
AGTAACAGTGCAAACTATGATGAC
Found at i:59693672 original size:15 final size:15
Alignment explanation
Indices: 59693652--59693689 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
59693642 AAATCAAAAG
*
59693652 AAAGAAATCTTGCAC
1 AAAGAAACCTTGCAC
59693667 AAAGAAACCTTGCAC
1 AAAGAAACCTTGCAC
59693682 AAAGAAAC
1 AAAGAAAC
59693690 TAACTCCCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.53, C:0.21, G:0.13, T:0.13
Consensus pattern (15 bp):
AAAGAAACCTTGCAC
Found at i:59695027 original size:18 final size:18
Alignment explanation
Indices: 59694976--59695028 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
59694966 CTGACACTCT
* *
59694976 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATTCA
* *
59694994 GTAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
59695012 ATAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
59695029 CATAGCAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:59695735 original size:39 final size:39
Alignment explanation
Indices: 59695692--59695767 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
59695682 CTATTAAGTT
59695692 CAGTTTATAGAAATACAAACCTTATTTTCTCGAGCTAGC
1 CAGTTTATAGAAATACAAACCTTATTTTCTCGAGCTAGC
59695731 CAGTTTATAGAAATACAAACCTTATTTTCTCGAGCTA
1 CAGTTTATAGAAATACAAACCTTATTTTCTCGAGCTA
59695768 ACTCCCATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (39 bp):
CAGTTTATAGAAATACAAACCTTATTTTCTCGAGCTAGC
Found at i:59696380 original size:15 final size:16
Alignment explanation
Indices: 59696359--59696400 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
59696349 TAACCGTGGC
*
59696359 CTTCTTTCTTTCCTTT
1 CTTCTTTCTTTCATTT
*
59696375 -TTCTTTATTTCATTT
1 CTTCTTTCTTTCATTT
*
59696390 CTTATTTCTTT
1 CTTCTTTCTTT
59696401 TGTTTCTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (16 bp):
CTTCTTTCTTTCATTT
Found at i:59696445 original size:21 final size:20
Alignment explanation
Indices: 59696421--59696480 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
59696411 TTTAACTATT
59696421 ATAATATTATATTATTACTAA
1 ATAATATTATATTATTA-TAA
**
59696442 ATAATACTTAT-TTATTATTT
1 ATAATA-TTATATTATTATAA
59696462 ATACATATGTATATTATTA
1 ATA-ATAT-TATATTATTA
59696481 GAACATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 5 0.15
21 18 0.55
22 10 0.30
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (20 bp):
ATAATATTATATTATTATAA
Found at i:59696465 original size:17 final size:19
Alignment explanation
Indices: 59696454--59696492 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59696444 AATACTTATT
59696454 TATTATTTATACATATGTA
1 TATTATTTATACATATGTA
*
59696473 TATTA-TTAGAACATATGTA
1 TATTATTTA-TACATATGTA
59696492 T
1 T
59696493 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (19 bp):
TATTATTTATACATATGTA
Found at i:59702230 original size:52 final size:52
Alignment explanation
Indices: 59702111--59702295 Score: 211
Period size: 50 Copynumber: 3.7 Consensus size: 52
59702101 TGTTAGTACG
* * *
59702111 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGTA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
* * * * *
59702163 TG-G-TCCCATGTAAGACTATGTCTAGGACATAGCATTGGCACCGATATTTA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
* *
59702213 TGTGATCCTATGTAAGACCATGCCTGGGACATGGCATTGGCATCGATATGTA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
* * *
59702265 T-T-AT--CATGTAAGACCATATTTGGGATATGGC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGC
59702296 GTTGATATGA
Statistics
Matches: 111, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
48 22 0.20
50 43 0.39
51 3 0.03
52 43 0.39
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (52 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTA
Found at i:59709722 original size:43 final size:42
