Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 148 of 325
Found at i:45289449 original size:16 final size:17
Alignment explanation
Indices: 45289428--45289461 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45289418 AATGTCTAGA
45289428 AAAATTA-TTAATTGAG
1 AAAATTACTTAATTGAG
45289444 AAAATTATCTTAATTGAG
1 AAAATTA-CTTAATTGAG
45289462 GGGTTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAATTACTTAATTGAG
Found at i:45291331 original size:42 final size:44
Alignment explanation
Indices: 45291267--45291377 Score: 120
Period size: 44 Copynumber: 2.5 Consensus size: 44
45291257 GTGCCAATGC
* * *
45291267 CATGTCCCGGACATGGTCTTACACTGAC-ACATCTCGTGG-TCGTTG
1 CATGTCCCAGA-AT-GTCTTACACTGACTACATCTCGAGGCT-GATG
*
45291312 CATGTCCCAG-ATGTCTTACACTGGCTTACATCTCGAGGCTGATG
1 CATGTCCCAGAATGTCTTACACTGAC-TACATCTCGAGGCTGATG
45291356 CATGTCCCAGACATGTCTTACA
1 CATGTCCCAGA-ATGTCTTACA
45291378 TAAGCACTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
42 12 0.21
43 2 0.04
44 23 0.40
45 10 0.18
46 10 0.18
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (44 bp):
CATGTCCCAGAATGTCTTACACTGACTACATCTCGAGGCTGATG
Found at i:45298853 original size:45 final size:45
Alignment explanation
Indices: 45298797--45298887 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
45298787 GAACTATGTG
45298797 ATCTAAACTCATTGAGTTGTGGTATGAGTTAATGATATATGTGAC
1 ATCTAAACTCATTGAGTTGTGGTATGAGTTAATGATATATGTGAC
* * **
45298842 ATCTGAACTCATTGAGTTGTGGTTTGAGTTCGTGATATATGTGAC
1 ATCTAAACTCATTGAGTTGTGGTATGAGTTAATGATATATGTGAC
45298887 A
1 A
45298888 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.38
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTGTGGTATGAGTTAATGATATATGTGAC
Found at i:45301119 original size:27 final size:27
Alignment explanation
Indices: 45301089--45301242 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
45301079 ATAGTGAATC
45301089 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
45301116 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
45301144 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
45301171 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
45301200 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
45301229 TGCACACTTAGTGC
1 CGCACACTTAGTGC
45301243 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:45301136 original size:29 final size:28
Alignment explanation
Indices: 45301089--45301242 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
45301079 ATAGTGAATC
45301089 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
45301116 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
45301144 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
45301171 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
45301200 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
45301229 TGCACACTTAGTGC
1 CGCACACTTAGTGC
45301243 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:45301160 original size:55 final size:55
Alignment explanation
Indices: 45301089--45301192 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
45301079 ATAGTGAATC
45301089 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
45301144 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
45301193 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:45309136 original size:27 final size:27
Alignment explanation
Indices: 45309106--45309259 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
45309096 ATAGTGAATC
45309106 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
45309133 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
45309161 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
45309188 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
45309217 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
45309246 TGCACACTTAGTGC
1 CGCACACTTAGTGC
45309260 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:45309153 original size:29 final size:28
Alignment explanation
Indices: 45309106--45309259 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
45309096 ATAGTGAATC
45309106 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
45309133 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
45309161 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
45309188 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
45309217 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
45309246 TGCACACTTAGTGC
1 CGCACACTTAGTGC
45309260 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:45309177 original size:55 final size:55
Alignment explanation
Indices: 45309106--45309209 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
45309096 ATAGTGAATC
45309106 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
45309161 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
45309210 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:45309905 original size:2 final size:2
Alignment explanation
Indices: 45309893--45309924 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
45309883 TGATGGTCGA
*
45309893 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45309925 CAACTATGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45316986 original size:27 final size:27
Alignment explanation
Indices: 45316956--45317109 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
45316946 ATAGTGAATC
45316956 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
45316983 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
45317011 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
45317038 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
45317067 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
45317096 TGCACACTTAGTGC
1 CGCACACTTAGTGC
45317110 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:45317003 original size:29 final size:28
Alignment explanation
Indices: 45316956--45317109 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
45316946 ATAGTGAATC
45316956 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
45316983 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
45317011 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
45317038 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
45317067 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
45317096 TGCACACTTAGTGC
1 CGCACACTTAGTGC
45317110 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:45317027 original size:55 final size:55
Alignment explanation
Indices: 45316956--45317059 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
45316946 ATAGTGAATC
45316956 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
45317011 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
45317060 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:45317755 original size:2 final size:2
Alignment explanation
Indices: 45317743--45317776 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
45317733 TGATGGTCGA
*
45317743 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45317777 CAACTATGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45319106 original size:30 final size:30
Alignment explanation
Indices: 45319070--45319134 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
45319060 GCCTAATCAA
45319070 GTGTGAAGGACACGGCATTAGGACATGGGC
1 GTGTGAAGGACACGGCATTAGGACATGGGC
* *
45319100 GTGTGAAGGATACGGCCTTAGGACATGGGC
1 GTGTGAAGGACACGGCATTAGGACATGGGC
45319130 GTGTG
1 GTGTG
45319135 CCCAGGCCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.23, C:0.15, G:0.42, T:0.20
Consensus pattern (30 bp):
GTGTGAAGGACACGGCATTAGGACATGGGC
Found at i:45320190 original size:3 final size:3
Alignment explanation
Indices: 45320182--45320224 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
45320172 ATGAATTAAA
*
45320182 TAT TAT TA- TAT TA- TAT TAT TAT AAT GTAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA
45320225 ACTAATACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.11
3 29 0.83
4 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:45320199 original size:13 final size:13
Alignment explanation
Indices: 45320181--45320222 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
45320171 TATGAATTAA
45320181 ATATTATTATATT
1 ATATTATTATATT
*
45320194 ATATTATTATAAT
1 ATATTATTATATT
*
45320207 GTATTATTATTATT
1 ATATTATTA-TATT
45320221 AT
1 AT
45320223 TAACTAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:45320203 original size:16 final size:18
Alignment explanation
Indices: 45320182--45320222 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
45320172 ATGAATTAAA
45320182 TATTATTATAT-TA-TAT
1 TATTATTATATGTATTAT
45320198 TATTA-TA-ATGTATTAT
1 TATTATTATATGTATTAT
45320214 TATTATTAT
1 TATTATTAT
45320223 TAACTAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 2 0.10
15 4 0.19
16 13 0.62
17 2 0.10
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATTATTATATGTATTAT
Found at i:45321217 original size:21 final size:21
Alignment explanation
Indices: 45321191--45321255 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
45321181 GGCTTTGCTG
45321191 ATCAGGCACTATATGTGTCGT
1 ATCAGGCACTATATGTGTCGT
* ** *
45321212 ATCAGGCACCACGTGTGTCAT
1 ATCAGGCACTATATGTGTCGT
* *
45321233 TTCAGGCACTTTATGTGTCGT
1 ATCAGGCACTATATGTGTCGT
45321254 AT
1 AT
45321256 ACTGCTTCTG
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (21 bp):
ATCAGGCACTATATGTGTCGT
Found at i:45326567 original size:40 final size:40
Alignment explanation
Indices: 45326459--45326708 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
45326449 CGGGATTTAA
* * * * *
45326459 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
45326499 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45326539 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45326579 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45326619 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45326659 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45326699 CCGGATATAT
1 CCGGATATAT
45326709 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:45334743 original size:40 final size:40
