Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 143 of 226
Found at i:44707069 original size:180 final size:179
Alignment explanation
Indices: 44706768--44707127 Score: 675
Period size: 180 Copynumber: 2.0 Consensus size: 179
44706758 ACTGTAGAAG
*
44706768 TTCCCCATACTCCTTCCTTACTATGGAGATAGATGGGCCTTTTGTTACAATCTGAAACTAAAGAT
1 TTCCCCATACTCCTTCCTTACTATGGAGATAGACGGGCCTTTTGTTACAATCTGAAACTAAAGAT
*
44706833 GCAAACTTCTCAACCTGTTCCATTGAAGGTGCAGTTCCAACCTCCACTGGAAATCTTATAAGTTC
66 GCAAACTTCTCAACCTGTTCCATTGAAGGAGCAGTTCCAACCTCCACTGGAAATCTTATAAGTTC
*
44706898 AACTTTCCCAGATGAAATAGCATTATTCATGACTGCTTGATAAAATTTA
131 AACTTTCCCAGATGAAATAGCATCATTCATGACTGCTTGATAAAATTTA
44706947 TTCCCCATACTCCTTCCTTACTATGGAGATAGACGGGCCTTTTTGTTACAATCTGAAACTAAAGA
1 TTCCCCATACTCCTTCCTTACTATGGAGATAGACGGGCC-TTTTGTTACAATCTGAAACTAAAGA
*
44707012 TGCAAACTTCTCAACTTGTTCCATTGAAGGAGCAGTTCCAACCTCCACTGGAAATCTTATAAGTT
65 TGCAAACTTCTCAACCTGTTCCATTGAAGGAGCAGTTCCAACCTCCACTGGAAATCTTATAAGTT
44707077 CAACTTTCCCAGATGAAATAGCATCATTCATGACTGCTTGATAAAATTTA
130 CAACTTTCCCAGATGAAATAGCATCATTCATGACTGCTTGATAAAATTTA
44707127 T
1 T
44707128 CTTTAATAGT
Statistics
Matches: 176, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
179 38 0.22
180 138 0.78
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (179 bp):
TTCCCCATACTCCTTCCTTACTATGGAGATAGACGGGCCTTTTGTTACAATCTGAAACTAAAGAT
GCAAACTTCTCAACCTGTTCCATTGAAGGAGCAGTTCCAACCTCCACTGGAAATCTTATAAGTTC
AACTTTCCCAGATGAAATAGCATCATTCATGACTGCTTGATAAAATTTA
Found at i:44707494 original size:9 final size:9
Alignment explanation
Indices: 44707463--44707504 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
44707453 GTTCAAGATG
44707463 TAATTAATT
1 TAATTAATT
44707472 TAA-TAATT
1 TAATTAATT
44707480 TCAATTAATT
1 T-AATTAATT
* *
44707490 AAATTTATT
1 TAATTAATT
44707499 TAATTA
1 TAATTA
44707505 CTTATTCTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 6 0.22
9 16 0.59
10 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (9 bp):
TAATTAATT
Found at i:44707671 original size:29 final size:31
Alignment explanation
Indices: 44707633--44707702 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 31
44707623 AATGATAATG
**
44707633 TAAGTGACTAAAACGTAA-C-ATTTCAAACA
1 TAAGTGACTAAAACGTAATCTAAGTCAAACA
*
44707662 TAAGTGACTAAAATGTAATCTAAGTCAAACA
1 TAAGTGACTAAAACGTAATCTAAGTCAAACA
*
44707693 AAAGTGACTA
1 TAAGTGACTA
44707703 TTTTTGTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 17 0.49
30 1 0.03
31 17 0.49
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.24
Consensus pattern (31 bp):
TAAGTGACTAAAACGTAATCTAAGTCAAACA
Found at i:44707698 original size:31 final size:29
Alignment explanation
Indices: 44707634--44707702 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
44707624 ATGATAATGT
** *
44707634 AAGTGACTAAAACGTAACATTTCAAACAT
1 AAGTGACTAAAACGTAACAAGTCAAACAA
*
44707663 AAGTGACTAAAATGTAATCTAAGTCAAACAA
1 AAGTGACTAAAACGTAA-C-AAGTCAAACAA
44707694 AAGTGACTA
1 AAGTGACTA
44707703 TTTTTGTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.47
30 1 0.03
31 17 0.50
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.23
Consensus pattern (29 bp):
AAGTGACTAAAACGTAACAAGTCAAACAA
Found at i:44708568 original size:2 final size:2
Alignment explanation
Indices: 44708561--44708622 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
44708551 AAAGAAATAA
44708561 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
44708603 TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG
44708623 AATGCGCTTG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:44710614 original size:20 final size:21
Alignment explanation
Indices: 44710571--44710615 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
44710561 CTAAATGACT
*
44710571 TAAAATACGTAAAAATATATC
1 TAAAATACGTAAAAATATAAC
44710592 TAAAATAC-TAAATAA-ATAAC
1 TAAAATACGTAAA-AATATAAC
44710612 TAAA
1 TAAA
44710616 GAAATGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAATACGTAAAAATATAAC
Found at i:44713461 original size:46 final size:44
Alignment explanation
Indices: 44713406--44713491 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 44
44713396 AGAAACCTTG
* * *
44713406 ACCCTCTATCAACTATGGTAGGAACCTTGGTATAAGATGAACCTCA
1 ACCCACTATCAACGATGATAGGAACCTTGGTAT--GATGAACCTCA
*
44713452 ACCCACTATCAAGGATGATAGGAACCTTGGTATGATGAAC
1 ACCCACTATCAACGATGATAGGAACCTTGGTATGATGAAC
44713492 ACCACACTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 7 0.19
46 29 0.81
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (44 bp):
ACCCACTATCAACGATGATAGGAACCTTGGTATGATGAACCTCA
Found at i:44714286 original size:20 final size:20
Alignment explanation
Indices: 44714261--44714298 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
44714251 GCAAGAAATG
44714261 ACTCAAAATGTACATATCGA
1 ACTCAAAATGTACATATCGA
44714281 ACTCAAAATGTACATATC
1 ACTCAAAATGTACATATC
44714299 CAAATGGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (20 bp):
ACTCAAAATGTACATATCGA
Found at i:44715288 original size:18 final size:18
Alignment explanation
Indices: 44715265--44715301 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
44715255 TAACTGATGA
44715265 TTGATGAATTCTATTCTT
1 TTGATGAATTCTATTCTT
44715283 TTGATGAATTCTATTCTT
1 TTGATGAATTCTATTCTT
44715301 T
1 T
44715302 GTGAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
TTGATGAATTCTATTCTT
Found at i:44716087 original size:11 final size:11
Alignment explanation
Indices: 44716055--44716088 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
44716045 TAGTTTTAAC
*
44716055 CTTAGTTTTTT
1 CTTAGGTTTTT
44716066 C-TAGGTTTTT
1 CTTAGGTTTTT
44716076 CTTAGGTTTTT
1 CTTAGGTTTTT
44716087 CT
1 CT
44716089 GCAACTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.09, C:0.12, G:0.15, T:0.65
Consensus pattern (11 bp):
CTTAGGTTTTT
Found at i:44722156 original size:18 final size:19
Alignment explanation
Indices: 44722122--44722157 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44722112 TTGATACAGG
44722122 GACTAAAGCGTAAAAACTA
1 GACTAAAGCGTAAAAACTA
*
44722141 GACTAAATCG-AAAAACT
1 GACTAAAGCGTAAAAACT
44722158 TCAAAACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.17
Consensus pattern (19 bp):
GACTAAAGCGTAAAAACTA
Found at i:44726187 original size:22 final size:22
Alignment explanation
Indices: 44726160--44726203 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
44726150 TATGTCATAA
44726160 TCTAGTAAAATATAAACTTATT
1 TCTAGTAAAATATAAACTTATT
* *
44726182 TCTAGTCAAATATAAGCTTATT
1 TCTAGTAAAATATAAACTTATT
44726204 GTGATTAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (22 bp):
TCTAGTAAAATATAAACTTATT
Found at i:44728962 original size:50 final size:50
Alignment explanation
Indices: 44728926--44729216 Score: 420
Period size: 50 Copynumber: 5.7 Consensus size: 50
44728916 AGCTACCCAT
* ** *
44728926 GCCATGTCCCGGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