Alignment explanation
Indices: 59709675--59709832 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 42
59709665 AGAACATATA
*
59709675 CAATGCCAACGTCCCAGACCTGGTCTTACATGTAATCAAACAT
1 CAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAA-AT
* * * *
59709718 CAATGCC-ACTGTCCCAGACAGGGTCTTACATGAAATTAGATAT
1 CAATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCA-AAAT
* * * * * *
59709761 -GATGCCGATGT-CCAGACATGGTCTTACACGTAAAACAGAAGT
1 CAATGCCAACGTCCCAGACATGGTCTTACATGT-AATCA-AAAT
* *
59709803 CGATGCCAACGTCCCAGACGTGGTCTTACA
1 CAATGCCAACGTCCCAGACATGGTCTTACA
59709833 CGAAATCATA
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
41 17 0.18
42 15 0.16
43 43 0.47
44 17 0.18
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (42 bp):
CAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAAAT
Found at i:59717684 original size:25 final size:25
Alignment explanation
Indices: 59717652--59717702 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
59717642 AATGTGTTCA
59717652 TCTTCATTTAAGCTTGGCCGAAACT
1 TCTTCATTTAAGCTTGGCCGAAACT
*
59717677 TCTTCATTTAAGCTTGGCTGAAACT
1 TCTTCATTTAAGCTTGGCCGAAACT
59717702 T
1 T
59717703 ACATGTTCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (25 bp):
TCTTCATTTAAGCTTGGCCGAAACT
Found at i:59719518 original size:25 final size:25
Alignment explanation
Indices: 59719486--59719536 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
59719476 AATGTGTTCA
59719486 TCTTCATTTAAGCTTGGCCGAAACT
1 TCTTCATTTAAGCTTGGCCGAAACT
*
59719511 TCTTCATTTAAGCTTGGCTGAAACT
1 TCTTCATTTAAGCTTGGCCGAAACT
59719536 T
1 T
59719537 ACATGTTCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (25 bp):
TCTTCATTTAAGCTTGGCCGAAACT
Found at i:59723244 original size:26 final size:26
Alignment explanation
Indices: 59723208--59723261 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
59723198 GTTATAACTT
59723208 ATCCAGTCACATTGCTTGCTCTATCA
1 ATCCAGTCACATTGCTTGCTCTATCA
59723234 ATCCAGTCACATTGCTTGCTCTATCA
1 ATCCAGTCACATTGCTTGCTCTATCA
59723260 AT
1 AT
59723262 TTGCAAGCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.24, C:0.30, G:0.11, T:0.35
Consensus pattern (26 bp):
ATCCAGTCACATTGCTTGCTCTATCA
Found at i:59723945 original size:42 final size:43
Alignment explanation
Indices: 59723838--59723945 Score: 121
Period size: 42 Copynumber: 2.5 Consensus size: 43
59723828 TCATTCCCAG
* * * *
59723838 ATATGGTCTTACATGTAATCTCGTATCGATGGCAATAGCCTAG
1 ATATGGTCTTACACGTAATCTCATATCGATGGCAATAGCCAAA
* * * *
59723881 CTATGGTCTTACAC-AAAGTCTCATATCGAT-GCTATATCCAAA
1 ATATGGTCTTACACGTAA-TCTCATATCGATGGCAATAGCCAAA
59723923 ATATGGTCTTACACGTAATCTCA
1 ATATGGTCTTACACGTAATCTCA
59723946 GTAACCCTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
42 28 0.53
43 25 0.47
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (43 bp):
ATATGGTCTTACACGTAATCTCATATCGATGGCAATAGCCAAA
Found at i:59733473 original size:93 final size:93
Alignment explanation
Indices: 59733361--59733531 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
59733351 GCCCATAAGT
* *
59733361 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59733426 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59733454 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59733519 CGAGTTCGGATGC
66 CGAGTTCGGATGC
59733532 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59733528 original size:46 final size:46
Alignment explanation
Indices: 59733353--59733528 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
59733343 TGTAACCCGC
* * *
59733353 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59733399 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
59733449 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