Alignment explanation
Indices: 45334635--45334884 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
45334625 CGGGATTTAA
* * * * *
45334635 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
45334675 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45334715 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45334755 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45334795 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45334835 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45334875 CCGGATATAT
1 CCGGATATAT
45334885 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:45347718 original size:22 final size:22
Alignment explanation
Indices: 45347690--45347741 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
45347680 TTGACAAGCC
*
45347690 ACCACATAATTATCGATAAACA
1 ACCACATAATTATAGATAAACA
* *
45347712 ACCACATAATTGTAGATAAACT
1 ACCACATAATTATAGATAAACA
*
45347734 GCCACATA
1 ACCACATA
45347742 TCTTCATCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (22 bp):
ACCACATAATTATAGATAAACA
Found at i:45349249 original size:29 final size:29
Alignment explanation
Indices: 45349217--45349351 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
45349207 ATACCCTCCG
** * *
45349217 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
45349246 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
45349275 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
45349304 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
45349333 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
45349352 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:45349284 original size:58 final size:58
Alignment explanation
Indices: 45349163--45349352 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
45349153 TACTCGATTT
* * * *** *
45349163 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
45349221 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
45349279 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
45349337 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
45349353 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:45357214 original size:29 final size:29
Alignment explanation
Indices: 45357182--45357316 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
45357172 ATACCCTCCG
** * *
45357182 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
45357211 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
45357240 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
45357269 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
45357298 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
45357317 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:45357249 original size:58 final size:58
Alignment explanation
Indices: 45357128--45357317 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
45357118 TACTCGATTT
* * * *** *
45357128 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
45357186 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
45357244 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
45357302 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
45357318 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:45359144 original size:18 final size:19
Alignment explanation
Indices: 45359109--45359146 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
45359099 AATTTGCACA
45359109 AACATCACAATCAAATAAT
1 AACATCACAATCAAATAAT
*
45359128 AACATCAC-ATCACATAAT
1 AACATCACAATCAAATAAT
45359146 A
1 A
45359147 TACTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (19 bp):
AACATCACAATCAAATAAT
Found at i:45366566 original size:43 final size:43
Alignment explanation
Indices: 45366492--45366637 Score: 177
Period size: 43 Copynumber: 3.4 Consensus size: 43
45366482 TTTAAAAAAA
* * * *
45366492 GCCGCTAAAGACCATGACTTTTAGCGACGCTTTTTTTACAAAC
1 GCCGCTAAAAACCATGACTTTTAGCGGCGCTTTTCTCACAAAC
* *
45366535 GCCGTTAAAAACCATGACCTTTAGCGGCGCTTTTCTCACAAAC
1 GCCGCTAAAAACCATGACTTTTAGCGGCGCTTTTCTCACAAAC
** *
45366578 GCTACTAACGAA-CATGACTTTTAGCGGCGCTTTTCTCACAAAC
1 GCCGCTAA-AAACCATGACTTTTAGCGGCGCTTTTCTCACAAAC
* *
45366621 GCCTCTAAAAATCATGA
1 GCCGCTAAAAACCATGA
45366638 ACTTCAAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.02
43 83 0.95
44 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAAACCATGACTTTTAGCGGCGCTTTTCTCACAAAC
Found at i:45368423 original size:21 final size:22
Alignment explanation
Indices: 45368391--45368443 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
45368381 CAACTTTCAG
45368391 ACACCATAAA-TTGCAGCATTTA
1 ACACC-TAAATTTGCAGCATTTA
*
45368413 ACACCTAAATTTTCAGCATTTA
1 ACACCTAAATTTGCAGCATTTA
*
45368435 ACACATAAA
1 ACACCTAAA
45368444 ATGGTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (22 bp):
ACACCTAAATTTGCAGCATTTA
Found at i:45370627 original size:6 final size:6
Alignment explanation
Indices: 45370616--45370652 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
45370606 TTTCAAAACT
*
45370616 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG GAAGGG A
1 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG A
45370653 TCGTATGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (6 bp):
AAAGGG
Found at i:45370890 original size:20 final size:20
Alignment explanation
Indices: 45370866--45370910 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
45370856 TTTATATTTC
45370866 ATTTTTATTTA-TTATCAAT
1 ATTTTTATTTATTTATCAAT
*
45370885 GTTTTTATTTATTTATCAAT
1 ATTTTTATTTATTTATCAAT
45370905 ATTTTT
1 ATTTTT
45370911 TTAAATCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTTTATTTATTTATCAAT
Found at i:45372044 original size:22 final size:20
Alignment explanation
Indices: 45372016--45372060 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
45372006 TGTTTTTTGG
*
45372016 AGTTTAGGGTTTTAGGGGTTAT
1 AGTTTA-GGTTTTAAGGGTT-T
*
45372038 AGTTTAGTTTTTAAGGGTTT
1 AGTTTAGGTTTTAAGGGTTT
45372058 AGT
1 AGT
45372061 GTTTTAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 11 0.52
22 6 0.29
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (20 bp):
AGTTTAGGTTTTAAGGGTTT
Found at i:45372057 original size:15 final size:16
Alignment explanation
Indices: 45372039--45372072 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45372029 AGGGGTTATA
45372039 GTTTAGT-TTTTAAGG
1 GTTTAGTGTTTTAAGG
*
45372054 GTTTAGTGTTTTAGGG
1 GTTTAGTGTTTTAAGG
45372070 GTT
1 GTT
45372073 ATAGATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (16 bp):
GTTTAGTGTTTTAAGG
Found at i:45372058 original size:37 final size:37
Alignment explanation
Indices: 45372017--45372087 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
45372007 GTTTTTTGGA
* *
45372017 GTTTAGGGTTTTAGGGGTTATAGTTTAGTTTTTAAGG
1 GTTTAGGGTTTTAGGGGTTATAGATTAGTGTTTAAGG
*
45372054 GTTTAGTGTTTTAGGGGTTATAGATTAGTGTTTA
1 GTTTAGGGTTTTAGGGGTTATAGATTAGTGTTTA
45372088 TTATTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (37 bp):
GTTTAGGGTTTTAGGGGTTATAGATTAGTGTTTAAGG
Found at i:45372278 original size:82 final size:81
Alignment explanation
Indices: 45372128--45372296 Score: 205
Period size: 82 Copynumber: 2.1 Consensus size: 81
45372118 ATTATATGAC
*** * * *
45372128 TTTTAGCGGCGTTTTGTCGAAAGTGCCGCTAATGCTATGGTTTTTAGTGGCGTTTCACCAAAAGC
1 TTTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTATGGTTTTTAGCGGCGTTTCACCAAAAGC
45372193 GCCGCTAATGCTCTGGT
66 GCCGCTAATGCTCT-GT
* ****
45372210 TTTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTGGTAAAA-
1 TTTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTATGGTTTTTAGCGGCG-TTTCACCAAAAG
*
45372274 CGCCGCTATTGCTCTGT
65 CGCCGCTAATGCTCTGT
45372291 TTTTAG
1 TTTTAG
45372297 ACCAAAAACG
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
81 8 0.11
82 59 0.80
83 7 0.09
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (81 bp):
TTTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTATGGTTTTTAGCGGCGTTTCACCAAAAGC
GCCGCTAATGCTCTGT
Found at i:45372289 original size:41 final size:41
Alignment explanation
Indices: 45372128--45372264 Score: 211
Period size: 41 Copynumber: 3.3 Consensus size: 41
45372118 ATTATATGAC
*** * * *
45372128 TTTTAGCGGCGTTTTGTCGAAAGTGCCGCTAATGCTATGGT
1 TTTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGT
*
45372169 TTTTAGTGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGT
45372210 TTTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGT
45372251 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
45372265 TTGGTAAAAC
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:45372800 original size:25 final size:25
Alignment explanation
Indices: 45372771--45372818 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
45372761 GATAATAAAA
45372771 ATAATAGTAATAAAAATAAAAAACT
1 ATAATAGTAATAAAAATAAAAAACT
* * *
45372796 ATAATGGTAATAATATTAAAAAA
1 ATAATAGTAATAAAAATAAAAAA
45372819 GGTAAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (25 bp):
ATAATAGTAATAAAAATAAAAAACT
Found at i:45373040 original size:20 final size:20
Alignment explanation
Indices: 45372994--45373041 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
45372984 AATAGTAGGT
* *
45372994 TAATAATAGTAGTAATAAAA
1 TAATAAAAGTAATAATAAAA
*
45373014 -AGGTAAAAGTAATAATAAAA
1 TA-ATAAAAGTAATAATAAAA
45373034 TAATAAAA
1 TAATAAAA
45373042 ACACTATTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (20 bp):
TAATAAAAGTAATAATAAAA
Found at i:45373112 original size:3 final size:3
Alignment explanation
Indices: 45373092--45373135 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
45373082 TAGTATATAG
*
45373092 AAT AAT AGT AA- AAGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
45373136 CACTCTCCCC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:45373450 original size:13 final size:13
Alignment explanation
Indices: 45373434--45373475 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
45373424 GAGTTAGTAA
45373434 GGTGGTTTAGTGG
1 GGTGGTTTAGTGG
*
45373447 GGTGGTTTAGT-A
1 GGTGGTTTAGTGG
*
45373459 GTTGGTTTAGTGG
1 GGTGGTTTAGTGG