44728976 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
44729026 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
44729076 ACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * * * * *
44729126 ACCATGTCCCAAACATGGTTTTACATGGGACCTCTCATAATCTCAATGATGACAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GGTGCCAAC
*
44729182 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44729217 TTACCCAAAT
Statistics
Matches: 221, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
50 179 0.81
53 5 0.02
56 37 0.17
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:44728986 original size:100 final size:100
Alignment explanation
Indices: 44728869--44729208 Score: 338
Period size: 100 Copynumber: 3.3 Consensus size: 100
44728859 CTTCTTGTTC
* * * * ** * *
44728869 TGCCAATGCCATATCCCAGATAGGGTCTTACATGAAAGTTCTCATATAGCTACCCATGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAAACCTCTCATATAGCTACCAACGCCATGTC
* * *
44728934 CCGGACATGGTCTTACGGGGGACCTCTCATCTTGG
66 CCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
** * * * *
44728969 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAAACCTCTCATATAGCTACCAACGCCATGTC
*
44729034 CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
66 CCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* ** * * * * *
44729069 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACACCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAAACCTCTCATATAGCTACCAACGCCATGTC
* * * *
44729134 CCAAACATGGTTTTACATGGGACCTCTCATAATCTCAATGA
66 CCAGACATGGTCTTACAGGGGACCTCTC---ATCTC---GG
* *
44729175 TGACAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
44729209 GGATCTCTTT
Statistics
Matches: 208, Mismatches: 26, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
100 171 0.82
103 5 0.02
106 32 0.15
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAAACCTCTCATATAGCTACCAACGCCATGTC
CCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:44735070 original size:50 final size:50
Alignment explanation
Indices: 44735015--44735255 Score: 295
Period size: 50 Copynumber: 4.7 Consensus size: 50
44735005 AGGTGCCCAT
* * *
44735015 GCCATGTTCCAAATATGGTCTTACAGGGGACCTCTCATCTCTATGCCAAC
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTCGATGCCAAC
* *
44735065 ACCATGTCCCAAACATGGTCTTACATGGGG-CCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAAACATGGTCTTACA-GGGGACCTCTCATCTCGATGCCAAC
* *
44735115 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAAC
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTCGATGCCAAC
* * *
44735165 GCCATGTCCTAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTC---ATCTC---GATGCCAAC
* * *
44735221 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAAACATGGTCTTACAGGGGACCTCT
44735256 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
49 3 0.02
50 116 0.69
51 4 0.02
53 5 0.03
56 40 0.24
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAAACATGGTCTTACAGGGGACCTCTCATCTCGATGCCAAC
Found at i:44735111 original size:100 final size:100
Alignment explanation
Indices: 44734979--44735255 Score: 311
Period size: 100 Copynumber: 2.7 Consensus size: 100
44734969 TATCCTAGAT
* ** * * * * * * *
44734979 ATGGTCTTACATGAGAGTTCTCGTATAGGTGCCCATGCCATGTTCCAAATATGGTCTTACAGGGG
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGGG
*
44735044 ACCTCTCATCTCTATGCCAACACCATGTCCCAAAC
66 ACCTCTCATCTCGATGCCAACACCATGTCCCAAAC
* * *
44735079 ATGGTCTTACATGGGGCCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGG
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGGG
* *
44735144 ACCTCTCATCTCGATGCCAACGCCATGTCCTAAAC
66 ACCTCTCATCTCGATGCCAACACCATGTCCCAAAC
* * *
44735179 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGACATGGTCTTA
1 ATGGTCTTACATGGGACCTCTC---ATCTC---GGTGCCAACGCCATGTCCCAAACATGGTCTTA
* *
44735244 CATGGGATCTCT
60 CAGGGGACCTCT
44735256 TTACCCAAAT
Statistics
Matches: 151, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
100 105 0.70
103 5 0.03
106 41 0.27
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (100 bp):
ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAGGGG
ACCTCTCATCTCGATGCCAACACCATGTCCCAAAC
Found at i:44738493 original size:33 final size:31
Alignment explanation
Indices: 44738461--44738519 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
44738451 GATAATAAAC
*
44738461 ACATAATAGAGATAATTCGTTGGGACAGTAA
1 ACATAAGAGAGATAATTCGTTGGGACAGTAA
* * *
44738492 ACATAGGATAGATAGTTCGTTGGGACAG
1 ACATAAGAGAGATAATTCGTTGGGACAG
44738520 AAAATACCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.25
Consensus pattern (31 bp):
ACATAAGAGAGATAATTCGTTGGGACAGTAA
Found at i:44738536 original size:31 final size:31
Alignment explanation
Indices: 44738468--44738556 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 31
44738458 AACACATAAT
* *
44738468 AGAGATAATTCGTTGGGACAGTAAACATAGG
1 AGAGATAGTTCGTTGGGACAGTAAACATAGA
*
44738499 ATAGATAGTTCGTTGGGACAG-AAA-ATACCGA
1 AGAGATAGTTCGTTGGGACAGTAAACATA--GA
* ** *
44738530 AGAGATAGTCCACTGGGACAATAAACA
1 AGAGATAGTTCGTTGGGACAGTAAACA
44738557 AAAAAAGAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 3 0.07
30 3 0.07
31 36 0.78
32 3 0.07
33 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.20
Consensus pattern (31 bp):
AGAGATAGTTCGTTGGGACAGTAAACATAGA
Found at i:44740218 original size:27 final size:27
Alignment explanation
Indices: 44740188--44740247 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
44740178 TCGTTCTTGT
*
44740188 AGAGTTCTCCATACGTACTAATCCTTC
1 AGAGTTCACCATACGTACTAATCCTTC
** *
44740215 AGAGTTCACCATACGTACTGTTCCTTT
1 AGAGTTCACCATACGTACTAATCCTTC
44740242 AGAGTT
1 AGAGTT
44740248 TTTCGTACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (27 bp):
AGAGTTCACCATACGTACTAATCCTTC
Found at i:44740284 original size:27 final size:27
Alignment explanation
Indices: 44740235--44740291 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
44740225 ATACGTACTG
** ** *
44740235 TTCCTTTAGAGTTTTTCGTACATATTA
1 TTCCTTTAGAGTTCATCACACATATCA
44740262 TTCCTTTAGAGTTCATCACACATATCA
1 TTCCTTTAGAGTTCATCACACATATCA
44740289 TTC
1 TTC
44740292 TCTCAGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.46
Consensus pattern (27 bp):
TTCCTTTAGAGTTCATCACACATATCA
Found at i:44740752 original size:50 final size:50
Alignment explanation
Indices: 44740656--44740752 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
44740646 CTTTTAATTC
* * * * *
44740656 TTTCCATATGATGCAATAACCCACTAGTTATGGTCTTATACAATATGTTA
1 TTTCCATATGATGCAATAACCCACCAGCTACGATCTTACACAATATGTTA
* * *
44740706 TTTCCATATGATGCCATAACCCACCAGCTACGATTTTACACGATATG
1 TTTCCATATGATGCAATAACCCACCAGCTACGATCTTACACAATATG
44740753 GTGTCATGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (50 bp):
TTTCCATATGATGCAATAACCCACCAGCTACGATCTTACACAATATGTTA