59733492 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59733529 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59736273 original size:65 final size:65
Alignment explanation
Indices: 59736190--59736330 Score: 187
Period size: 65 Copynumber: 2.2 Consensus size: 65
59736180 TTGCAACTAT
* * *
59736190 CGCAGCTCTTTGTGAGCGTCCTGTTTAT-TGATCT-GTTGTGATCCTGCATATGTTACGGACACA
1 CGCAGCTCTTTGTAAGCGTCCTG-TTATGCGAT-TAGTTGTGAACCTGCATATGTTACGGACACA
59736253 AA
64 AA
* * **
59736255 TGCAGCTCTTTGTAAGCGTCCTGTTATGCGATTAGTTGTGAACCTGTATATGTTGTGGACACAAA
1 CGCAGCTCTTTGTAAGCGTCCTGTTATGCGATTAGTTGTGAACCTGCATATGTTACGGACACAAA
59736320 CGCAGCTCTTT
1 CGCAGCTCTTT
59736331 ATGAGCCTTC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
64 5 0.08
65 61 0.92
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (65 bp):
CGCAGCTCTTTGTAAGCGTCCTGTTATGCGATTAGTTGTGAACCTGCATATGTTACGGACACAAA
Found at i:59739396 original size:44 final size:43
Alignment explanation
Indices: 59739348--59739430 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 43
59739338 TAATTATTAG
*
59739348 CTGAAGCCATAAT-GATATCACACACTTAGTGCCATCACATTTGA
1 CTGAAGCCAT-ATCGATATCACACACTTAGAGCC-TCACATTTGA
* * *
59739392 CTGAAGCTATCTCGGTATCACACACTTAGAGCCTCACAT
1 CTGAAGCCATATCGATATCACACACTTAGAGCCTCACAT
59739431 AGCTGAAGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 7 0.21
44 27 0.79
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (43 bp):
CTGAAGCCATATCGATATCACACACTTAGAGCCTCACATTTGA
Found at i:59741839 original size:55 final size:55
Alignment explanation
Indices: 59741751--59741857 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 55
59741741 AATTGTGGGA
* *
59741751 GACACTGACTTATCAACACGGCCATGGCACACGCCTGTGCT-GCCTACCCGTGGAC
1 GACACTGACTTATCAACACGGCCATGGCACACGCCCGTG-TGGCATACCCGTGGAC
* * * **
59741806 GACACTGTCTTTTTAACACGGCCATGGGGCACGCCCGTGTGGCATACCCGTG
1 GACACTGACTTATCAACACGGCCATGGCACACGCCCGTGTGGCATACCCGTG
59741858 TACAACTTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 1 0.02
55 43 0.98
ACGTcount: A:0.20, C:0.34, G:0.26, T:0.21
Consensus pattern (55 bp):
GACACTGACTTATCAACACGGCCATGGCACACGCCCGTGTGGCATACCCGTGGAC
Found at i:59744893 original size:46 final size:46
Alignment explanation
Indices: 59744822--59745007 Score: 275
Period size: 46 Copynumber: 4.0 Consensus size: 46
59744812 GTTGAATTTA
** *
59744822 AAGCTTGTTAAA-TTGCTCTTAATATTTCTGGATAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCAGAAAGTTACTTAGTT
*
59744867 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGAAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCAGAAAGTTACTTAGTT
* *
59744913 AAGCTTGTTAAATTTTCTCTTAATATTTCTAGAAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCAGAAAGTTACTTAGTT
* * *
59744959 AAGCTTGTTAAATTTTCCCTTATTATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCAGA-AAGTTACTTAGTT
59745006 AA
1 AA
59745008 AGAAAATTTT
Statistics
Matches: 131, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 12 0.09
46 104 0.79
47 15 0.11
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (46 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCAGAAAGTTACTTAGTT
Found at i:59755005 original size:45 final size:44
Alignment explanation
Indices: 59754939--59755121 Score: 203
Period size: 44 Copynumber: 4.2 Consensus size: 44
59754929 NNNNNNNNNN
59754939 TAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTTGAGCC
1 TAGCAGGCTATAATGCCGGTGAGATACTATTCGGG-CTTTGAGCC
* * *
59754984 TAGCAGGCTATAATGCTGGTGAGATACTATTTGGGCTTCGAGCC
1 TAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCTTTGAGCC
** *
59755028 TAGCAGGAGA-AATACCGGTGAGATACTATTCGGGCTTTCGAGCC
1 TAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCTTT-GAGCC
* ** * *
59755072 TAGCAAGCTAT-ATGCCAATGAAATGA-TA-TCGGGCTTCGAGCC
1 TAGCAGGCTATAATGCCGGTGAGAT-ACTATTCGGGCTTTGAGCC