45373472 GGTG
1 GGTG
45373476 TTAATTGGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.10, C:0.00, G:0.50, T:0.40
Consensus pattern (13 bp):
GGTGGTTTAGTGG
Found at i:45373466 original size:25 final size:26
Alignment explanation
Indices: 45373427--45373475 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
45373417 GGTGATGGAG
45373427 TTAGTAAGGTGGTTTAGTGGGGTGGT
1 TTAGTAAGGTGGTTTAGTGGGGTGGT
*
45373453 TTAGT-AGTTGGTTTAGTGGGGTG
1 TTAGTAAGGTGGTTTAGTGGGGTG
45373476 TTAATTGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.14, C:0.00, G:0.45, T:0.41
Consensus pattern (26 bp):
TTAGTAAGGTGGTTTAGTGGGGTGGT
Found at i:45374107 original size:131 final size:132
Alignment explanation
Indices: 45373752--45374339 Score: 685
Period size: 132 Copynumber: 4.5 Consensus size: 132
45373742 AGATTTGTAG
* * *
45373752 CTTCGATCTACTCCGCTAATGCTTAGGGAGATAAGATCTACAATCTTCGGCCTGCT-CACTGCTG
1 CTTCGATCTACTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
* *
45373816 CTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCT-GGGAAAATAAGATTCACC
66 CTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGAGAAGATTCACC
45373880 GT
131 GT
* * * ** *
45373882 CTTCGATCTACTCCACTACTGCTTAGGGAAATAAGATTTGTAATCTTCAGCCTGCTCCACTGTTG
1 CTTCGATCTACTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
* * * *
45373947 CTCATAGAGATAACGCT-GATGGCTTAAATCTGCTTCCTTACTACCTCGGGAAGAGAAGATTCGC
66 CTCAGAGAGATAAGGCTAG-TGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGAGAAGATTCAC
45374011 CGT
130 CGT
* *
45374014 CTTCGATCTACTCCACTATTG-TTCAGGGAGATAAGATTTACAATCTTCAGACTGCT-CACTGCT
1 CTTCGATCTACTCCACTATTGCTT-AGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCT
*
45374077 GCTCAGAAAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATG-AGATTCA
65 GCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGA-GAAGATTCA
45374141 CCGT
129 CCGT
** *
45374145 CTTCGATCTACTCCACTACTT-CTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTACT
1 CTTCGATCTACTCCACTA-TTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCT
* * * * ** ** *
45374209 ACTCA-AGGAGATAAGGATGGTGGCTTAAATCTGC-TCCATTGT-CGCTACATAGAA-ATAAGAT
65 GCTCAGA-GAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTAC-CT-C-GGGAAGAGAAGAT
** *
45374270 TTGCCAT
126 TCACCGT
* * * * *
45374277 CTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTCCACTGC
1 CTTCGATCTACTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGC
45374340 AACTTCAGGG
Statistics
Matches: 395, Mismatches: 48, Indels: 28
0.84 0.10 0.06
Matches are distributed among these distances:
130 51 0.13
131 170 0.43
132 171 0.43
133 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (132 bp):
CTTCGATCTACTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTG
CTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGAGAAGATTCACC
GT
Found at i:45374282 original size:263 final size:261
Alignment explanation
Indices: 45373752--45374339 Score: 799
Period size: 263 Copynumber: 2.2 Consensus size: 261
45373742 AGATTTGTAG
* * * *
45373752 CTTCGATCTACTCCGCTAATGCTTAGGGAGATAAGATCTACAATCTTCGGCCTGCTCACTGCTGC
1 CTTCGATCTACTCCACTATTG-TTAGGGAGATAAGATCTACAATCTTCAGACTGCTCACTGCTGC
*
45373817 TCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTGGGAAAATAAGATTCACCGT
65 TCAGAAAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTGGGAAAATAAGATTCACCGT
* ** *
45373882 CTTCGATCTACTCCACTACTGCTTAGGGAAATAAGATTTGTAATCTTCAGCCTGCTCCACTGTTG
130 CTTCGATCTACTCCACTACTGCTTAGGGAAATAAGATCTGTAATCTTCAGCCTGCTCCACTACTA
* *
45373947 CTCATAGAGATAACGCTGATGGCTTAAATCTGCTTCCTTACTACCTCGGGAAGAGAAGATTCGCC
195 CTCATAGAGATAACGATGATGGCTTAAATCTGCTTCCTTACTACCTCGAGAAGAGAAGATTCGCC
*
45374012 GT
260 AT
*
45374014 CTTCGATCTACTCCACTATTGTTCAGGGAGATAAGATTTACAATCTTCAGACTGCTCACTGCTGC
1 CTTCGATCTACTCCACTATTGTT-AGGGAGATAAGATCTACAATCTTCAGACTGCTCACTGCTGC
* *
45374079 TCAGAAAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATGAGATTCACCG
65 TCAGAAAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCT-GGGAAAATAAGATTCACCG
* *
45374144 TCTTCGATCTACTCCACTACTTCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTACT
129 TCTTCGATCTACTCCACTACTGCTTAGGGAAATAAGATCTGTAATCTTCAGCCTGCTCCACTACT
* * * * *
45374209 ACTCA-AGGAGATAAGGATGGTGGCTTAAATCTGC-TCCATT-GT-CGCTACATAGAA-ATAAGA
194 ACTCATA-GAGATAACGATGATGGCTTAAATCTGCTTCC-TTACTAC-CT-C-GAGAAGAGAAGA
*
45374269 TTTGCCAT
254 TTCGCCAT
** * * *
45374277 CTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTCCACTGC
1 CTTCGATCTACTCCACTA-TTGTTAGGGAGATAAGATCTACAATCTTCAGACTGCT-CACTGC
45374340 AACTTCAGGG
Statistics
Matches: 288, Mismatches: 29, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
261 3 0.01
262 108 0.38
263 165 0.57
264 12 0.04
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (261 bp):
CTTCGATCTACTCCACTATTGTTAGGGAGATAAGATCTACAATCTTCAGACTGCTCACTGCTGCT
CAGAAAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTGGGAAAATAAGATTCACCGTC
TTCGATCTACTCCACTACTGCTTAGGGAAATAAGATCTGTAATCTTCAGCCTGCTCCACTACTAC
TCATAGAGATAACGATGATGGCTTAAATCTGCTTCCTTACTACCTCGAGAAGAGAAGATTCGCCA
T
Found at i:45374313 original size:44 final size:45
Alignment explanation
Indices: 45374263--45374357 Score: 104
Period size: 44 Copynumber: 2.1 Consensus size: 45
45374253 CTACATAGAA
* * *
45374263 ATAAGATTTGCCATCTTC-GATCTACTCCACTACTACTT-AGGGAG
1 ATAAGATCTGCAATCTTCAG-TCTACTCCACTACAACTTCAGGGAG
* * * *
45374307 ATAAGATCTGCAATTTTCAGTCTGCTCCACTGCAACTTCAGGGTG
1 ATAAGATCTGCAATCTTCAGTCTACTCCACTACAACTTCAGGGAG
45374352 ATAAGA
1 ATAAGA
45374358 CTTGTATCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
44 30 0.71
45 12 0.29
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (45 bp):
ATAAGATCTGCAATCTTCAGTCTACTCCACTACAACTTCAGGGAG
Found at i:45374376 original size:44 final size:43
Alignment explanation
Indices: 45374282--45374754 Score: 198
Period size: 44 Copynumber: 10.7 Consensus size: 43
45374272 GCCATCTTCG
* * * * * *
45374282 ATCTACTCCACTACTACTT-AGGGAGATAAGATCTGCAATTTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-TATCTTGA
* *
45374326 GTCTGCTCCACTGCAACTTCAGGGTGATAAGACTTGTATCTTGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTGA
* * * * * * ** *
45374370 ACCTGCTCCGCTGCAACTTTAGAGAGATAAGGCTGGTGGCTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGTATCTTGA
* * * * * * * * *
45374414 ATCTGCTCTATTGCCACTACATGGAGGTAAGATTTTCCGTCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGT--ATCTTGA
* ** * * *
45374459 ATCTGCTCCACTACTGCTT-AGGAAGATAAGATCTGTAATTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGT-ATCTTGA
* *
45374503 GTCTGCTCCACTGCAACTTCAGGGTGATAAGAATTGTATCTTGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTGTATCTTGA
* * * * * * ** *
45374547 ACCTGTTCCGCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGTATCTTGA
* ** * * * *
45374591 ATCTGCTCCATTGCCGCTACATGGAGATAAGATTTTCCGTCTTCG-
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGT--ATCTT-GA
* ** * ** * *
45374636 ATCTGCTCCACTACTGCTT-AGGAAGATAAGATCTACAATTTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-GTATCTTGA
* * *
45374680 GTCTACTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTGA
* * *
45374724 AGCTGCTCCACTACAACTTTAGGGAGATAAG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAG
45374755 GCTGGTGGCT
Statistics
Matches: 307, Mismatches: 105, Indels: 34
0.69 0.24 0.08
Matches are distributed among these distances:
43 6 0.02
44 218 0.71
45 79 0.26
46 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTGA
Found at i:45374413 original size:177 final size:177
Alignment explanation
Indices: 45374216--45374847 Score: 933
Period size: 177 Copynumber: 3.6 Consensus size: 177
45374206 ACTACTCAAG
* * * *
45374216 GAGATAAGGATGGTGGCTTAAATCTGCTCCATTGTCGCTACATAGAAATAAGATTTGCCATCTTC
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAAATAAGATTTGCCGTCTTC
* * *
45374281 GATCTACTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTCCACTGCAACTTC
66 GATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGCAATTTTCAGTCTGCTCCACTGCAACTTC
45374346 AGGGTGATAAGACTTGTATCTTGAACCTGCTCCGCTGCAACTTTAGA
131 AGGGTGATAAGACTTGTATCTTGAACCTGCTCCGCTGCAACTTTAGA
* * ** *
45374393 GAGATAAGGCTGGTGGCTTAAATCTGCTCTATTGCCACTACATGGAGGTAAGATTTTCCGTCTTC
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAAATAAGATTTGCCGTCTTC
* * *
45374458 AATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGTAATTTTTAGTCTGCTCCACTGCAACTTC
66 GATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGCAATTTTCAGTCTGCTCCACTGCAACTTC
* * *
45374523 AGGGTGATAAGAATTGTATCTTGAACCTGTTCCGCTGCAACTTCA-A
131 AGGGTGATAAGACTTGTATCTTGAACCTGCTCCGCTGCAACTTTAGA
* * * *
45374569 GGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTTTCCGTCTT
1 -GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAAATAAGATTTGCCGTCTT
* *
45374634 CGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACAATTTTCAGTCTACTCCACTGCAACTT
65 CGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGCAATTTTCAGTCTGCTCCACTGCAACTT
* * * * * *
45374699 TAGGGAGATAAGACTTGTATCTTGAAGCTGCTCCACTACAACTTTAGG
130 CAGGGTGATAAGACTTGTATCTTGAACCTGCTCCGCTGCAACTTTAGA
* * *
45374747 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTATATAGAAATAAGATTTGCTGTCTTT
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAAATAAGATTTGCCGTCTTC
* *
45374812 GATATGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 GATCTGCTCCACTACTGCTTAGGAAGATAAGATCTG
45374848 TAAATTCACC
Statistics
Matches: 408, Mismatches: 45, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
176 1 0.00
177 407 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (177 bp):
GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCACTACATAGAAATAAGATTTGCCGTCTTC
GATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGCAATTTTCAGTCTGCTCCACTGCAACTTC
AGGGTGATAAGACTTGTATCTTGAACCTGCTCCGCTGCAACTTTAGA
Found at i:45374753 original size:354 final size:354
Alignment explanation
Indices: 45374211--45374850 Score: 1028
Period size: 354 Copynumber: 1.8 Consensus size: 354
45374201 CCACTACTAC
*