Found at i:44743918 original size:20 final size:20
Alignment explanation
Indices: 44743890--44743942 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
44743880 CATTTATCTT
*
44743890 ATTTTATTTTATTCTAATCA
1 ATTTGATTTTATTCTAATCA
* *
44743910 ATTTGATTTAATTTTAATCA
1 ATTTGATTTTATTCTAATCA
*
44743930 AATTGA-TTTATTC
1 ATTTGATTTTATTC
44743943 GCTCCTTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTTGATTTTATTCTAATCA
Found at i:44744695 original size:21 final size:21
Alignment explanation
Indices: 44744666--44744706 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44744656 AATTTCGTTA
*
44744666 TCTTGCACCACAAATTTTCTT
1 TCTTACACCACAAATTTTCTT
* *
44744687 TCTTACACCAGAATTTTTCT
1 TCTTACACCACAAATTTTCT
44744707 AACATTATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.05, T:0.44
Consensus pattern (21 bp):
TCTTACACCACAAATTTTCTT
Found at i:44747568 original size:26 final size:26
Alignment explanation
Indices: 44747530--44747582 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
44747520 TTATGTATCG
*
44747530 TTTATGGTATGTT-TTTGTTA-TATTT
1 TTTATGGCATGTTATTT-TTAGTATTT
44747555 TTTATTGGCATGTTATTTTTAGTATTT
1 TTTA-TGGCATGTTATTTTTAGTATTT
44747582 T
1 T
44747583 AATATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 11 0.46
27 9 0.38
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (26 bp):
TTTATGGCATGTTATTTTTAGTATTT
Found at i:44753992 original size:27 final size:27
Alignment explanation
Indices: 44753960--44754011 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
44753950 GTGGGGAGCG
* *
44753960 GGTGCCACCTATGGGGATGGCTTGATT
1 GGTGCCACCTATGGGAAAGGCTTGATT
*
44753987 GGTGCCGCCTATGGGAAAGGCTTGA
1 GGTGCCACCTATGGGAAAGGCTTGA
44754012 CTAGTGTCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.19, G:0.38, T:0.25
Consensus pattern (27 bp):
GGTGCCACCTATGGGAAAGGCTTGATT
Found at i:44755806 original size:25 final size:25
Alignment explanation
Indices: 44755760--44755807 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
44755750 ACAGGGTACT
* * * *
44755760 TTTAATTTTATAATTTATTTATTTA
1 TTTAATATTAGAAATTAATTATTTA
44755785 TTTAATATTAGAAATTAATTATT
1 TTTAATATTAGAAATTAATTATT
44755808 ATAAAAGTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTAATATTAGAAATTAATTATTTA
Found at i:44755999 original size:86 final size:85
Alignment explanation
Indices: 44755834--44755999 Score: 183
Period size: 86 Copynumber: 1.9 Consensus size: 85
44755824 TTAAATTTTA
** * * *
44755834 TTATATAATAATTTACAATTAGGTAGAGATTTTAAATTGATTCAAAATTAATGTGTACTATTTAA
1 TTATATAATAATTTACAATTAAATAGAAATTTTAAATTCATTCAAAATTAATGTGTACTATTAAA
** * **
44755899 ATTTTATATTAAAAATTAAT
66 AAATGATAAAAAAAATTAAT
* *
44755919 TTATGATAATAATTTATAATTAAATAGAAATTTTAAATTCATTCAAAAGTTAATGTGT-GTCATT
1 TTAT-ATAATAATTTACAATTAAATAGAAATTTTAAATTCATTCAAAA-TTAATGTGTACT-ATT
44755983 AAAAAATGA-AAAAAAAA
63 AAAAAATGATAAAAAAAA
44756000 CTTGTTTTCA
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
85 4 0.06
86 45 0.68
87 17 0.26
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (85 bp):
TTATATAATAATTTACAATTAAATAGAAATTTTAAATTCATTCAAAATTAATGTGTACTATTAAA
AAATGATAAAAAAAATTAAT
Found at i:44756462 original size:17 final size:17
Alignment explanation
Indices: 44756442--44756511 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 17
44756432 TTACAAATAA
*
44756442 TAAAATTAAATAAATCT
1 TAAAATAAAATAAATCT
*
44756459 TAAATATAAAATATTCATCAAT
1 TAAA-ATAAAATA--AATC--T
*
44756481 TATGAAATTAAATAAATCT
1 TA--AAATAAAATAAATCT
44756500 TAAAATAAAATA
1 TAAAATAAAATA
44756512 CTTGTACATT
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
17 13 0.32
18 7 0.17
19 3 0.07
20 3 0.07
21 3 0.07
22 3 0.07
23 7 0.17
24 2 0.05
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (17 bp):
TAAAATAAAATAAATCT
Found at i:44756467 original size:42 final size:42
Alignment explanation
Indices: 44756420--44756509 Score: 123
Period size: 41 Copynumber: 2.2 Consensus size: 42
44756410 TGATATATGT
*
44756420 ATATAAAAATATTTA-CAAATAATAAAATTAAATAAATCTTAA
1 ATATAAAAATATTCATC-AATAATAAAATTAAATAAATCTTAA
* *
44756462 ATAT-AAAATATTCATCAATTATGAAATTAAATAAATCTTAA
1 ATATAAAAATATTCATCAATAATAAAATTAAATAAATCTTAA
44756503 A-ATAAAA
1 ATATAAAA
44756510 TACTTGTACA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
40 2 0.05
41 36 0.84
42 5 0.12
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (42 bp):
ATATAAAAATATTCATCAATAATAAAATTAAATAAATCTTAA
Found at i:44756693 original size:14 final size:14
Alignment explanation
Indices: 44756668--44756705 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
44756658 AAATAAATAA
44756668 TAAATATTAT-AATT
1 TAAAT-TTATAAATT
44756682 TATAATTTATAAATT
1 TA-AATTTATAAATT
44756697 TAAATTTAT
1 TAAATTTAT
44756706 TTTGTAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAAATTTATAAATT
Found at i:44757103 original size:6 final size:6
Alignment explanation
Indices: 44757057--44757082 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
44757047 AGAGATAAGA
44757057 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
44757083 AGCTAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:44760890 original size:28 final size:28
Alignment explanation
Indices: 44760850--44760920 Score: 133
Period size: 28 Copynumber: 2.5 Consensus size: 28
44760840 ATCTTCTCTT
44760850 TCACCAGATTTCTTCCTCGACATTACCC
1 TCACCAGATTTCTTCCTCGACATTACCC
*
44760878 TCACTAGATTTCTTCCTCGACATTACCC
1 TCACCAGATTTCTTCCTCGACATTACCC
44760906 TCACCAGATTTCTTC
1 TCACCAGATTTCTTC
44760921 TTAATTGACG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.21, C:0.37, G:0.07, T:0.35
Consensus pattern (28 bp):
TCACCAGATTTCTTCCTCGACATTACCC
Found at i:44763574 original size:45 final size:44
Alignment explanation
Indices: 44763483--44763575 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
44763473 ATTACAACAT
44763483 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
* *
44763527 CATTCCATTCAACCAAACA-ATTGAATTATTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATTC
44763572 CATT
1 CATT
44763576 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 22 0.49
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:44763578 original size:16 final size:16
Alignment explanation
Indices: 44763557--44763596 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
44763547 TTGAATTATT
*
44763557 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
44763573 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
44763589 ATTACAGC
1 ATTACAGC
44763597 GAACCAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:44765945 original size:41 final size:42
Alignment explanation
Indices: 44765888--44765991 Score: 149
Period size: 41 Copynumber: 2.5 Consensus size: 42
44765878 GTGTTTTTTG
*
44765888 AAAAACGCCGCTAAAGCCCCGA-GCATTAGCGGCGCTTTTCC
1 AAAAACGCCGCTAAAGCCCCGATGCATTAGCGACGCTTTTCC
* * *
44765929 AAAAACGCCGCTAAAG-CCCTATGCGTTAGCGACGCTTTTTC