*
59755114 TAGTAGGC
1 TAGCAGGC
59755122 GAACTGTTGG
Statistics
Matches: 116, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
42 11 0.09
43 32 0.28
44 39 0.34
45 34 0.29
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (44 bp):
TAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCTTTGAGCC
Found at i:59755068 original size:44 final size:45
Alignment explanation
Indices: 59754939--59755076 Score: 174
Period size: 45 Copynumber: 3.1 Consensus size: 45
59754929 NNNNNNNNNN
** *
59754939 TAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTT-GAGCC
1 TAGCAGGAGATAATACCGGTGAGATACTATTCGGG-CTTTCGAGCC
** * * *
59754984 TAGCAGGCTATAATGCTGGTGAGATACTATTTGGGC-TTCGAGCC
1 TAGCAGGAGATAATACCGGTGAGATACTATTCGGGCTTTCGAGCC
59755028 TAGCAGGAGA-AATACCGGTGAGATACTATTCGGGCTTTCGAGCC
1 TAGCAGGAGATAATACCGGTGAGATACTATTCGGGCTTTCGAGCC
59755072 TAGCA
1 TAGCA
59755077 AGCTATATGC
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
43 24 0.29
44 27 0.32
45 33 0.39
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (45 bp):
TAGCAGGAGATAATACCGGTGAGATACTATTCGGGCTTTCGAGCC
Found at i:59761731 original size:46 final size:47
Alignment explanation
Indices: 59761646--59761786 Score: 207
Period size: 46 Copynumber: 3.0 Consensus size: 47
59761636 GTTGAATATA
* *
59761646 AAGCTTGTTAAA-TTGCTTTTAATATTTCTGGATAGGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCTGGATAAGTTACTTAGTT
59761692 AAGCTTGTTAAATTTGCTCTTAATATTTCTGGA-AAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCTGGATAAGTTACTTAGTT
* * *
59761738 AAGCTTGTTAAATTTTCCCTTATTACTTTC-GGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATA-TTTCTGGATAAGTTACTTAGTT
59761785 AA
1 AA
59761787 AGAAAATTTT
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
46 49 0.56
47 38 0.44
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCTGGATAAGTTACTTAGTT
Found at i:59762521 original size:44 final size:44
Alignment explanation
Indices: 59762454--59762656 Score: 238
Period size: 44 Copynumber: 4.7 Consensus size: 44
59762444 ATATCGCACA
59762454 ATACTATTCGGGCCTTTGAG-CTAGCAGGCTATAATGCCGGTGAG
1 ATACTATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
*
59762498 ATACTATTCGGGCCTTTGCG-CTAGCAGGCTATAATGCCGGTGAG
1 ATACTATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
* * * * *
59762542 ATACTATTCAGGCTTCGAGCCTAGCATGCGA-AATGCTGGTGAG
1 ATACTATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
* *
59762585 ATACTATTCGGGCTTTCGAGCCTAGCAAGCTAT-ATGCCGGTGAA
1 ATACTATTCGGGCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAG
* *
59762629 ATGA-TA-TCGGGCTTCGAGCCTAGTAGGC
1 AT-ACTATTCGGGCTTTGAGCCTAGCAGGC
59762657 GAACTGTTGG
Statistics
Matches: 139, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
42 11 0.08
43 38 0.27
44 89 0.64
45 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (44 bp):
ATACTATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
Found at i:59762622 original size:87 final size:87
Alignment explanation
Indices: 59762453--59762669 Score: 255
Period size: 87 Copynumber: 2.5 Consensus size: 87
59762443 AATATCGCAC
* * * *
59762453 AATACTATTCGGGCCTTTGAG-CTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTTGC
1 AATACTATTCGGG-CTTCGAGCCTAGCAGGCGA-AATGCTGGTGAGATACTATTCGGGCCTTTGA
*
59762517 GCTAGCAGGCTATAATGCCGGTGA
64 GCTAGCAAGCTATAATGCCGGTGA
* * *
59762541 GATACTATTCAGGCTTCGAGCCTAGCATGCGAAATGCTGGTGAGATACTATTCGGG-CTTTCGAG
1 AATACTATTCGGGCTTCGAGCCTAGCAGGCGAAATGCTGGTGAGATACTATTCGGGCCTTT-GAG
59762605 CCTAGCAAGCTAT-ATGCCGGTGA
65 -CTAGCAAGCTATAATGCCGGTGA
* * *
59762628 AATGA-TA-TCGGGCTTCGAGCCTAGTAGGCGAACTGTTGGTGA
1 AAT-ACTATTCGGGCTTCGAGCCTAGCAGGCGAAATGCTGGTGA
59762670 ATGAATTTGG
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
86 34 0.31
87 45 0.41