45374211 TCAAGGAGATAAGGATGGTGGCTTAAATCTGCTCCATTGTCGCTACATAGAAATAAGATTTGCCA
1 TCAAGGAGATAAGGATGGTGGCTTAAATCTGCTCCATTGCCGCTACATAGAAATAAGATTTGCCA
* * *
45374276 TCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTCCACTGCA
66 TCTTCGATCTACTCCACTACTACTTAGGAAGATAAGATCTACAATTTTCAGTCTACTCCACTGCA
* * *
45374341 ACTTCAGGGTGATAAGACTTGTATCTTGAACCTGCTCCGCTGCAACTTTAGAGAGATAAGGCTGG
131 ACTTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTACAACTTTAGAGAGATAAGGCTGG
* * ** * *
45374406 TGGCTTAAATCTGCTCTATTGCCACTACATGGAGGTAAGATTTTCCGTCTTCAATCTGCTCCACT
196 TGGCTTAAATCTGCTCCATTGCCACTACATAGAAATAAGATTTGCCGTCTTCAATATGCTCCACT
45374471 ACTGCTTAGGAAGATAAGATCTGTAATTTTTAGTCTGCTCCACTGCAACTTCAGGGTGATAAGAA
261 ACTGCTTAGGAAGATAAGATCTGTAATTTTTAGTCTGCTCCACTGCAACTTCAGGGTGATAAGAA
45374536 TTGTATCTTGAACCTGTTCCGCTGCAACT
326 TTGTATCTTGAACCTGTTCCGCTGCAACT
* * * * *
45374565 TCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTTTCCG
1 TCAAGGAGATAAGGATGGTGGCTTAAATCTGCTCCATTGCCGCTACATAGAAATAAGATTTGCCA
* *
45374630 TCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACAATTTTCAGTCTACTCCACTGCA
66 TCTTCGATCTACTCCACTACTACTTAGGAAGATAAGATCTACAATTTTCAGTCTACTCCACTGCA
* * *
45374695 ACTTTAGGGAGATAAGACTTGTATCTTGAAGCTGCTCCACTACAACTTTAGGGAGATAAGGCTGG
131 ACTTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTACAACTTTAGAGAGATAAGGCTGG
* * **
45374760 TGGCTTAAATCTGCTCCATTGCCACTATATAGAAATAAGATTTGCTGTCTTTGATATGCTCCACT
196 TGGCTTAAATCTGCTCCATTGCCACTACATAGAAATAAGATTTGCCGTCTTCAATATGCTCCACT
*
45374825 ACTGCTTAGGGAGATAAGATCTGTAA
261 ACTGCTTAGGAAGATAAGATCTGTAA
45374851 ATTCACCGAT
Statistics
Matches: 258, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
354 258 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (354 bp):
TCAAGGAGATAAGGATGGTGGCTTAAATCTGCTCCATTGCCGCTACATAGAAATAAGATTTGCCA
TCTTCGATCTACTCCACTACTACTTAGGAAGATAAGATCTACAATTTTCAGTCTACTCCACTGCA
ACTTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTACAACTTTAGAGAGATAAGGCTGG
TGGCTTAAATCTGCTCCATTGCCACTACATAGAAATAAGATTTGCCGTCTTCAATATGCTCCACT
ACTGCTTAGGAAGATAAGATCTGTAATTTTTAGTCTGCTCCACTGCAACTTCAGGGTGATAAGAA
TTGTATCTTGAACCTGTTCCGCTGCAACT
Found at i:45374774 original size:44 final size:44
Alignment explanation
Indices: 45374685--45374777 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
45374675 TTTCAGTCTA
* * * *
45374685 CTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTGAAGCTG
1 CTCCACTACAACTTTAGGGAGATAAGACTGGTAGCTTAAAGCTG
* * *
45374729 CTCCACTACAACTTTAGGGAGATAAGGCTGGTGGCTTAAATCTG
1 CTCCACTACAACTTTAGGGAGATAAGACTGGTAGCTTAAAGCTG
45374773 CTCCA
1 CTCCA
45374778 TTGCCACTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (44 bp):
CTCCACTACAACTTTAGGGAGATAAGACTGGTAGCTTAAAGCTG
Found at i:45376116 original size:1 final size:1
Alignment explanation
Indices: 45376065--45376096 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
45376055 TTAGCCTCTC
*
45376065 TTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
45376097 GTGTTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:45378707 original size:93 final size:93
Alignment explanation
Indices: 45378600--45378770 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
45378590 GCCCATAAGT
* *
45378600 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
45378665 CGAGTTTGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
45378693 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45378758 CGAGTTCGGATGC
66 CGAGTTCGGATGC
45378771 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:45378767 original size:46 final size:46
Alignment explanation
Indices: 45378592--45378767 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
45378582 TGTAACCCGC
* * *
45378592 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
45378638 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
45378688 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
45378731 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45378768 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45379227 original size:30 final size:30
Alignment explanation
Indices: 45379193--45379252 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
45379183 ATTTAATACG
45379193 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
45379223 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
45379253 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:45381328 original size:32 final size:32
Alignment explanation
Indices: 45381286--45381352 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
45381276 TACTCAATTG
**
45381286 AATTTCCGTACATGTCTGTACCATATCGTACC
1 AATTTCCGTACATACCTGTACCATATCGTACC
*
45381318 AATTTTCGTACATACCTGTACCATATCGTACC
1 AATTTCCGTACATACCTGTACCATATCGTACC
45381350 AAT
1 AAT
45381353 CTCATACTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.34
Consensus pattern (32 bp):
AATTTCCGTACATACCTGTACCATATCGTACC
Found at i:45381489 original size:42 final size:42
Alignment explanation
Indices: 45381424--45381586 Score: 177
Period size: 42 Copynumber: 3.9 Consensus size: 42
45381414 GGGAATCTTC
* * * * * *
45381424 CACACTAAATGCCAATACGTAGCCGAAGATAACTCAATCACG
1 CACACTAAGTGCCAATGCATAGCCGAAGCTATCTCAATCTCG
* *
45381466 CACACTAAGTGCCAACGCATAGCCGGAGCTATC-CTAATCTCG
1 CACACTAAGTGCCAATGCATAGCCGAAGCTATCTC-AATCTCG
* *
45381508 CACACTAAGT-CCTAATGCATAGCCGAAGCTATCCCGATCTCG
1 CACACTAAGTGCC-AATGCATAGCCGAAGCTATCTCAATCTCG
* * *
45381550 TACCCTAAGTGCCAATGCATAGTCGAAGCTATCTCAA
1 CACACTAAGTGCCAATGCATAGCCGAAGCTATCTCAA
45381587 ATATTTCCAT
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
41 3 0.03
42 95 0.94
43 3 0.03
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.20
Consensus pattern (42 bp):
CACACTAAGTGCCAATGCATAGCCGAAGCTATCTCAATCTCG
Found at i:45387799 original size:3 final size:3
Alignment explanation
Indices: 45387785--45388131 Score: 63
Period size: 3 Copynumber: 112.3 Consensus size: 3
45387775 AGTAGGACAG
* * * * *
45387785 ATA ATA AAA ATA ATA GTA ATA AAA AT- ATA TATA ATG GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * * * *
45387830 TTA A-A AAA AGTAA ATA TATA ATG ATG ATA ATA GTA TTA A-A AAA ATA
1 ATA ATA ATA A-T-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
45387876 ATA ATA ATGA ACA CATGA CATA TTA ATG ATA ATA GAAA ATG ATG ATA
1 ATA ATA AT-A ATA -AT-A -ATA ATA ATA ATA ATA -ATA ATA ATA ATA
*
45387923 ATA ATA ATGGA AGTA ATGA A-A ATA ATA ATA ATA GA-A ACA ATA ATA
1 ATA ATA AT--A A-TA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * *
45387968 ATA A-A AGTA ATA CTA A-A ATA GAAA ATA ACA ATG ATA CATTA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA ATA ATA
* * * * * * * **
45388015 ATA A-C ATA CGTG CTA ATA ATA ATA ACA ACA TATA A-A AAA AGG A-A
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * *
45388059 ATA AT- ATT ATA TTA ATA AAA ATA ATA ATA GTA ATA AAA AGGTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA
45388104 AGTA ATA ATA A-A ATA ATA ATA ATA ATA A
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA A
45388132 CACTCTCCCC
Statistics
Matches: 250, Mismatches: 59, Indels: 70
0.66 0.16 0.18
Matches are distributed among these distances:
2 23 0.09
3 185 0.74
4 29 0.12
5 12 0.05
6 1 0.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:45387852 original size:32 final size:32
Alignment explanation
Indices: 45387793--45387885 Score: 104
Period size: 32 Copynumber: 2.9 Consensus size: 32
45387783 AGATAATAAA
*
45387793 AATAATAGTAATAAAAAT-ATATATAATG-G-T
1 AATAATATTAA-AAAAATAATATATAATGAGAT
45387823 AATAATATTAAAAAAAGTAAATATATAATGATGAT
1 AATAATATTAAAAAAA-T-AATATATAATGA-GAT
*
45387858 AATAGTATTAAAAAAATAATA-ATAATGA
1 AATAATATTAAAAAAATAATATATAATGA
45387886 ACACATGACA
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
29 5 0.09
30 11 0.20
32 17 0.31
33 4 0.07
34 2 0.04
35 16 0.29
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (32 bp):
AATAATATTAAAAAAATAATATATAATGAGAT
Found at i:45387868 original size:35 final size:34
Alignment explanation
Indices: 45387807--45387885 Score: 101
Period size: 35 Copynumber: 2.4 Consensus size: 34
45387797 ATAGTAATAA
* *
45387807 AAATATAT-ATAATGGTAATAATATTAAAAAAAGT
1 AAATATATAATGATGATAATAATATTAAAAAAA-T
*
45387841 AAATATATAATGATGATAATAGTATTAAAAAAAT
1 AAATATATAATGATGATAATAATATTAAAAAAAT
45387875 -AATA-ATAATGA
1 AAATATATAATGA
45387886 ACACATGACA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
32 7 0.17
33 4 0.10
34 9 0.22
35 21 0.51
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (34 bp):
AAATATATAATGATGATAATAATATTAAAAAAAT
Found at i:45387970 original size:24 final size:24
Alignment explanation
Indices: 45387872--45387979 Score: 84
Period size: 24 Copynumber: 4.5 Consensus size: 24
45387862 GTATTAAAAA
45387872 AATAATAATAAT-GAACACATGACAT
1 AATAATAATAATAGAACA-ATGA-AT
* *
45387897 ATTAATGATAATAGAA-AATG-AT
1 AATAATAATAATAGAACAATGAAT
* * *
45387919 GATAATAATAATGGAAGTAATGAA-
1 AATAATAATAATAGAA-CAATGAAT
45387943 AATAATAATAATAGAAACAAT-AAT
1 AATAATAATAATAG-AACAATGAAT
45387967 AATAA-AAGTAATA
1 AATAATAA-TAATA
45387980 CTAAAATAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
22 14 0.21
23 4 0.06
24 32 0.48
25 14 0.21
26 3 0.04
ACGTcount: A:0.59, C:0.04, G:0.11, T:0.26
Consensus pattern (24 bp):
AATAATAATAATAGAACAATGAAT
Found at i:45388096 original size:17 final size:18
Alignment explanation
Indices: 45388057--45388131 Score: 73
Period size: 20 Copynumber: 4.0 Consensus size: 18
45388047 TAAAAAAAGG
*
45388057 AAATAATATTATATTAATAA
1 AAATAATA--ATAATAATAA
*
45388077 AAATAATAATAGTAATAA
1 AAATAATAATAATAATAA
45388095 AAAGGTAA-AAGTAATAAT-A
1 AAA--TAATAA-TAATAATAA
45388114 AAATAATAATAATAATAA
1 AAATAATAATAATAATAA
45388132 CACTCTCCCC
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
17 10 0.21
18 15 0.31
19 6 0.12
20 17 0.35
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
AAATAATAATAATAATAA
Found at i:45388733 original size:29 final size:30
Alignment explanation
Indices: 45388659--45388729 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 30
45388649 AAGAAAGCCC