1 AAAAACGCCGCTAAAGCCCCGATGCATTAGCGACGCTTTTCC
*
44765970 AAAAACGCCACTAAAGCCCCGA
1 AAAAACGCCGCTAAAGCCCCGA
44765992 AAACTCAAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 4 0.07
41 47 0.85
42 4 0.07
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGCCCCGATGCATTAGCGACGCTTTTCC
Found at i:44782810 original size:32 final size:32
Alignment explanation
Indices: 44782744--44782806 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
44782734 CCATAATTAA
44782744 TAAACACTTAAAAATAAATAAAACCCTAAACC
1 TAAACACTTAAAAATAAATAAAACCCTAAACC
* * *
44782776 TAAACATTTACAAATTAA-AAAACCCTAAACC
1 TAAACACTTAAAAATAAATAAAACCCTAAACC
44782807 CTAATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.21
Consensus pattern (32 bp):
TAAACACTTAAAAATAAATAAAACCCTAAACC
Found at i:44786224 original size:29 final size:29
Alignment explanation
Indices: 44786165--44786266 Score: 73
Period size: 29 Copynumber: 3.5 Consensus size: 29
44786155 GAAGACATCC
* * *
44786165 TTTAACATAGATTGCCACAAAAGCTTTCT
1 TTTAACAGAGATAGCCACAAAAGCTTCCT
*
44786194 TTTAACAGAGATAGCCAC-AAAGGTGTCCT
1 TTTAACAGAGATAGCCACAAAAGCT-TCCT
* * * * *
44786223 TTTTATAGATATAGTCA-AAAAGACATCCT
1 TTTAACAGAGATAGCCACAAAAG-CTTCCT
* *
44786252 TTTTATAGAGATAGC
1 TTTAACAGAGATAGC
44786267 TATAAACTCT
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
28 5 0.09
29 53 0.91
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (29 bp):
TTTAACAGAGATAGCCACAAAAGCTTCCT
Found at i:44799180 original size:10 final size:10
Alignment explanation
Indices: 44799165--44799193 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
44799155 GAAATGATTG
44799165 ATGATATAAT
1 ATGATATAAT
44799175 ATGATATAAT
1 ATGATATAAT
44799185 A-GATATAAT
1 ATGATATAAT
44799194 TGTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
ATGATATAAT
Found at i:44799568 original size:73 final size:73
Alignment explanation
Indices: 44799404--44799584 Score: 195
Period size: 73 Copynumber: 2.5 Consensus size: 73
44799394 TATTTTGACG
* * * * * * **
44799404 TGTTATCGAGTGGTTTAGCTCTTATGATCAATTGCCGTGTTTCGGTTAGACTAACTCTTCGGAGC
1 TGTTATCGAGTGATTGAGCTCTTATGACCATTTGGCGTGTTTAGGTTAGACTAACTCTTCAAAGC
*
44799469 AATTAGCG
66 AATTAGCA
* * *
44799477 TGTTAT-TAG-GTAGTTGAGCTCTTATGACCATTTGGCGTGTTTAGGTTGGACTAGCTCTTCAAA
1 TGTTATCGAGTG-A-TTGAGCTCTTATGACCATTTGGCGTGTTTAGGTTAGACTAACTCTTCAAA
*
44799540 GCAATTGGCA
64 GCAATTAGCA
* *
44799550 TGTTATCGAGTGAATGAGCTCTTATGAGCATTTGG
1 TGTTATCGAGTGATTGAGCTCTTATGACCATTTGG
44799585 TCTATTTTCA
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
71 1 0.01
72 2 0.02
73 81 0.92
74 3 0.03
75 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (73 bp):
TGTTATCGAGTGATTGAGCTCTTATGACCATTTGGCGTGTTTAGGTTAGACTAACTCTTCAAAGC
AATTAGCA
Found at i:44801649 original size:25 final size:25
Alignment explanation
Indices: 44801594--44801664 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
44801584 TACCGGTTTT
* *
44801594 AGCTCGTATGAGCTTACCGA-TATTC
1 AGCTCGAATGAGCTTACC-ATTACTC
* *
44801619 AACTCGCATGAGCTTACCATTACTC
1 AGCTCGAATGAGCTTACCATTACTC
*
44801644 AGCTCGAAAGAGCTTACCATT
1 AGCTCGAATGAGCTTACCATT
44801665 TACAGCTCGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (25 bp):
AGCTCGAATGAGCTTACCATTACTC
Found at i:44801678 original size:24 final size:24
Alignment explanation
Indices: 44801594--44801685 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 24
44801584 TACCGGTTTT
*
44801594 AGCTCGTATGAGCTTACCGATATT-C
1 AGCTCGTAAGAGCTTACC-AT-TTAC
* * *
44801619 AACTCGCATGAGCTTACCA-TTACTC
1 AGCTCGTAAGAGCTTACCATTTA--C
*
44801644 AGCTCGAAAGAGCTTACCATTTAC
1 AGCTCGTAAGAGCTTACCATTTAC
*
44801668 AGCTCGTAAGAGCATACC
1 AGCTCGTAAGAGCTTACC
44801686 GATTCTGAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
22 2 0.04
24 18 0.32
25 33 0.59
26 3 0.05
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACCATTTAC
Found at i:44807290 original size:14 final size:14
Alignment explanation
Indices: 44807255--44807292 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
44807245 TGTTTTACTA
*
44807255 AAAATGACTTCCGG
1 AAAATGATTTCCGG
*
44807269 AAAATGATTTCTGG
1 AAAATGATTTCCGG
44807283 AAAATGATTT
1 AAAATGATTT
44807293 AGTTTTCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:44807922 original size:34 final size:32
Alignment explanation
Indices: 44807840--44807922 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 32
44807830 TAATATTATT
44807840 TAAAATTATTATTT-TTAAAAATTTTTATTAAAA
1 TAAAATTA-TATTTATTAAAAA-TTTTATTAAAA
**
44807873 TAAAATT-TAAATATTAAATAA-TTTATTAAAA
1 TAAAATTATATTTATTAAA-AATTTTATTAAAA
44807904 TGATAAATTATATTTATTA
1 T-A-AAATTATATTTATTA
44807923 TATTAATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
31 14 0.34
32 6 0.15
33 14 0.34
34 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (32 bp):
TAAAATTATATTTATTAAAAATTTTATTAAAA
Found at i:44808881 original size:29 final size:28
Alignment explanation
Indices: 44808823--44808978 Score: 161
Period size: 29 Copynumber: 5.4 Consensus size: 28
44808813 ACGCGTTACA
* *
44808823 ATAGCCACAAAGACTTCTTTTAACAGAG
1 ATAGCCACAAAGGCTTCTTTTAATAGAG
*
44808851 ATAGCCACAAAGGCTTCCTTTTAATAAAG
1 ATAGCCACAAAGGCTT-CTTTTAATAGAG
* * *
44808880 ATCGCCATAGAGGCTTCTTTATAATAGAG
1 ATAGCCACAAAGGCTTCTTT-TAATAGAG
* *
44808909 ATCGCCACAAAGGCTTCTTTATAACAGAG
1 ATAGCCACAAAGGCTTCTTT-TAATAGAG
* * *
44808938 ATCGCCACAAAGACTT-TCTTTAATCAAAG
1 ATAGCCACAAAGGCTTCT-TTTAAT-AGAG
44808967 ATAGCCACAAAG
1 ATAGCCACAAAG
44808979 ACACTTCTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
28 23 0.21
29 87 0.79
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (28 bp):
ATAGCCACAAAGGCTTCTTTTAATAGAG
Found at i:44811295 original size:2 final size:2
Alignment explanation
Indices: 44811288--44811326 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
44811278 TTAAATATTG
44811288 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
44811327 AAGTCTGAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:44813424 original size:47 final size:47
Alignment explanation
Indices: 44813373--44813468 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
44813363 TTTATTTATT
*
44813373 TGGTAATGGCCACTTTTATGACATGCTTAGCTTTTACTGGTTGGTTC
1 TGGTAATGGCCACTTTTATGACATGCTTAGCTTTTACCGGTTGGTTC
44813420 TGGTAATGGCCACTTTTATGACATGCTTAGCTTTTACCGGTTGGTTC
1 TGGTAATGGCCACTTTTATGACATGCTTAGCTTTTACCGGTTGGTTC
44813467 TG
1 TG
44813469 CTATCTCATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.42
Consensus pattern (47 bp):
TGGTAATGGCCACTTTTATGACATGCTTAGCTTTTACCGGTTGGTTC
Found at i:44821859 original size:32 final size:32
Alignment explanation
Indices: 44821818--44821882 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
44821808 CTTAAGCAAA
*
44821818 ATCTTGAATTTGGGTAAGAAAAATGAAGAAAC
1 ATCTTGAATTTGGGTAAAAAAAATGAAGAAAC
44821850 ATCTTGAATTTGGGTAAAAAAAATGAAGAAAC