88 32 0.29
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (87 bp):
AATACTATTCGGGCTTCGAGCCTAGCAGGCGAAATGCTGGTGAGATACTATTCGGGCCTTTGAGC
TAGCAAGCTATAATGCCGGTGA
Found at i:59764169 original size:193 final size:193
Alignment explanation
Indices: 59763840--59764225 Score: 772
Period size: 193 Copynumber: 2.0 Consensus size: 193
59763830 TTTTGATGTC
59763840 GGATTTGTGGTCCCGAAACCACTATTCCGACTAGGCCCTATTTCGGGATGTTATATTTCCCCTCT
1 GGATTTGTGGTCCCGAAACCACTATTCCGACTAGGCCCTATTTCGGGATGTTATATTTCCCCTCT
59763905 TAGAGACTTTCGCCCTCGAAAGTCTTACCAGAAAATAGATTCGGATATTGACCCCTCATGGTTTG
66 TAGAGACTTTCGCCCTCGAAAGTCTTACCAGAAAATAGATTCGGATATTGACCCCTCATGGTTTG
59763970 TTCCAGCTCTCATGTAGCCTCTTCTACACCATGTCGATGCCATAAAACTTTTACAAGAGCTAT
131 TTCCAGCTCTCATGTAGCCTCTTCTACACCATGTCGATGCCATAAAACTTTTACAAGAGCTAT
59764033 GGATTTGTGGTCCCGAAACCACTATTCCGACTAGGCCCTATTTCGGGATGTTATATTTCCCCTCT
1 GGATTTGTGGTCCCGAAACCACTATTCCGACTAGGCCCTATTTCGGGATGTTATATTTCCCCTCT
59764098 TAGAGACTTTCGCCCTCGAAAGTCTTACCAGAAAATAGATTCGGATATTGACCCCTCATGGTTTG
66 TAGAGACTTTCGCCCTCGAAAGTCTTACCAGAAAATAGATTCGGATATTGACCCCTCATGGTTTG
59764163 TTCCAGCTCTCATGTAGCCTCTTCTACACCATGTCGATGCCATAAAACTTTTACAAGAGCTAT
131 TTCCAGCTCTCATGTAGCCTCTTCTACACCATGTCGATGCCATAAAACTTTTACAAGAGCTAT
59764226 ATCTTTATTT
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
193 193 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (193 bp):
GGATTTGTGGTCCCGAAACCACTATTCCGACTAGGCCCTATTTCGGGATGTTATATTTCCCCTCT
TAGAGACTTTCGCCCTCGAAAGTCTTACCAGAAAATAGATTCGGATATTGACCCCTCATGGTTTG
TTCCAGCTCTCATGTAGCCTCTTCTACACCATGTCGATGCCATAAAACTTTTACAAGAGCTAT
Found at i:59768072 original size:16 final size:16
Alignment explanation
Indices: 59768051--59768082 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59768041 CCAATCAACA
59768051 ACTTGATGTCCTCATT
1 ACTTGATGTCCTCATT
59768067 ACTTGATGTCCTCATT
1 ACTTGATGTCCTCATT
59768083 CAGACCTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (16 bp):
ACTTGATGTCCTCATT
Found at i:59775123 original size:21 final size:21
Alignment explanation
Indices: 59775083--59775124 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59775073 TTTGCCTAAG
**
59775083 ATATGAATTGGATTGTATTGA
1 ATATGAATTGGATTAAATTGA
*
59775104 ATATGAATTGTATTAAATTGA
1 ATATGAATTGGATTAAATTGA
59775125 GTTAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (21 bp):
ATATGAATTGGATTAAATTGA
Found at i:59775666 original size:26 final size:26
Alignment explanation
Indices: 59775601--59775675 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
59775591 GCAGCTCTTA
*
59775601 TGAGCGTCCTG-TTATATGGCTCTTCG
1 TGAGCTTCCTGATTA-ATGGCTCTTCG
* *
59775627 TGAGCTTTCC-GATTAAAGGCTCTTTG
1 TGAGC-TTCCTGATTAATGGCTCTTCG
*
59775653 TGAGCTTCCTGATTTATGGCTCT
1 TGAGCTTCCTGATTAATGGCTCT
59775676 CTGAATTTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
25 4 0.10
26 31 0.76
27 6 0.15
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.40
Consensus pattern (26 bp):
TGAGCTTCCTGATTAATGGCTCTTCG
Found at i:59777928 original size:40 final size:40
Alignment explanation
Indices: 59777883--59778068 Score: 273
Period size: 40 Copynumber: 4.7 Consensus size: 40
59777873 ATTCTAAAAA
* *
59777883 AAATGCCTTCGGGACATAGCCTGGATATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* * * *
59777923 CAATGCCTTCGGGACATAGCCTGGATATAGTAATTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* *
59777963 CAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* * *
59778003 AAATGCCTTCGAGACTTAGCCCGGATGTAATAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
59778043 AAATGCCTTCGGGACTTAGCCCGGAT
1 AAATGCCTTCGGGACTTAGCCCGGAT
59778069 NNNNNNNNNN
Statistics
Matches: 134, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
Found at i:59792163 original size:39 final size:39