45388659 AAAT-TATACATAAATAAATTTTAAAGAGA
1 AAATATATACATAAATAAATTTTAAAGAGA
*
45388688 ATATATATACAT-AATAAA-TTTAAA-AGA
1 AAATATATACATAAATAAATTTTAAAGAGA
*
45388715 AAATATTTACATAAA
1 AAATATATACATAAA
45388730 ATAATATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 13 0.35
28 8 0.22
29 9 0.24
30 7 0.19
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (30 bp):
AAATATATACATAAATAAATTTTAAAGAGA
Found at i:45390495 original size:177 final size:177
Alignment explanation
Indices: 45390228--45390634 Score: 582
Period size: 177 Copynumber: 2.3 Consensus size: 177
45390218 CAACTTTAAG
* *
45390228 GAGATAAGGTTAATGGCTTAAATCTGCTCCATAGCCGATACATAGG-GATAAGACTCGCCATTTT
1 GAGATAAGGTTAGTGGCTAAAATCTGCTCCATAGCCGATACAT-GGAGATAAGACTCGCCATTTT
* * * * * *
45390292 TTATTTGCTCTACAGCCGACACATGGAGATAAGATCTGCAATTTTCAGTCTGCTTCTTGCAACTT
65 TGATCTACTCCACAGCCGACACATGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTGCAACTA
*
45390357 TAGGAAGATAAGACCTGTACCTTCAACCCGCTCTCTTGCTACCTCACA
130 CAGGAAGATAAGACCTGTACCTTCAACCCGCTCTCTTGCTACCTCACA
* * *
45390405 GTGATAAGGATAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGTCATTTTT
1 GAGATAAGGTTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTT
* * *
45390470 GATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTAC
66 GATCTACTCCACAGCCGACACATGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTGCAACTAC
* * ** * *
45390535 AGGAAGATAAGACTTGTATCTTCAACTTGCTCTCTTGTTACCTCAGA
131 AGGAAGATAAGACCTGTACCTTCAACCCGCTCTCTTGCTACCTCACA
* * *
45390582 GAGATAAGGTTGGTGGCTAAAGTCTGCTCCATAGCCGATACATGTAGATAAGA
1 GAGATAAGGTTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
45390635 TCTGTAACTT
Statistics
Matches: 203, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
176 2 0.01
177 201 0.99
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (177 bp):
GAGATAAGGTTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTT
GATCTACTCCACAGCCGACACATGGAGATAAGATCTGCAATTTTCAGTCTGCTTCCTGCAACTAC
AGGAAGATAAGACCTGTACCTTCAACCCGCTCTCTTGCTACCTCACA
Found at i:45390513 original size:45 final size:45
Alignment explanation
Indices: 45390426--45390513 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
45390416 AGTGGCTAAA
* *
45390426 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGTCATTTTTG
1 ATCTACTCCATAGCCGATACATGGAGATAAGACTCGTAATTTTTG
45390471 ATCTACTCCATAGCCGATACATGGAGATAAGA-TCTGTAATTTT
1 ATCTACTCCATAGCCGATACATGGAGATAAGACTC-GTAATTTT
45390514 CAGTCTGCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 2 0.05
45 38 0.95
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (45 bp):
ATCTACTCCATAGCCGATACATGGAGATAAGACTCGTAATTTTTG
Found at i:45390786 original size:132 final size:132
Alignment explanation
Indices: 45390472--45390766 Score: 500
Period size: 132 Copynumber: 2.2 Consensus size: 132
45390462 TCATTTTTGA
45390472 TCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTACAG
1 TCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTACAG
* * * *
45390537 GAAGATAAGACTTGTATCTTCAACTTGCTCTCTTGTTACCTCAGAGAGATAAGGTTGGTGGCTAA
66 GAAGATAAGACCTGTATCTTCAACTTGCTCCCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAA
45390602 AG
131 AG
* * * *
45390604 TCTGCTCCATAGCCGATACATGTAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAG
1 TCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTACAG
*
45390669 GAAGATAAGACCTGTATCTTCAACTTGCTCCCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAA
66 GAAGATAAGACCTGTATCTTCAACTTGCTCCCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAA
*
45390734 AT
131 AG
45390736 TCTACTCCATAGCCGATACATGGAGATAAGA
1 TCTACTCCATAGCCGATACATGGAGATAAGA
45390767 CTTGCCATTT
Statistics
Matches: 151, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 151 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (132 bp):
TCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTACAG
GAAGATAAGACCTGTATCTTCAACTTGCTCCCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAA
AG
Found at i:45398277 original size:29 final size:29
Alignment explanation
Indices: 45398240--45398310 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
45398230 GAGAGAATGA
* *
45398240 CACTAAGTGTGCGGGCTTGAAA-TGCATGG
1 CACTAAGTGTGCGAG-TTGAAAGTACATGG
*
45398269 CACTAAGTGTGCGAGTTTAAAGTACATGG
1 CACTAAGTGTGCGAGTTGAAAGTACATGG
45398298 CACTAAGTGTGCG
1 CACTAAGTGTGCG
45398311 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
CACTAAGTGTGCGAGTTGAAAGTACATGG
Found at i:45405614 original size:127 final size:127
Alignment explanation
Indices: 45405339--45405576 Score: 334
Period size: 127 Copynumber: 1.9 Consensus size: 127
45405329 TTCGAGTTTG
* * *
45405339 TTAAGATTCACTCGTTCTAAAGGAATTAAATACCACATCAGCACATTAGGACACGATATTTTAAA
1 TTAAGATTCACTCGGTCCAAAGGAATAAAATACCACATCAGCACATTAGGACACGATATTTTAAA
* * * ** *
45405404 CTTCCAAAAAAAACTGAGATCACTTCATGATTTCCAAAACACGCGAAACAACTCAAGTTGGATT
66 CCTCC--AAAAAACTGAGATCACCTCATGATTTCCAAAACACGAGAAACAACTCAAAATGGATA
* *
45405468 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
1 TTAAGATTCACTCGGTCCAAAGGAATAAAATACCACAT-CAGCACATTAGGACACGATATTTTAA
*
45405533 GCCTCC-AAAAACTGAGATCACCTCATGATTTCCAAAACACGAGA
65 ACCTCCAAAAAACTGAGATCACCTCATGATTTCCAAAACACGAGA
45405577 TGAAAATTTT
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
127 36 0.36
129 36 0.36
130 29 0.29
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (127 bp):
TTAAGATTCACTCGGTCCAAAGGAATAAAATACCACATCAGCACATTAGGACACGATATTTTAAA
CCTCCAAAAAACTGAGATCACCTCATGATTTCCAAAACACGAGAAACAACTCAAAATGGATA
Found at i:45406264 original size:29 final size:30
Alignment explanation
Indices: 45406190--45406260 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 30
45406180 AAGAAAGCCC
*
45406190 AAAT-TATGCATAAATAAATTTTAAAGAGA
1 AAATATATACATAAATAAATTTTAAAGAGA
*
45406219 ATATATATACAT-AATAAA-TTTAAA-AGA
1 AAATATATACATAAATAAATTTTAAAGAGA
*
45406246 AAATATTTACATAAA
1 AAATATATACATAAA
45406261 ATAATATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 13 0.36
28 8 0.22
29 9 0.25
30 6 0.17
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (30 bp):
AAATATATACATAAATAAATTTTAAAGAGA
Found at i:45408123 original size:18 final size:19
Alignment explanation
Indices: 45408101--45408144 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
45408091 TAAATTATGA
*
45408101 AATTTTTATAAATT-TTTT
1 AATTTTTAAAAATTATTTT
*
45408119 TATTTTTAAAAATTATTTT
1 AATTTTTAAAAATTATTTT
45408138 AATTTTT
1 AATTTTT
45408145 TTTTGTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
AATTTTTAAAAATTATTTT
Found at i:45408144 original size:20 final size:20
Alignment explanation
Indices: 45408056--45408145 Score: 60
Period size: 18 Copynumber: 4.4 Consensus size: 20
45408046 TATTCTTTAG
*
45408056 AATTTTTTTAAAA-TATTTT
1 AATTTTTTAAAAATTATTTT
* *
45408075 ATATATTTTTAAAATATAAATTATG
1 A-AT-TTTTTAAAA-AT-TATT-TT
* *
45408100 AAATTTTTATAAATT-TTTT
1 AATTTTTTAAAAATTATTTT
*
45408119 TA-TTTTTAAAAATTATTTT
1 AATTTTTTAAAAATTATTTT
45408138 AATTTTTT
1 AATTTTTT
45408146 TTTGTAATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
18 11 0.21
19 8 0.15
20 9 0.17
21 8 0.15
22 3 0.06
23 8 0.15
24 4 0.08
25 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (20 bp):
AATTTTTTAAAAATTATTTT
Found at i:45409674 original size:16 final size:17
Alignment explanation
Indices: 45409649--45409700 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
45409639 TAACTTTATC
* *
45409649 ATTATTAATT-TAAAAT
1 ATTATAAATTATAAAAA
45409665 ATTATAAATTATAAAAA
1 ATTATAAATTATAAAAA
45409682 ATT-TAAA-TA-AAAAA
1 ATTATAAATTATAAAAA
45409696 ATTAT
1 ATTAT
45409701 TTTAAGGGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 8 0.25
15 3 0.09
16 13 0.41
17 8 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTATAAATTATAAAAA
Found at i:45417958 original size:2 final size:2
Alignment explanation
Indices: 45417951--45417983 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
45417941 AACATTAATA
45417951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45417984 ACAACAGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45423196 original size:50 final size:49
Alignment explanation
Indices: 45423130--45423267 Score: 170
Period size: 49 Copynumber: 2.8 Consensus size: 49
45423120 TGTGAGGTTG
**
45423130 CATGTGTAGTACTAAGTGTAGGCTACTATGTGTATTAGA-TGGTGAGGTCA
1 CATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGACT-GT-AGGTCA
* * * * *
45423180 CGTGTGTAGTACTAAGTGTAGGCTAATACGTGTACCAGACTGTTGGTCG
1 CATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGACTGTAGGTCA
* *
45423229 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGA
45423268 TAGCTTCGGC
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
49 38 0.51
50 36 0.48
51 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGACTGTAGGTCA
Found at i:45423264 original size:49 final size:50
Alignment explanation
Indices: 45423121--45423268 Score: 183
Period size: 50 Copynumber: 3.0 Consensus size: 50
45423111 ATGATCTATT
* **
45423121 GTGAGGTTGCATGTGTAGTACTAAGTGTAGGCTACTATGTGTATTAGATG
1 GTGAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATG
* * * *
45423171 GTGAGGTCACGTGTGTAGTACTAAGTGTAGGCTAATACGTGTACCAGACT-
1 GTGAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGA-TG
* * *
45423221 GT-TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 GTGAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGAT
45423269 AGCTTCGGCT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.01
49 38 0.46
50 43 0.52
51 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.31
Consensus pattern (50 bp):
GTGAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATG
Found at i:45426867 original size:30 final size:30
Alignment explanation
Indices: 45426831--45426892 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
45426821 AAAAGTGGTT
45426831 ATTATATGTTGAAATACTAGATTTTATGTC
1 ATTATATGTTGAAATACTAGATTTTATGTC
45426861 ATTATATGTTGAAATACTAGATTTTATGTC
1 ATTATATGTTGAAATACTAGATTTTATGTC
45426891 AT
1 AT
45426893 GTAATAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (30 bp):