1 ATCTTGAATTTGGGTAAAAAAAATGAAGAAAC
44821882 A
1 A
44821883 ATTCATGCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.25
Consensus pattern (32 bp):
ATCTTGAATTTGGGTAAAAAAAATGAAGAAAC
Found at i:44825919 original size:16 final size:17
Alignment explanation
Indices: 44825883--44825919 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
44825873 TAATTTATTT
*
44825883 TAATAATAAATTTTAGA
1 TAATAATAAATTTTAAA
44825900 -AATAAT-AATTTTAAA
1 TAATAATAAATTTTAAA
44825915 TAATA
1 TAATA
44825920 TTCTTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:44826457 original size:16 final size:17
Alignment explanation
Indices: 44826429--44826460 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
44826419 TTAAGTTTTA
44826429 ATTAAGCTTTATTTATT
1 ATTAAGCTTTATTTATT
44826446 ATTAAG-TTTATTTAT
1 ATTAAGCTTTATTTAT
44826461 GACATTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTAAGCTTTATTTATT
Found at i:44826511 original size:21 final size:20
Alignment explanation
Indices: 44826467--44826513 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
44826457 TTATGACATT
*
44826467 GATTATTACAAAATATTTTC
1 GATTATTACAAAATAATTTC
*
44826487 --TTATTATAAAATAAATTTC
1 GATTATTACAAAAT-AATTTC
44826506 GATTATTA
1 GATTATTA
44826514 AAAGGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 11 0.50
19 5 0.23
21 6 0.27
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (20 bp):
GATTATTACAAAATAATTTC
Found at i:44833869 original size:15 final size:14
Alignment explanation
Indices: 44833833--44833877 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
44833823 TCTATTGAGC
44833833 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
44833847 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
44833861 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
44833876 GA
1 GA
44833878 AAGAAACGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:44833883 original size:15 final size:15
Alignment explanation
Indices: 44833833--44833883 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
44833823 TCTATTGAGC
44833833 GAGA-AAAAGAAAAA
1 GAGAGAAAAGAAAAA
*
44833847 GAGA-AAAACAAAAA
1 GAGAGAAAAGAAAAA
*
44833861 GAGTGAAAAGAAAAA
1 GAGAGAAAAGAAAAA
*
44833876 GAAAGAAA
1 GAGAGAAA
44833884 CGAATGATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
14 16 0.52
15 15 0.48
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (15 bp):
GAGAGAAAAGAAAAA
Found at i:44845995 original size:15 final size:15
Alignment explanation
Indices: 44845975--44846007 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
44845965 GCCATGCACA
*
44845975 AAATTTTTTAAAAAT
1 AAATTTTTAAAAAAT
44845990 AAA-TTTTAAAAAAT
1 AAATTTTTAAAAAAT
44846004 AAAT
1 AAAT
44846008 ATGAATCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
14 13 0.81
15 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATTTTTAAAAAAT
Found at i:44852647 original size:30 final size:30
Alignment explanation
Indices: 44852607--44852975 Score: 324
Period size: 30 Copynumber: 12.3 Consensus size: 30
44852597 GTATTGACCA
* *
44852607 ATGAAAAGGGATGGTTTCGACTATCAAAAT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * **
44852637 ATGGAAAGGGATAGCTTCGACTATTGAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * ***
44852667 ATGAAAAGGGATGG-TGACGACCATCAAGCA
1 ATGAAAAGGGATGGCT-TCGACTATCAAATT
* * *
44852697 ATGAAAAGGGATGG-TGACGACCATCGAATT
1 ATGAAAAGGGATGGCT-TCGACTATCAAATT
44852727 ATGAAAAGGGATGGCTTCGACTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
*
44852757 ATGAAAAGGGATGGCTTCAACTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
*
44852787 ATGAAAAGGGATGGCTTCGGCTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* *
44852817 ATGAAAGGGGATAGCTTC-AGCTATCAAATT
1 ATGAAAAGGGATGGCTTCGA-CTATCAAATT
* *
44852847 ATGAAAAGGGATGATG-AT-GACCATCAACA--
1 ATGAAAAGGGATG--GCTTCGACTATCAA-ATT
** *
44852876 ATGAAAAGGGATGGCGCCGACCATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * *
44852906 ATGAAAAGGTATGGCTTC-AGTTATCAAAAT
1 ATGAAAAGGGATGGCTTCGA-CTATCAAATT
* * * * *
44852936 AT-AGAAAGGGATAGCTTTGGCTATCGAACT
1 ATGA-AAAGGGATGGCTTCGACTATCAAATT
44852966 ATGAAAAGGG
1 ATGAAAAGGG
44852976 GCGGTAACAA
Statistics
Matches: 277, Mismatches: 47, Indels: 30
0.78 0.13 0.08
Matches are distributed among these distances:
27 1 0.00
28 1 0.00
29 25 0.09
30 244 0.88
31 5 0.02
32 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATGGCTTCGACTATCAAATT
Found at i:44852758 original size:90 final size:89
Alignment explanation
Indices: 44852605--44852923 Score: 367
Period size: 90 Copynumber: 3.6 Consensus size: 89
44852595 ACGTATTGAC
* * * * **
44852605 CAATGAAAAGGGATGGTTTCGACTATCAAAATATGGAAAGGGATAGCTTCGACTATTGAATTATG
1 CAATGAAAAGGGATGGTGTCGACCATCAAATTATGAAAAGGGATAGCTTCGACTATCAAATTATG
44852670 AAAAGGGATGGTGACGACCATCAA
66 AAAAGGGATGGTGACGACCATCAA
* * *
44852694 GCAATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGGATGGCTTCGACTATCAAATTAT
1 -CAATGAAAAGGGATGGTGTCGACCATCAAATTATGAAAAGGGATAGCTTCGACTATCAAATTAT
* * *
44852759 GAAAAGGGATGGCT-TCAACTATCAA
65 GAAAAGGGATGG-TGACGACCATCAA
* * *
44852784 -ATTATGAAAAGGGATGGCT-TCGGCTATCAAATTATGAAAGGGGATAGCTTC-AGCTATCAAAT
1 CA--ATGAAAAGGGATGG-TGTCGACCATCAAATTATGAAAAGGGATAGCTTCGA-CTATCAAAT
* *
44852846 TATGAAAAGGGATGATGATGACCATCAA
62 TATGAAAAGGGATGGTGACGACCATCAA
* * * *
44852874 CAATGAAAAGGGATGGCGCCGACCATCAAATTATGAAAAGGTATGGCTTC
1 CAATGAAAAGGGATGGTGTCGACCATCAAATTATGAAAAGGGATAGCTTC
44852924 AGTTATCAAA
Statistics
Matches: 191, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
88 1 0.01
89 42 0.22
90 145 0.76
91 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (89 bp):
CAATGAAAAGGGATGGTGTCGACCATCAAATTATGAAAAGGGATAGCTTCGACTATCAAATTATG
AAAAGGGATGGTGACGACCATCAA
Found at i:44852920 original size:119 final size:119
Alignment explanation
Indices: 44852757--44852975 Score: 314
Period size: 119 Copynumber: 1.8 Consensus size: 119
44852747 CTATCAAATT
** * * *
44852757 ATGAAAAGGGATGGCTTCAACTATCAAATTATGAAAAGGGATGGCTTCGGCTATCAAATTAT-GA
1 ATGAAAAGGGATGGCGCCAACCATCAAATTATGAAAAGGGATGGCTTCAGCTATCAAAATATAGA
*
44852821 AAGGGGATAGCTTCAGCTATCAAATTATGAAAAGGGATGATGATGACCATCAACA
66 AA-GGGATAGCTTCAGCTATCAAACTATGAAAAGGGATGATGATGACCATCAACA
* * *
44852876 ATGAAAAGGGATGGCGCCGACCATCAAATTATGAAAAGGTATGGCTTCAGTTATCAAAATATAGA
1 ATGAAAAGGGATGGCGCCAACCATCAAATTATGAAAAGGGATGGCTTCAGCTATCAAAATATAGA
** *
44852941 AAGGGATAGCTTTGGCTATCGAACTATGAAAAGGG
66 AAGGGATAGCTTCAGCTATCAAACTATGAAAAGGG
44852976 GCGGTAACAA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
119 83 0.95
120 4 0.05
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (119 bp):
ATGAAAAGGGATGGCGCCAACCATCAAATTATGAAAAGGGATGGCTTCAGCTATCAAAATATAGA
AAGGGATAGCTTCAGCTATCAAACTATGAAAAGGGATGATGATGACCATCAACA
Found at i:44856975 original size:48 final size:47
Alignment explanation
Indices: 44856874--44857002 Score: 125