Alignment explanation
Indices: 59792120--59792297 Score: 239
Period size: 39 Copynumber: 4.5 Consensus size: 39
59792110 CTTCGGAACT
* ** * * *
59792120 TTAAGCCCGGATATATTTCCAGCACGTAACCTGTGAACC
1 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
* * *
59792159 TTAAGTCTGGATTATAATTCCAGCATATAGCCTGTGGACC
1 TTAAGTCCGGA-TATATTTCCAGCATATAGCCTGCGGACC
*
59792199 TTAAGTCCGGATATATTTCTAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
*
59792238 TTAAGTCCGGATATAATTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
*
59792277 TTAAGTCCAGATATATTTCCA
1 TTAAGTCCGGATATATTTCCA
59792298 AATATCATGC
Statistics
Matches: 123, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 90 0.73
40 33 0.27
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (39 bp):
TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
Found at i:59794281 original size:50 final size:51
Alignment explanation
Indices: 59794206--59794329 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 51
59794196 GGTTGTCACA
*
59794206 TGATAAGTGATAGCTTAGGCTACACTTATCTGATCAA-GAAAAAGTGA-AAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGAAAAA-TGACAAG
*
59794256 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGACAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGAAAAATGACAAG
* * *
59794307 TGAAAAGTGGTAGCTTCAGCTAC
1 TGATAAGTGATAGCTTCGGCTAC
59794330 CTGATCAGTG
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
50 39 0.58
51 28 0.42
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (51 bp):
TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGAAAAATGACAAG
Found at i:59794343 original size:31 final size:31
Alignment explanation
Indices: 59794305--59794484 Score: 247
Period size: 31 Copynumber: 5.8 Consensus size: 31
59794295 ACAAATGACA
*
59794305 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
59794336 AGTGAAAAGTGGTAGCTTCTGTTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
59794367 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
59794398 AGTGAAAAGT-GTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
59794428 AGTGAAAAAATGGTAGCTCCGTCTACCTGATT
1 AGTG-AAAAGTGGTAGCTTCGGCTACCTGATC
*
59794460 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
59794485 AAGTGACAAG
Statistics
Matches: 133, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
30 23 0.17
31 88 0.66
32 22 0.17
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:59794621 original size:46 final size:47
Alignment explanation
Indices: 59794510--59794631 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 47
59794500 AGTTATTTCC
* * * * *
59794510 GTATAAGACCATATCTAGGATATGACATCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
* *
59794557 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTC-
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
* * *
59794603 GTGTAAGACCATAGCTGGGCTATGGCATC
1 GTATAAGACCATATCTGGGATATGGCATC
59794632 GATATCTGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 26 0.40
47 39 0.60
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
Found at i:59794661 original size:42 final size:43
Alignment explanation
Indices: 59794605--59794717 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 43
59794595 TGTGATTCGT
*
59794605 GTAAGACCATAGCTGGGCTATGGCATCGA-TATCTGAATATGC
1 GTAAGACCATAGCTGGGCTATGGCATCGATTATCTGAAGATGC
* * *
59794647 GTAAGACCATAGCTGGGCTATGGCGTC-ATTATGTGAAGATGT
1 GTAAGACCATAGCTGGGCTATGGCATCGATTATCTGAAGATGC
* **
59794689 GTAAGACCATAGTTGAACTATGGCATCGA
1 GTAAGACCATAGCTGGGCTATGGCATCGA
59794718 GAAAACGAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 59 0.97
43 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (43 bp):
GTAAGACCATAGCTGGGCTATGGCATCGATTATCTGAAGATGC
Found at i:59796225 original size:13 final size:13