ATTATATGTTGAAATACTAGATTTTATGTC
Found at i:45436913 original size:46 final size:46
Alignment explanation
Indices: 45436853--45437028 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
45436843 TATTTGGGCA
* * * *
45436853 TCCGAACTCGTTGAGTTGAGTCCAATTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
45436899 TCCGAGCTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
45436946 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
45436992 CCCGAGCTCGTTGAATTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45437029 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:45437011 original size:93 final size:93
Alignment explanation
Indices: 45436849--45437021 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
45436839 AGGATATTTG
* * * *
45436849 GGCATCCGAACTCGTTGAGTTGAGTCCAATTTCACTTATGGATGCAAATGTCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAA
45436914 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
45436942 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAA
45437007 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
45437022 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAA
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:45438724 original size:39 final size:39
Alignment explanation
Indices: 45438665--45438746 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
45438655 CTATAACTAT
* *
45438665 TACTAAAATTCCTATCGGAAACCCAATTTTGTAACCAAA
1 TACTAAAATTCCTATCGGAAACACAACTTTGTAACCAAA
*
45438704 TACTAAAATTCCTATTGGAAACACAACTTTGTAACCAAA
1 TACTAAAATTCCTATCGGAAACACAACTTTGTAACCAAA
45438743 TACT
1 TACT
45438747 TTGTAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (39 bp):
TACTAAAATTCCTATCGGAAACACAACTTTGTAACCAAA
Found at i:45440626 original size:168 final size:167
Alignment explanation
Indices: 45440348--45440683 Score: 618
Period size: 168 Copynumber: 2.0 Consensus size: 167
45440338 CTTTATGCTG
*
45440348 AAAGCTGGATAGGTGTGCAAACATTTGTGAAGAACAAGTAGAACATCAGTTTTATATAATTTCTG
1 AAAGCTGGATAGGTGTGCAAACATTTGTGAAGAACAAGTAGAACATCAGTTTTATAAAATTTCTG
* *
45440413 TAAACCTTAAACTTTTTAAGAAAGCACTTTTGTAGTATTATATTATTTTCTTGAAGTTCTTTTAC
66 AAAACCTTAAACTTTTTAAGAAAGCACTTTTGTAATATTATATTATTTTCTTGAAGTTCTTTTAC
*
45440478 TACTAGAAAATACCCAACCTATTATTACAGTCAAAAGA
131 TACTAGAAAATACCCAA-CTACTATTACAGTCAAAAGA
45440516 AAAGCTGGATAGGTGTGCAAACATTTGTGAAGAACAAGTAGAACATCAGTTTTATAAAATTTCTG
1 AAAGCTGGATAGGTGTGCAAACATTTGTGAAGAACAAGTAGAACATCAGTTTTATAAAATTTCTG
45440581 AAAACCTTAAACTTTTTAAGAAAGCACTTTTGTAATATTATATTATTTTCTTGAAGTTCTTTTAC
66 AAAACCTTAAACTTTTTAAGAAAGCACTTTTGTAATATTATATTATTTTCTTGAAGTTCTTTTAC
*
45440646 TACTAGAAAATCCCCAACTACTATTACAGTCAAAAGA
131 TACTAGAAAATACCCAACTACTATTACAGTCAAAAGA
45440683 A
1 A
45440684 TCCACAGAAC
Statistics
Matches: 163, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
167 20 0.12
168 143 0.88
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (167 bp):
AAAGCTGGATAGGTGTGCAAACATTTGTGAAGAACAAGTAGAACATCAGTTTTATAAAATTTCTG
AAAACCTTAAACTTTTTAAGAAAGCACTTTTGTAATATTATATTATTTTCTTGAAGTTCTTTTAC
TACTAGAAAATACCCAACTACTATTACAGTCAAAAGA
Found at i:45449435 original size:17 final size:17
Alignment explanation
Indices: 45449413--45449450 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
45449403 AATTTAGATG
*
45449413 TAAAATATACTA-AAATA
1 TAAAATAAACTAGAAA-A
45449430 TAAAATAAACTAGAAAA
1 TAAAATAAACTAGAAAA
45449447 TAAA
1 TAAA
45449451 TTTTTCTACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (17 bp):
TAAAATAAACTAGAAAA
Found at i:45449835 original size:35 final size:35
Alignment explanation
Indices: 45449789--45449860 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
45449779 GGTAGTTCAG
45449789 TTTCCATTCCCCAAACTGTTAAAAAGCAAAAATCA
1 TTTCCATTCCCCAAACTGTTAAAAAGCAAAAATCA
45449824 TTTCCATTCCCCAAACTGTTAAAAAGCAAAAATCA
1 TTTCCATTCCCCAAACTGTTAAAAAGCAAAAATCA
45449859 TT
1 TT
45449861 CTTTTGACCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.28
Consensus pattern (35 bp):
TTTCCATTCCCCAAACTGTTAAAAAGCAAAAATCA
Found at i:45449923 original size:27 final size:28
Alignment explanation
Indices: 45449878--45449934 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
45449868 CCTTTCTTTT
*
45449878 TTTATAGTATAATAGCTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
*
45449906 TTTATA-TTTAATAACTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
45449933 TT
1 TT
45449935 CCATTCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (28 bp):
TTTATAGTATAATAACTAGAACTAATTA
Found at i:45450053 original size:15 final size:17
Alignment explanation
Indices: 45450033--45450064 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45450023 TCATTTCATT
45450033 TATAT-AAT-CATAAAA
1 TATATAAATGCATAAAA
45450048 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
45450065 AGATTTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:45450146 original size:31 final size:31
Alignment explanation
Indices: 45450111--45450170 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
45450101 AACTAAATAG
45450111 AAATAAATTTAATCTATATTAAATCTATTCA
1 AAATAAATTTAATCTATATTAAATCTATTCA
45450142 AAATAAATTTAATCTATATTAAATCTATT
1 AAATAAATTTAATCTATATTAAATCTATT
45450171 AAATCGATCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.43
Consensus pattern (31 bp):
AAATAAATTTAATCTATATTAAATCTATTCA
Found at i:45450247 original size:17 final size:17
Alignment explanation
Indices: 45450225--45450262 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
45450215 AATTTAGATG
*
45450225 TAAAATATACTA-AAATA
1 TAAAATAAACTAGAAA-A
45450242 TAAAATAAACTAGAAAA
1 TAAAATAAACTAGAAAA
45450259 TAAA
1 TAAA
45450263 TTCAGTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (17 bp):
TAAAATAAACTAGAAAA
Found at i:45451243 original size:36 final size:34
Alignment explanation
Indices: 45451202--45451275 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 34
45451192 AATGAAATTC
*
45451202 TAAATTATTAAATTAATAATTTATTTTAATTATACT
1 TAAATTATTAAATTAATAATTT-TTCTAATTA-ACT
* *
45451238 T-AA--ATTAAATTATTAATTTTTCTATTTAACT
1 TAAATTATTAAATTAATAATTTTTCTAATTAACT
45451269 TAAATTA
1 TAAATTA
45451276 AATAATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
31 4 0.12
32 9 0.28
33 15 0.47
34 1 0.03
35 2 0.06
36 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (34 bp):
TAAATTATTAAATTAATAATTTTTCTAATTAACT
Found at i:45451273 original size:31 final size:33
Alignment explanation
Indices: 45451208--45451315 Score: 118
Period size: 31 Copynumber: 3.4 Consensus size: 33
45451198 ATTCTAAATT
*
45451208 ATTAAATTAATAATTTATTTTAATTATACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
* *
45451241 ATTAAATTATTAATTT-TTCTATTTA-ACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
** *
45451272 ATTAAA-TAATAATAAATTCTAAATATAC-TAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
45451303 ATATAAA-TAATAA
1 AT-TAAATTAATAA
45451316 CTAAATAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
30 6 0.09
31 24 0.38
32 19 0.30
33 15 0.23
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (33 bp):
ATTAAATTAATAATTTATTCTAATTATACTTAA
Found at i:45451311 original size:26 final size:28
Alignment explanation
Indices: 45451274--45451341 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 28
45451264 TAACTTAAAT
*
45451274 TAAATAATAATAAAT-TCTAAAT-AT-AC
1 TAAATAA-AATAAATAACTAAATAATAAC
45451300 TAAATATAAAT-AATAACTAAATAATAAC
1 TAAATA-AAATAAATAACTAAATAATAAC
45451328 TAAATAGAAATAAA
1 TAAATA-AAATAAA
45451342 AATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 3 0.09
26 15 0.43
27 3 0.09
28 12 0.34
29 2 0.06
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.29
Consensus pattern (28 bp):
TAAATAAAATAAATAACTAAATAATAAC
Found at i:45451322 original size:11 final size:11
Alignment explanation
Indices: 45451306--45451333 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
45451296 ATACTAAATA
45451306 TAAATAATAAC
1 TAAATAATAAC
45451317 TAAATAATAAC
1 TAAATAATAAC
45451328 TAAATA
1 TAAATA
45451334 GAAATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAATAATAAC
Found at i:45451323 original size:15 final size:14
Alignment explanation
Indices: 45451269--45451429 Score: 82
Period size: 15 Copynumber: 10.9 Consensus size: 14
45451259 CTATTTAACT
45451269 TAAATTAAATAATAA
1 TAAA-TAAATAATAA
*
45451284 TAAATTCTAAAT-ATAC
1 TAAA---TAAATAATAA
*
45451300 TAAATATA-AATAA
1 TAAATAAATAATAA
*
45451313 TAACTAAATAATAA
1 TAAATAAATAATAA
*
45451327 CTAAATAGA-AATAA
1 -TAAATAAATAATAA
45451341 -AAATATATATAATATA
1 TAAATA-A-ATAATA-A
*
45451357 TAAAAATAATATATAAA
1 TAAATA-AATA-AT-AA
*
45451374 TAGATAATATAATAA
1 TAAATAA-ATAATAA
*
45451389 TAGATAATATAATAA
1 TAAATAA-ATAATAA
*
45451404 TAGATAGAATAAT-A
1 TAAATA-AATAATAA
45451418 -AAATAAATAATA
1 TAAATAAATAATA
45451430 TAGAAATGTA
Statistics
Matches: 118, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
12 11 0.09
13 16 0.14
14 12 0.10
15 42 0.36
16 15 0.13
17 21 0.18
18 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (14 bp):
TAAATAAATAATAA
Found at i:45451339 original size:43 final size:40
Alignment explanation
Indices: 45451274--45451479 Score: 126
Period size: 40 Copynumber: 5.0 Consensus size: 40
45451264 TAACTTAAAT
**
45451274 TAAATAATAATAAATTCTAAATATACTAAATATAAATAATAA
1 TAAATAATAATAAA-TAGAAATATA-TAAATATAAATAATAA
*
45451316 CTAAATAATAACTAAATAGAAATA-A-AAATATATATAATATA
1 -TAAATAATAA-TAAATAGAAATATATAAATATAAATAATA-A
* *
45451357 TAAA-AATAAT--ATATAAATAGAT-AATAT-AATAATAGA
1 TAAATAATAATAAATAGAAATATATAAATATAAATAATA-A
*
45451393 TAATATAATAATAGATAG-AATA-ATAAA-ATAAATAATATA
1 TAA-ATAATAATAAATAGAAATATATAAATATAAATAATA-A
* * * *
45451432 GAAATGTAGATTTATAAATTGAAATATATTAATATTAATATAATAA
1 TAAA--TA-A-TAATAAATAGAAATATATAAATA-TAA-ATAATAA
45451478 TA
1 TA
45451480 TAAATATTAT
Statistics
Matches: 130, Mismatches: 14, Indels: 35
0.73 0.08 0.20
Matches are distributed among these distances:
36 18 0.14
37 7 0.05
38 12 0.09
39 21 0.16
40 22 0.17
41 2 0.02
42 8 0.06
43 20 0.15
44 8 0.06
45 1 0.01
46 5 0.04
47 6 0.05