Period size: 48 Copynumber: 2.7 Consensus size: 47
44856864 TTGGAATAAA
* *
44856874 AACAGATTTCTCGGTGGCCTGCACATAGTCCGTACCACCTTTATGTAAT
1 AACAGA-TTCTCGGTGGCCTGCACATAGTCCGTACCACCTTTATCT-AG
** *
44856923 AACAGATTCTCGGTGGCCTGCACATAGTTTGTGCCATCCTTGTATCT-G
1 AACAGATTCTCGGTGGCCTGCACATAGTCCGTACCA-CCTT-TATCTAG
* * * * *
44856971 AACAGGTTATTGGTGGCCTGCATAGAGTCCGT
1 AACAGATTCTCGGTGGCCTGCACATAGTCCGT
44857003 TTCACCCCTG
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
48 52 0.79
49 10 0.15
50 4 0.06
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (47 bp):
AACAGATTCTCGGTGGCCTGCACATAGTCCGTACCACCTTTATCTAG
Found at i:44861517 original size:13 final size:13
Alignment explanation
Indices: 44861499--44861523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44861489 CAAGTTTGTT
44861499 TTATTTATTTTTA
1 TTATTTATTTTTA
44861512 TTATTTATTTTT
1 TTATTTATTTTT
44861524 GCAGAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTATTTTTA
Found at i:44863227 original size:18 final size:18
Alignment explanation
Indices: 44863204--44863246 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
44863194 TGCACTCAGT
44863204 CTCCTGTCCAACCCTACA
1 CTCCTGTCCAACCCTACA
*
44863222 CTCCTGTCTAACCCTACA
1 CTCCTGTCCAACCCTACA
44863240 CTCCTGT
1 CTCCTGT
44863247 GGGGATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.47, G:0.07, T:0.28
Consensus pattern (18 bp):
CTCCTGTCCAACCCTACA
Found at i:44863549 original size:26 final size:27
Alignment explanation
Indices: 44863514--44863566 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
44863504 ACCATAACAC
*
44863514 AAATCAGTCATTTATCC-TCGAGGGGCA
1 AAATCAGTCATTTACCCTTC-AGGGGCA
44863541 AAAT-AGTCATTTACCCTTCAGGGGCA
1 AAATCAGTCATTTACCCTTCAGGGGCA
44863567 TTACGATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTTCAGGGGCA
Found at i:44867359 original size:6 final size:6
Alignment explanation
Indices: 44867341--44867379 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
44867331 AAAAAAATAA
44867341 AAAAAG AATAAAG AAAAAG AAAAAAG AAAAAG AAAAAG A
1 AAAAAG AA-AAAG AAAAAG -AAAAAG AAAAAG AAAAAG A
44867380 GACATATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 19 0.61
7 12 0.39
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:44867359 original size:13 final size:12
Alignment explanation
Indices: 44867341--44867379 Score: 60
Period size: 13 Copynumber: 3.1 Consensus size: 12
44867331 AAAAAAATAA
44867341 AAAAAGAATAAAG
1 AAAAAGAA-AAAG
44867354 AAAAAGAAAAAAG
1 AAAAAG-AAAAAG
44867367 AAAAAGAAAAAG
1 AAAAAGAAAAAG
44867379 A
1 A
44867380 GACATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.28
13 16 0.64
14 2 0.08
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:44872894 original size:30 final size:30
Alignment explanation
Indices: 44872855--44872911 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
44872845 TTTTATAAAT
44872855 AATTAATATTT-AT-TGCTTAAAAATATTTAA
1 AATTAATATTTCATATG-TT-AAAATATTTAA
*
44872885 AATTTATATTTCATATGTTAAAATATT
1 AATTAATATTTCATATGTTAAAATATT
44872912 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATGTTAAAATATTTAA
Found at i:44873103 original size:13 final size:13
Alignment explanation
Indices: 44873087--44873152 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
44873077 TTTAAACCGA
44873087 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
44873100 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
*
44873113 ACTTTTCCATAA-C
1 ACTTTT-CAAAAGC
44873126 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
44873139 AGTTTTCAAAAGC
1 ACTTTTCAAAAGC
44873152 A
1 A
44873153 ATGAAGAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 4 0.09
13 36 0.82
14 4 0.09
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:44886758 original size:9 final size:9
Alignment explanation
Indices: 44886744--44886773 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
44886734 TTTACTGTTG
44886744 TTTTTATTA
1 TTTTTATTA
44886753 TTTTTATTA
1 TTTTTATTA
44886762 TTTTT-TTA
1 TTTTTATTA
44886770 TTTT
1 TTTT
44886774 CCTTATTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTATTA
Found at i:44890712 original size:65 final size:65
Alignment explanation
Indices: 44890592--44890720 Score: 150
Period size: 65 Copynumber: 2.0 Consensus size: 65
44890582 GGTTCTTATC
* * ** *
44890592 CAGACAGCTATCAGGTGCGATGATAATTCTAAACATAATCTGGAATTAACCCATGCAACGACATG
1 CAGACAGCTATCAGGTGCGATGACAATTCTAAACACAATCCAGAATGAACCCATGCAACGACATG
* ** ** * *
44890657 CAGACATCTATCAGGTGCGATGACAATTCTGGATGCAATCCAGAATGAACTCATGCAGCGACAT
1 CAGACAGCTATCAGGTGCGATGACAATTCTAAACACAATCCAGAATGAACCCATGCAACGACAT
44890721 TAATGCAATA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
65 52 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (65 bp):
CAGACAGCTATCAGGTGCGATGACAATTCTAAACACAATCCAGAATGAACCCATGCAACGACATG
Found at i:44892576 original size:23 final size:24
Alignment explanation
Indices: 44892549--44892593 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
44892539 TAACTTTTCG
44892549 ACAGAGTACTGCTGAAA-AAAATC
1 ACAGAGTACTGCTGAAAGAAAATC
44892572 ACAGAGTACTGCTGAAAGAAAA
1 ACAGAGTACTGCTGAAAGAAAA
44892594 CAAACTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.16
Consensus pattern (24 bp):
ACAGAGTACTGCTGAAAGAAAATC
Found at i:44902789 original size:17 final size:17
Alignment explanation
Indices: 44902767--44902799 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44902757 AACTAACATT
44902767 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
44902784 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
44902800 GTGCACTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:44908212 original size:54 final size:54
Alignment explanation
Indices: 44908112--44908323 Score: 225
Period size: 54 Copynumber: 3.9 Consensus size: 54
44908102 AATAATTTCG
* * * * * *
44908112 AAGGGTAAACTGACCGAAATA-TCCCGAAGGATAAAATCATCGAAATACCTTC-A
1 AAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACC-CCGA
* * * *
44908165 AAGGGTAAAATAACCGAAATAACCCTGAAGGGTAAAATAACCGAAATACCCCTG-
1 AAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCC-GA
* * * *
44908219 AAGGGTAAAATGATCGAAATACCCCCGAAAGGTAAAATGATCAAAATACCCCGGA
1 AAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCC-GA
* *
44908274 AA-GGTAAAATGACCAAAATACCCCCGAAGGTTAAAATGACCGAAATACCC
1 AAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCC
44908324 TTCAACGATA
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
53 20 0.15
54 110 0.83
55 2 0.02
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (54 bp):
AAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCCGA
Found at i:44908253 original size:81 final size:80
Alignment explanation
Indices: 44908074--44908323 Score: 252
Period size: 81 Copynumber: 3.1 Consensus size: 80
44908064 GTTATGACCA
* * * * ** * *