Alignment explanation
Indices: 59796207--59796244 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
59796197 TGATACGAGA
59796207 AAATTTCAAATCG
1 AAATTTCAAATCG
* *
59796220 AAATTTTAACTCG
1 AAATTTCAAATCG
59796233 AAATTTCAAATC
1 AAATTTCAAATC
59796245 ATAAAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (13 bp):
AAATTTCAAATCG
Found at i:59796260 original size:28 final size:26
Alignment explanation
Indices: 59796207--59796266 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 26
59796197 TGATACGAGA
* *
59796207 AAATTTCAAATCGAAATTTTAACTCG
1 AAATTTCAAATCAAAATATTAACTCG
59796233 AAATTTCAAATCATAAAATATTAACTCG
1 AAATTTCAAATC--AAAATATTAACTCG
59796261 AAATTT
1 AAATTT
59796267 TTTTATTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.40
28 18 0.60
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.35
Consensus pattern (26 bp):
AAATTTCAAATCAAAATATTAACTCG
Found at i:59798578 original size:10 final size:9
Alignment explanation
Indices: 59798559--59798588 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
59798549 GGATTTCCTC
*
59798559 AAAATGAAA
1 AAAAAGAAA
59798568 AAAAAGAAA
1 AAAAAGAAA
59798577 AAAAAGAAA
1 AAAAAGAAA
59798586 AAA
1 AAA
59798589 GTAATGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:59803398 original size:18 final size:18
Alignment explanation
Indices: 59803375--59803411 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
59803365 CTATGTGACC
59803375 AGTGTGCGGTAAGTATAA
1 AGTGTGCGGTAAGTATAA
*
59803393 AGTGTGTGGTAAGTATAA
1 AGTGTGCGGTAAGTATAA
59803411 A
1 A
59803412 TACATGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.32, T:0.30
Consensus pattern (18 bp):
AGTGTGCGGTAAGTATAA
Found at i:59803527 original size:15 final size:15
Alignment explanation
Indices: 59803487--59803527 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
59803477 AATAATAATT
*
59803487 ATAAATAAAAATATA
1 ATAAATAAAAGTATA
59803502 AT-AATATAAAGTATA
1 ATAAATA-AAAGTATA
59803517 ATAAATAAAAG
1 ATAAATAAAAG
59803528 ACAAGTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (15 bp):
ATAAATAAAAGTATA
Found at i:59803578 original size:19 final size:19
Alignment explanation
Indices: 59803550--59803588 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59803540 TGATATATGG
*
59803550 ATACATATGTACT-AATAAT
1 ATACACATGTA-TAAATAAT
59803569 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
59803588 A
1 A
59803589 AATAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:59803695 original size:11 final size:11
Alignment explanation
Indices: 59803681--59803714 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
59803671 CGAAAATGGG
59803681 GAGAAAGAAAA
1 GAGAAAGAAAA
59803692 GAGAAAGAAAA
1 GAGAAAGAAAA
*
59803703 GAAAAAGGAAAA
1 GAGAAA-GAAAA
59803715 ACTAGGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
GAGAAAGAAAA
Found at i:59808008 original size:15 final size:15
Alignment explanation
Indices: 59807968--59808008 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
59807958 AATAATAATC
*
59807968 ATAAATAAAAATATA
1 ATAAATAAAAGTATA
59807983 AT-AATATAAAGTATA
1 ATAAATA-AAAGTATA
59807998 ATAAATAAAAG
1 ATAAATAAAAG
59808009 AAAAGTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (15 bp):
ATAAATAAAAGTATA
Found at i:59808059 original size:19 final size:19
Alignment explanation
Indices: 59808031--59808069 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59808021 TGATATATGG
*
59808031 ATACATATGTACT-AATAAT
1 ATACACATGTA-TAAATAAT
59808050 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
59808069 A
1 A
59808070 AATAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:59812327 original size:49 final size:49
Alignment explanation
Indices: 59812270--59812585 Score: 491
Period size: 49 Copynumber: 6.6 Consensus size: 49