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (40 bp):
TAAATAATAATAAATAGAAATATATAAATATAAATAATAA
Found at i:45451365 original size:42 final size:43
Alignment explanation
Indices: 45451318--45451399 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
45451308 AATAATAACT
*
45451318 AAATAATA-ACTAAATAGA-AATAAAA-ATATATATAATATATAA
1 AAATAATATA-TAAATAGATAATAAAATA-ATAGATAATATATAA
*
45451360 AAATAATATATAAATAGATAATATAATAATAGATAATATA
1 AAATAATATATAAATAGATAATAAAATAATAGATAATATA
45451400 ATAATAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 16 0.46
43 18 0.51
44 1 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (43 bp):
AAATAATATATAAATAGATAATAAAATAATAGATAATATATAA
Found at i:45451385 original size:20 final size:20
Alignment explanation
Indices: 45451328--45451486 Score: 70
Period size: 20 Copynumber: 8.1 Consensus size: 20
45451318 AAATAATAAC
*
45451328 TAAATAGA-AATAAAAATATA
1 TAAATAGATAAT-ATAATATA
* *
45451348 TATAATATATAAAAATAATATA
1 TA-AATAGAT-AATATAATATA
45451370 TAAATAGAT-A-AT-ATA-A
1 TAAATAGATAATATAATATA
45451386 T-AATAGATAATATAATA-A
1 TAAATAGATAATATAATATA
* * *
45451404 TAGATAGAATAATAAAATAAA
1 TAAATAG-ATAATATAATATA
* *
45451425 TAATATAGA-AATGTAGATTTA
1 TAA-ATAGATAATATA-ATATA
* *
45451446 TAAATTGA-AATATATTAATA
1 TAAATAGATAATATAAT-ATA
45451466 TTAATATA-ATAATATAA-ATA
1 -TAA-ATAGATAATATAATATA
45451486 T
1 T
45451487 TATTAATTAC
Statistics
Matches: 107, Mismatches: 17, Indels: 31
0.69 0.11 0.20
Matches are distributed among these distances:
15 7 0.07
16 3 0.03
17 5 0.05
18 7 0.07
19 7 0.07
20 30 0.28
21 25 0.23
22 21 0.20
23 2 0.02
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (20 bp):
TAAATAGATAATATAATATA
Found at i:45451473 original size:14 final size:14
Alignment explanation
Indices: 45451453--45451493 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
45451443 TTATAAATTG
45451453 AAATATATTAATAT
1 AAATATATTAATAT
* *
45451467 TAATATAATAATAT
1 AAATATATTAATAT
45451481 AAATATTATTAAT
1 AAATA-TATTAAT
45451494 TACTTAGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATATATTAATAT
Found at i:45455265 original size:11 final size:11
Alignment explanation
Indices: 45455241--45455278 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
45455231 TCTGTATTAT
45455241 TATATTA-TTA
1 TATATTATTTA
45455251 -ATATTATTTA
1 TATATTATTTA
*
45455261 TATATTATTAA
1 TATATTATTTA
45455272 TATATTA
1 TATATTA
45455279 AAATTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 6 0.24
10 3 0.12
11 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATATTATTTA
Found at i:45455292 original size:16 final size:15
Alignment explanation
Indices: 45455239--45455305 Score: 59
Period size: 14 Copynumber: 4.6 Consensus size: 15
45455229 TTTCTGTATT
*
45455239 ATTATAT-TATTAAT
1 ATTATATATATTAAA
* **
45455253 ATTATTTATA-TATT
1 ATTATATATATTAAA
45455267 ATTA-ATATATTAAA
1 ATTATATATATTAAA
*
45455281 ATTTATATATATTTAA
1 A-TTATATATATTAAA
45455297 ATTATATAT
1 ATTATATAT
45455306 TGAAATGATA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
13 4 0.09
14 16 0.37
15 13 0.30
16 10 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATATATTAAA
Found at i:45455304 original size:17 final size:16
Alignment explanation
Indices: 45455271--45455305 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45455261 TATATTATTA
45455271 ATATATTAAAATTTAT
1 ATATATTAAAATTTAT
*
45455287 ATATATTTAAA-TTAT
1 ATATATTAAAATTTAT
45455302 ATAT
1 ATAT
45455306 TGAAATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATTAAAATTTAT
Found at i:45455509 original size:21 final size:21
Alignment explanation
Indices: 45455469--45455507 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45455459 AAATCATGGA
*
45455469 TAAATCCAAGTGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
45455490 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
45455508 TCGTAGGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:45455603 original size:14 final size:14
Alignment explanation
Indices: 45455584--45455611 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45455574 TCAAGATAAA
45455584 GATAATATTGATCG
1 GATAATATTGATCG
45455598 GATAATATTGATCG
1 GATAATATTGATCG
45455612 AAGGTAAATA
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:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GATAATATTGATCG
Found at i:45458315 original size:21 final size:21
Alignment explanation
Indices: 45458275--45458313 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
45458265 AAATCATGGA
45458275 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
45458296 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
45458314 TCGTAGGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:45468239 original size:49 final size:49
Alignment explanation
Indices: 45468183--45468397 Score: 376
Period size: 49 Copynumber: 4.4 Consensus size: 49
45468173 TACATATATG
* * *
45468183 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
45468232 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
45468281 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
45468330 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
45468379 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
45468398 TAATGTAAAA
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 160 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:45468549 original size:37 final size:37
Alignment explanation
Indices: 45468499--45468583 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
45468489 GGAATATGTT
*
45468499 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
45468536 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
45468573 CCGGGTAAGAC
1 CCGGGTAAGAC
45468584 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:45471332 original size:50 final size:50
Alignment explanation
Indices: 45471214--45471508 Score: 286
Period size: 50 Copynumber: 5.9 Consensus size: 50
45471204 TTGTGAGAAA
* * * *** * * *
45471214 ACATGTGTAGTACTATGTGCAGGCTACCATGTGTTTAAGATGGTTTTAGTTT
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGTC
* *
45471266 ACATGTGTAGTACTAAGTGCAGGCTAGTACGTGTACCAGATAGTTAGGTT
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTC
* * * * * * * *
45471316 GCATGTGTAGTACTAAGTGCAGGCTACTATGGGTACCCGACAACTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTAGGTC
* * * *
45471367 ACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTC
* * *
45471417 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTC
* * **
45471466 GCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAG
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
45471509 CTTCGGTTAC
Statistics
Matches: 200, Mismatches: 42, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
49 40 0.20
50 87 0.44
51 38 0.19
52 35 0.17
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTC
Found at i:45471453 original size:101 final size:101
Alignment explanation
Indices: 45471271--45471453 Score: 294
Period size: 101 Copynumber: 1.8 Consensus size: 101
45471261 AGTTTACATG
* **
45471271 TGTAGTACTAAGTGCAGGCTAGTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGC
*
45471336 AGGCTACTATGGGTACCCGACAACTTCGATCACGTA
66 AGGCTACTACGGGTACCCGACAACTTCGATCACGTA
* * *
45471372 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGC
*
45471437 AGGCTACTACGTGTACC
66 AGGCTACTACGGGTACC
45471454 GGATTGTTGG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (101 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGC
AGGCTACTACGGGTACCCGACAACTTCGATCACGTA
Found at i:45471513 original size:150 final size:152
Alignment explanation
Indices: 45471219--45471505 Score: 416
Period size: 151 Copynumber: 1.9 Consensus size: 152
45471209 AGAAAACATG
* * * * *
45471219 TGTAGTACTATGTGCAGGCTACCATGTGTTTAAGATGGTTTTAGTTTACATGTGTAGTACTAAGT
1 TGTAGTACTAAGTGCAGGCTACCACGTGTATAAGATGG-TTTAGGTCACATGTGTAGTACTAAGT
* * **
45471284 GCAGGCTAGTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGGG
65 GCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
*
45471349 TACCCGACAACTTCGATCACGTA
130 TACCAGACAACTTCGATCACGTA
* * *
45471372 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACTAAGTG
1 TGTAGTACTAAGTGCAGGCTACCACGTGTATAAGATGGTTTAGGTCACATGTGTAGTACTAAGTG
* *
45471436 CAGGCTACTACGTGTACCGGATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCAT
66 CAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCAT
45471500 ACCAGA
131 ACCAGA
45471506 TAGCTTCGGT
Statistics
Matches: 119, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
150 40 0.34
151 46 0.39
153 33 0.28
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (152 bp):
TGTAGTACTAAGTGCAGGCTACCACGTGTATAAGATGGTTTAGGTCACATGTGTAGTACTAAGTG
CAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCAT
ACCAGACAACTTCGATCACGTA
Found at i:45471537 original size:150 final size:152
Alignment explanation
Indices: 45471220--45471540 Score: 387
Period size: 150 Copynumber: 2.1 Consensus size: 152
45471210 GAAAACATGT
* * * * *
45471220 GTAGTACTATGTGCAGGCTACCATGTGTTTAAGATGGTTTTAGTTTACATGTGTAGTACTAAGTG
1 GTAGTAATATGTGCAGGCTACCACGTGTATAAGATGG-TTTAGGTCACATGTGTAGTACTAAGTG
* * **
45471285 CAGGCTAGTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGGGT
65 CAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCAT
* * *
45471350 ACCCGACAACTTCGATCACGTAT
130 ACCAGACAACTTCGATCACGAAG
* * * * *
45471373 GTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACTAAGTGC
1 GTAGTAATATGTGCAGGCTACCACGTGTATAAGATGGTTTAGGTCACATGTGTAGTACTAAGTGC
* *
45471437 AGGCTACTACGTGTACCGGATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATA
66 AGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATA
* * * *
45471501 CCAGATAGCTTCGGTTAC-AAGG
131 CCAGACAACTTCGATCACGAA-G
*
45471523 GTGGTAATATGTGCAGGC
1 GTAGTAATATGTGCAGGC
45471541 CACCGAGTAT
Statistics
Matches: 143, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
149 1 0.01
150 64 0.45
151 46 0.32
153 32 0.22
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (152 bp):
GTAGTAATATGTGCAGGCTACCACGTGTATAAGATGGTTTAGGTCACATGTGTAGTACTAAGTGC
AGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATA
CCAGACAACTTCGATCACGAAG
Found at i:45471727 original size:16 final size:15
Alignment explanation
Indices: 45471706--45471735 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
45471696 GAATAGAGTA
45471706 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
45471722 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
45471736 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:45476467 original size:37 final size:37
Alignment explanation
Indices: 45476408--45476516 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
45476398 AGCTCAGACG
* * *
45476408 AAATCTCCATACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
45476445 AAATCTCTACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
45476482 TAATCTCCACACGTAGTCATCGAGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
45476517 ATATATTTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:45476788 original size:48 final size:48
Alignment explanation
Indices: 45476662--45476894 Score: 378
Period size: 48 Copynumber: 4.8 Consensus size: 48
45476652 GCACATCGCC
*
45476662 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
45476712 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
45476760 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
45476808 TACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
45476856 TACATATTTCACATTAGCCATTTGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
45476895 TGCATGTTCA
Statistics
Matches: 171, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
48 127 0.74
49 2 0.01
50 42 0.25
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:45476943 original size:47 final size:47
Alignment explanation
Indices: 45476864--45477104 Score: 374
Period size: 47 Copynumber: 5.1 Consensus size: 47
45476854 CATACATATT
* * * * *
45476864 TCACATTAGCCATTTGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
45476911 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
45476958 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
45477005 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
45477052 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
45477099 TCACAT
1 TCACAT
45477105 AAAATCCTAA
Statistics
Matches: 179, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 179 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:45476984 original size:22 final size:22
Alignment explanation
Indices: 45476957--45477075 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
45476947 GCTCACATTC
45476957 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
45476979 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
45477003 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
45477026 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
45477050 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
45477073 ATC
1 ATC
45477076 TCATATATAC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 23 0.32
23 14 0.20
24 14 0.20
25 20 0.28
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:45478579 original size:2 final size:2
Alignment explanation
Indices: 45478572--45478607 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
45478562 TGCTGAATAC
45478572 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45478608 CATCAAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45481399 original size:29 final size:30
Alignment explanation
Indices: 45481366--45481422 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
45481356 AAAATCGTAT
*
45481366 TTTTG-CAAAATTACATTTTTGCCCCTAAA
1 TTTTGTCAAAATTACACTTTTGCCCCTAAA
45481395 TTTTGTCAAAATTACACTTTTGCCCCTA
1 TTTTGTCAAAATTACACTTTTGCCCCTA
45481423 GGCTCGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGTCAAAATTACACTTTTGCCCCTAAA
Found at i:45487023 original size:78 final size:80
Alignment explanation
Indices: 45486888--45487068 Score: 235
Period size: 78 Copynumber: 2.3 Consensus size: 80
45486878 TCAAATGATG
* *
45486888 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
45486953 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * **
45486967 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
45487029 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
45487046 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
45487069 TTGAACGAGT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.57
79 26 0.29
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:45487078 original size:40 final size:39
Alignment explanation
Indices: 45486889--45487071 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
45486879 CAAATGATGT
* *
45486889 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
45486928 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
45486969 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45487006 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
45487047 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45487072 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 23 0.19
39 19 0.16
40 70 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45495165 original size:78 final size:80
Alignment explanation
Indices: 45495030--45495210 Score: 235
Period size: 78 Copynumber: 2.3 Consensus size: 80
45495020 TCGAATGATG
* *
45495030 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
45495095 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * **
45495109 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
45495171 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
45495188 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
45495211 TTGAACGAGT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.57
79 26 0.29
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:45495220 original size:40 final size:39
Alignment explanation
Indices: 45495031--45495213 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
45495021 CGAATGATGT
* *
45495031 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
45495070 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
45495111 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45495148 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
45495189 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45495214 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 23 0.19
39 19 0.16
40 70 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45507731 original size:14 final size:13
Alignment explanation
Indices: 45507714--45507745 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
45507704 AAAGGTGAAT
45507714 TTTTTTATTTTTCC
1 TTTTTTATTTTT-C
45507728 TTTTTTATTTTTC
1 TTTTTTATTTTTC
45507741 TTTTT
1 TTTTT
45507746 GAATCTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTATTTTTC
Found at i:45509099 original size:3 final size:3
Alignment explanation
Indices: 45509048--45509084 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
45509038 TATATGGTTG
45509048 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
45509085 CGCCACATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:45520549 original size:111 final size:111
Alignment explanation
Indices: 45520355--45520581 Score: 436
Period size: 111 Copynumber: 2.0 Consensus size: 111
45520345 TAATAAAAAC
45520355 TTGATAAACAATAAGCAATGACAACTTAAGTATTAAAAGAGGGATCATTCTCACAAACATGACAT
1 TTGATAAACAATAAGCAATGACAACTTAAGTATTAAAAGAGGGATCATTCTCACAAACATGACAT
*
45520420 TCTATATTCACGCTAATATCATGCATACACATATAGTTAGGAGCAT
66 TCTACATTCACGCTAATATCATGCATACACATATAGTTAGGAGCAT
45520466 TTGATAAACAATAAGCAATGACAACTTAAGTATTAAAAGAGGGATCATTCTCACAAACATGACAT
1 TTGATAAACAATAAGCAATGACAACTTAAGTATTAAAAGAGGGATCATTCTCACAAACATGACAT
*
45520531 TCTGCATTCACGCTAATATCATGCATACACATATAGTTAGGAGCAT
66 TCTACATTCACGCTAATATCATGCATACACATATAGTTAGGAGCAT
45520577 TTGAT
1 TTGAT
45520582 TCATTCAGAT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 114 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (111 bp):
TTGATAAACAATAAGCAATGACAACTTAAGTATTAAAAGAGGGATCATTCTCACAAACATGACAT
TCTACATTCACGCTAATATCATGCATACACATATAGTTAGGAGCAT
Found at i:45520871 original size:44 final size:44
Alignment explanation
Indices: 45520777--45520903 Score: 132
Period size: 44 Copynumber: 2.9 Consensus size: 44
45520767 GAAGATAGCA
* * **
45520777 AATCTTATTTCCCTGAAGTTATAGTGGAACAGATTAAAGCTGTC
1 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTCAC
* *
45520821 AATCTTATTTTCTTGAAGTTGTAGTGGAACAGATTGAAG-TCAC
1 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTCAC
* * * *
45520864 GAGTCTTATCTCCCTGAAGATGTAGT-GAAGCAGACTGAAG
1 -AATCTTATTTCCCTGAAGTTGTAGTGGAA-CAGATTGAAG
45520904 ATAGTGAATC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 5 0.07
44 64 0.93
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (44 bp):
AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTCAC
Found at i:45520926 original size:133 final size:133
Alignment explanation
Indices: 45520699--45520950 Score: 326
Period size: 133 Copynumber: 1.9 Consensus size: 133
45520689 ACCTTATCCC
** * * * * *
45520699 CTTGAAGTTGCAGTGGGGCAGGTTGAAGTTACGAGTCCTATCTCCCTGAAGTTACAATGGAGCGG
1 CTTGAAGTTGCAGTGGAACAGATTGAAGTCACGAGTCCTATCTCCCTGAAGATACAATGAAGCAG
* * *
45520764 ATTGAAGATAGCAAATCTTATTTCCCTGAAGTTATAGTGGAACAGATTAAAGCTGTCAATCTTAT
66 ACTGAAGATAGCAAATCTCATTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTGTCAATCTTAT
45520829 TTT
131 TTT
* * ** *
45520832 CTTGAAGTTGTAGTGGAACAGATTGAAGTCACGAGTCTTATCTCCCTGAAGATGTAGTGAAGCAG
1 CTTGAAGTTGCAGTGGAACAGATTGAAGTCACGAGTCCTATCTCCCTGAAGATACAATGAAGCAG
** *
45520897 ACTGAAGATAGTGAATCTCA-TTCCTCTGAAGTTACAGTGGAGCAGATTAAAGCT
66 ACTGAAGATAGCAAATCTCATTTCC-CTGAAGTTACAGTGGAACAGATTAAAGCT
45520951 ACAAGTTACG
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
132 4 0.04
133 96 0.96
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (133 bp):
CTTGAAGTTGCAGTGGAACAGATTGAAGTCACGAGTCCTATCTCCCTGAAGATACAATGAAGCAG
ACTGAAGATAGCAAATCTCATTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTGTCAATCTTAT
TTT
Done.