44908074 AAATATCCCCATAGGGTAATATGACCAAAATAATTTC-GAAGGGTAAACTGACCGAAATATCCCG
1 AAATACCCCCAAAGGGTAAAATAACCAAAATAA-CCCGGAAGGGTAAAATGACCGAAATACCCCG
*
44908138 AAGGATAAAATCATCG
65 AAGGATAAAATGATCG
** * * *
44908154 AAATACCTTCAAAGGGTAAAATAACCGAAATAACCCTGAAGGGTAAAATAACCGAAATACCCCTG
1 AAATACCCCCAAAGGGTAAAATAACCAAAATAACCCGGAAGGGTAAAATGACCGAAATACCCC-G
*
44908219 AAGGGTAAAATGATCG
65 AAGGATAAAATGATCG
* * * * *
44908235 AAATACCCCCGAAA-GGTAAAATGATCAAAATACCCCGGAAAGGTAAAATGACCAAAATACCCCC
1 AAATACCCCC-AAAGGGTAAAATAACCAAAATAACCCGGAAGGGTAAAATGACCGAAATA-CCCC
* *
44908299 GAAGGTTAAAATGACCG
64 GAAGGATAAAATGATCG
44908316 AAATACCC
1 AAATACCC
44908324 TTCAACGATA
Statistics
Matches: 140, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
79 1 0.01
80 49 0.35
81 83 0.59
82 7 0.05
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (80 bp):
AAATACCCCCAAAGGGTAAAATAACCAAAATAACCCGGAAGGGTAAAATGACCGAAATACCCCGA
AGGATAAAATGATCG
Found at i:44908335 original size:27 final size:26
Alignment explanation
Indices: 44908067--44908324 Score: 171
Period size: 27 Copynumber: 9.6 Consensus size: 26
44908057 TTACACTGTT
* *
44908067 ATGACCAAAATATCCC-CATAGGGTAAT
1 ATGACCGAAATA-CCCTCA-AGGGTAAA
* ***
44908094 ATGACCAAAATAATTTCGAAGGGTAAA
1 ATGACCGAAATACCCTC-AAGGGTAAA
* * *
44908121 CTGACCGAAATATCCC-GAAGGATAAA
1 ATGACCGAAATA-CCCTCAAGGGTAAA
* * *
44908147 ATCATCGAAATACCTTCAAAGGGTAAA
1 ATGACCGAAATACCCTC-AAGGGTAAA
* *
44908174 ATAACCGAAATAACCCTGAAGGGTAAA
1 ATGACCGAAAT-ACCCTCAAGGGTAAA
* *
44908201 ATAACCGAAATACCCCTGAAGGGTAAA
1 ATGACCGAAATA-CCCTCAAGGGTAAA
* * *
44908228 ATGATCGAAATACCCCCGAAAGGTAAA
1 ATGACCGAAATACCCTC-AAGGGTAAA
* * *
44908255 ATGATCAAAATACCC-CGGAAAGGTAAA
1 ATGACCGAAATACCCTC--AAGGGTAAA
* * *
44908282 ATGACCAAAATACCCCCGAAGGTTAAA
1 ATGACCGAAATACCCTC-AAGGGTAAA
44908309 ATGACCGAAATACCCT
1 ATGACCGAAATACCCT
44908325 TCAACGATAA
Statistics
Matches: 189, Mismatches: 32, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
25 2 0.01
26 22 0.12
27 159 0.84
28 6 0.03
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (26 bp):
ATGACCGAAATACCCTCAAGGGTAAA
Found at i:44908475 original size:18 final size:18
Alignment explanation
Indices: 44908452--44908494 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
44908442 TTCTATTCAA
44908452 TTTAGTCCAAATTCACA-T
1 TTTAGTCCAAATT-ACATT
*
44908470 TTTAGT-AAAATTACATT
1 TTTAGTCCAAATTACATT
44908487 TTTAGTCC
1 TTTAGTCC
44908495 CTAACTCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 3 0.14
17 12 0.57
18 6 0.29
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (18 bp):
TTTAGTCCAAATTACATT
Found at i:44912237 original size:14 final size:14
Alignment explanation
Indices: 44912218--44912244 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44912208 GTGATCCAAT
44912218 TGAACTGAACCGAG
1 TGAACTGAACCGAG
44912232 TGAACTGAACCGA
1 TGAACTGAACCGA
44912245 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:44917728 original size:13 final size:13
Alignment explanation
Indices: 44917710--44917736 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44917700 ATCATTGAGG
44917710 TAGAATTATTTGA
1 TAGAATTATTTGA
44917723 TAGAATTATTTGA
1 TAGAATTATTTGA
44917736 T
1 T
44917737 GTTGGGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TAGAATTATTTGA
Found at i:44943058 original size:30 final size:30
Alignment explanation
Indices: 44943001--44943059 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
44942991 TTATCTCTGT
* *
44943001 CATCTGTCACTTGATGAATAGTAATATTAA
1 CATCTGTCACTCGATGAATAGCAATATTAA
*
44943031 CATCTGTCACTCGATGAATAGCCATATTA
1 CATCTGTCACTCGATGAATAGCAATATTA
44943060 CGTAATTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (30 bp):
CATCTGTCACTCGATGAATAGCAATATTAA
Found at i:44951718 original size:18 final size:18
Alignment explanation
Indices: 44951681--44951714 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44951671 AAATCACAAA
44951681 AATTAAAGAATAAATAAT
1 AATTAAAGAATAAATAAT
*
44951699 AATTAAATAA-AAATAA
1 AATTAAAGAATAAATAA
44951715 ATAAACCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AATTAAAGAATAAATAAT
Found at i:44955137 original size:21 final size:20
Alignment explanation
Indices: 44955088--44955133 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
44955078 GTTTTAATTG
*
44955088 AAAAGTAAGGATCTATTTGA
1 AAAAGGAAGGATCTATTTGA
44955108 AAAAGGAAGGATCTATTTGA
1 AAAAGGAAGGATCTATTTGA
44955128 AAAAGG
1 AAAAGG
44955134 GAAGAAACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.24
Consensus pattern (20 bp):
AAAAGGAAGGATCTATTTGA
Found at i:44957203 original size:20 final size:20
Alignment explanation
Indices: 44957178--44957220 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
44957168 TGCATTGAAA
44957178 AGATAGCGTGGTATGTTTGC
1 AGATAGCGTGGTATGTTTGC
44957198 AGATAGCGTGGTATGTTTGC
1 AGATAGCGTGGTATGTTTGC
44957218 AGA
1 AGA
44957221 GTGTGAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.35, T:0.33
Consensus pattern (20 bp):
AGATAGCGTGGTATGTTTGC
Found at i:44957480 original size:17 final size:17
Alignment explanation
Indices: 44957460--44957495 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44957450 GAACTATTAA
44957460 TTGGAATGAACTGTCAT
1 TTGGAATGAACTGTCAT
* *
44957477 TTGGTATGAACTGTTAT
1 TTGGAATGAACTGTCAT
44957494 TT
1 TT
44957496 CATATGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.44
Consensus pattern (17 bp):
TTGGAATGAACTGTCAT
Found at i:44957501 original size:17 final size:17
Alignment explanation
Indices: 44957465--44957503 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
44957455 ATTAATTGGA
**
44957465 ATGAACTGTCATTTGGT
1 ATGAACTGTCATTTCAT
*
44957482 ATGAACTGTTATTTCAT
1 ATGAACTGTCATTTCAT
44957499 ATGAA
1 ATGAA
44957504 AAGATGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (17 bp):
ATGAACTGTCATTTCAT
Found at i:44966058 original size:23 final size:22
Alignment explanation
Indices: 44966028--44966074 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
44966018 GTAGAGCGGT
*
44966028 GGTGGGG-AGGGGGAGAAGGGCAA
1 GGTGGGGAAGGAGGAG-AGGG-AA
44966051 GGTGGGGAAGGAGGAGAGGGAA
1 GGTGGGGAAGGAGGAGAGGGAA
44966073 GG
1 GG
44966075 GAAGGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
24 7 0.32
ACGTcount: A:0.28, C:0.02, G:0.66, T:0.04
Consensus pattern (22 bp):
GGTGGGGAAGGAGGAGAGGGAA
Found at i:44966261 original size:24 final size:23
Alignment explanation
Indices: 44966220--44966267 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
44966210 TCAACAATAT
**
44966220 TTTTATATATTTTTAAATATATTA
1 TTTTATATATTTGAAAATAT-TTA
*
44966244 TTTTATTTATTTGAAAATATTTA
1 TTTTATATATTTGAAAATATTTA
44966267 T
1 T
44966268 GCATTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTATATATTTGAAAATATTTA
Found at i:44966520 original size:29 final size:30
Alignment explanation
Indices: 44966487--44966547 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