59812260 TTAAACCCAT
59812270 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
59812319 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
59812368 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
59812417 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
** *
59812466 ATGTGAAAGTGTATATGCA--TGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
* * ** * * *
59812513 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
*
59812560 ATGTGAAAGTGCATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
59812586 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 13, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
45 4 0.02
47 79 0.32
48 1 0.00
49 166 0.66
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
Found at i:59812760 original size:37 final size:37
Alignment explanation
Indices: 59812704--59812782 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
59812694 CCGAGCTCTA
* *
59812704 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
59812741 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
59812778 AAGAC
1 AAGAC
59812783 TTCGTAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:59814044 original size:40 final size:40
Alignment explanation
Indices: 59813993--59814283 Score: 402
Period size: 40 Copynumber: 7.3 Consensus size: 40
59813983 AATGTCTGGG
*
59813993 CTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCAGA
1 CTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCAGA
* * * *
59814033 CTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGA
1 CTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCAGA
* * * * * *
59814073 CTAAGTTCAGAAGAGCATTCATGCTAGTGATATATCCGGG
1 CTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCAGA
*
59814113 CTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCAGA
1 CTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCAGA
* * * *
59814153 CTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCAGG
1 CTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCAGA
* *
59814193 CTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
1 CTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCAGA
* *
59814233 CTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGG
1 CTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCAGA
59814273 CTAAATCCCGA
1 CTAAATCCCGA
59814284 NNNNNNNNNN
Statistics
Matches: 228, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 228 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (40 bp):
CTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCAGA
Found at i:59814206 original size:120 final size:120
Alignment explanation
Indices: 59813990--59814269 Score: 481
Period size: 120 Copynumber: 2.3 Consensus size: 120
59813980 TGAAATGTCT
59813990 GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGT
1 GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGT
* * *
59814055 GCTAGTGATGTATCCGGACTAAGTTCAGAAGAGCATTCATGCTAGTGATATATCC
66 GCTAGTGATATATCCGGACTAAATCCAGAAGAGCATTCATGCTAGTGATATATCC
*
59814110 GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCAGACTAAGTTCTGAAGAGCATTCGT
1 GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGT
* *
59814175 GCTAGTGATATATCCAGG-CTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCC
66 GCTAGTGATATATCC-GGACTAAATCCAGAAGAGCATTCATGCTAGTGATATATCC
*
59814230 GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCC
1 GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCC
59814270 GGGCTAAATC
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
120 150 0.99
121 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (120 bp):
GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGT
GCTAGTGATATATCCGGACTAAATCCAGAAGAGCATTCATGCTAGTGATATATCC
Done.