44966477 GTAGTGTGGA
* *
44966487 TGCTTAAATTGCAAA-CTTTTTAT-TTTGAG
1 TGCTTAAAATG-AAATCTTTTTATAATTGAG
44966516 TGCTTAAAATGAAATCTTTTTATAATTGAG
1 TGCTTAAAATGAAATCTTTTTATAATTGAG
44966546 TG
1 TG
44966548 ACTATCAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 3 0.11
29 18 0.64
30 7 0.25
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (30 bp):
TGCTTAAAATGAAATCTTTTTATAATTGAG
Found at i:44970589 original size:20 final size:21
Alignment explanation
Indices: 44970559--44970611 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
44970549 AATCTTGGAT
*
44970559 GAAATTGAGAGAAGAA-AAAAA
1 GAAA-TGAGAGAAAAAGAAAAA
44970580 GAAATGAGAGAAAAAGAAAAA
1 GAAATGAGAGAAAAAGAAAAA
44970601 GAAAATGAGAG
1 G-AAATGAGAG
44970612 TGAGAGTGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 10 0.34
21 10 0.34
22 9 0.31
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.08
Consensus pattern (21 bp):
GAAATGAGAGAAAAAGAAAAA
Found at i:44970671 original size:37 final size:39
Alignment explanation
Indices: 44970588--44970671 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
44970578 AAGAAATGAG
44970588 AGAAAAAG-AAAAAGAAAATGAGAGTGAGAGTGAGAAAA
1 AGAAAAAGAAAAAAGAAAATGAGAGTGAGAGTGAGAAAA
** * *
44970626 AGAAAAAGAAAAAAGAATTTGAGATTGAGA-T-TGAAAA
1 AGAAAAAGAAAAAAGAAAATGAGAGTGAGAGTGAGAAAA
44970663 AGAAAAAGA
1 AGAAAAAGA
44970672 TGAAAATGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
37 14 0.34
38 9 0.22
39 18 0.44
ACGTcount: A:0.63, C:0.00, G:0.25, T:0.12
Consensus pattern (39 bp):
AGAAAAAGAAAAAAGAAAATGAGAGTGAGAGTGAGAAAA
Found at i:44970727 original size:12 final size:12
Alignment explanation
Indices: 44970710--44970749 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
44970700 AGTGAAAAGC
44970710 AAAAAGAGATTG
1 AAAAAGAGATTG
*
44970722 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
44970734 AAAGAGAGCTTG
1 AAAAAGAGATTG
44970746 AAAA
1 AAAA
44970750 GAAATCGAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.60, C:0.03, G:0.23, T:0.15
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:44973501 original size:157 final size:157
Alignment explanation
Indices: 44973215--44973528 Score: 583
Period size: 157 Copynumber: 2.0 Consensus size: 157
44973205 GGCATTTAAA
44973215 GGGAAGGTTTAATTCTTTGCTGCCGAATTTAATGCTGAATCAATTCATGATGCATGCACTTGGAC
1 GGGAAGGTTTAATTCTTTGCTGCCGAATTTAATGCTGAATCAATTCATGATGCATGCACTTGGAC
*
44973280 TTGCATTAAAGAAGAGGCTGCTGATTCTCTCCAAGTACCTTTTTCGTGGGGAATACATGAATTAA
66 TTGCATTAAAGAAGAGGCTACTGATTCTCTCCAAGTACCTTTTTCGTGGGGAATACATGAATTAA
*
44973345 AGGATGTGATAAGTTCTATTGGCTTTC
131 AGGATATGATAAGTTCTATTGGCTTTC
*
44973372 GGGAAGGTTTAATTCTTTGCTGCCGAATTTAATGCTGAATCAATTCATGATGCATGCACTTTGAC
1 GGGAAGGTTTAATTCTTTGCTGCCGAATTTAATGCTGAATCAATTCATGATGCATGCACTTGGAC
* *
44973437 TTGCATTGAAGAAGAGGCTACTGATTCTCTCCAAGTACCTTTTTCGTGGGGAATACATGTATTAA
66 TTGCATTAAAGAAGAGGCTACTGATTCTCTCCAAGTACCTTTTTCGTGGGGAATACATGAATTAA
44973502 AGGATATGATAAGTTCTATTGGCTTTC
131 AGGATATGATAAGTTCTATTGGCTTTC
44973529 CAAGGCTTGG
Statistics
Matches: 152, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (157 bp):
GGGAAGGTTTAATTCTTTGCTGCCGAATTTAATGCTGAATCAATTCATGATGCATGCACTTGGAC
TTGCATTAAAGAAGAGGCTACTGATTCTCTCCAAGTACCTTTTTCGTGGGGAATACATGAATTAA
AGGATATGATAAGTTCTATTGGCTTTC
Found at i:44974535 original size:29 final size:29
Alignment explanation
Indices: 44974498--44974554 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
44974488 CACCTTGACA
* * *
44974498 CGAATTCTCAATGAACAAGTTCTTCATCG
1 CGAACTCTCAACGAACAAGTTCTCCATCG
44974527 CGAACTCTCAACGAACAAGTTCTCCATC
1 CGAACTCTCAACGAACAAGTTCTCCATC
44974555 TTTTCTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAGTTCTCCATCG
Found at i:44975932 original size:24 final size:24
Alignment explanation
Indices: 44975905--44975951 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
44975895 CCACTCCTGG
44975905 AATTTGGCTGTAACCCTTTGCAAA
1 AATTTGGCTGTAACCCTTTGCAAA
44975929 AATTTGGCTGTAACCCTTTGCAA
1 AATTTGGCTGTAACCCTTTGCAA
44975952 CAAGCCTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
AATTTGGCTGTAACCCTTTGCAAA
Found at i:44979197 original size:28 final size:28
Alignment explanation
Indices: 44979143--44979202 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
44979133 AACTCTCCAA
*
44979143 AATTTTAAAAAATAAAAATAATTTAAAT
1 AATTTTAAAAAATAAAAATAATATAAAT
*
44979171 AATTTTAAAATATATGAAAAAT-ATAAAAAT
1 AATTTTAAAA-A-AT-AAAAATAATATAAAT
44979201 AA
1 AA
44979203 AAAAAGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 10 0.37
29 1 0.04
30 10 0.37
31 6 0.22
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (28 bp):
AATTTTAAAAAATAAAAATAATATAAAT
Found at i:44980215 original size:33 final size:32
Alignment explanation
Indices: 44980178--44980272 Score: 86
Period size: 33 Copynumber: 2.9 Consensus size: 32
44980168 AAACTACTTT
*
44980178 ATATTTTATATATCATTATATTAAATTATTTGA
1 ATATTTTAT-TATCATTATATTAAATTATTTAA
* * * *
44980211 ATATTTCATGTATTATTAAATTAAATTAATTAA
1 ATATTTTAT-TATCATTATATTAAATTATTTAA
* *
44980244 ATATTATT-TT-TCATCATATTAATTTATTT
1 ATATT-TTATTATCATTATATTAAATTATTT
44980273 TAGATATCCT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
31 14 0.29
32 1 0.02
33 33 0.67
34 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (32 bp):
ATATTTTATTATCATTATATTAAATTATTTAA
Found at i:44981966 original size:156 final size:155
Alignment explanation
Indices: 44981826--44982204 Score: 406
Period size: 156 Copynumber: 2.4 Consensus size: 155
44981816 TTATTCCAAA
* * * *
44981826 AAAATT-TTTTATTTCCT-AAAACGATTAAAAT-AAAATCGTTTCGAGATCGATTCCTGTCATTC
1 AAAATTGTTTTATTT-CTAAAAACAAGTAAAATAAAAATCGTTTCGAGATCGATTCCCGCCATTC
* *
44981888 AACGATTTTATTCTAAAATTGTTTTATTTCCAAAAACGAGTAAAATAAAATTGTTTCGGGATAAA
65 AACGATTTTATTCCAAAATTGTTTTATTTCCAAAAACGAGAAAAATAAAATTGTTTCGGGATAAA
44981953 TTACCGCCGTTCAAAAATTTTATTCC
130 TTACCGCCGTTCAAAAATTTTATTCC
* * * * *
44981979 AAATTTGTTTTATTTCTAAAAACAAGTAAAATAAAAAATTGTTTCGGGATTGATTCCCGCCGTTC
1 AAAATTGTTTTATTTCTAAAAACAAGTAAAAT-AAAAATCGTTTCGAGATCGATTCCCGCCATTC
* * ** *
44982044 AACGATTTTATTCCAAATTTGTTTTATTTCCAAAAATGAGAAAAATAAAAAAAATCCTTTCGAGA
65 AACGATTTTATTCCAAAATTGTTTTATTTCCAAAAACGAGAAAAAT----AAAATTGTTTCGGGA
** * * ** *
44982109 TTGATTTCCGCTGTTCAACTATTTTATTTC
126 TAAATTACCGCCGTTCAAAAATTTTATTCC
* * * * * *
44982139 AAATTTGTTTTATTTCCAAAAACGAGTAACAT-AAAATCCATTTCGAGATTGATTCCCGCCATTC
1 AAAATTGTTTTATTTCTAAAAACAAGTAAAATAAAAAT-CGTTTCGAGATCGATTCCCGCCATTC
44982203 AA
65 AA
44982205 TAGATTTATT
Statistics
Matches: 187, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
153 7 0.04
154 20 0.11
156 67 0.36
158 5 0.03
159 24 0.13
160 64 0.34
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (155 bp):
AAAATTGTTTTATTTCTAAAAACAAGTAAAATAAAAATCGTTTCGAGATCGATTCCCGCCATTCA
ACGATTTTATTCCAAAATTGTTTTATTTCCAAAAACGAGAAAAATAAAATTGTTTCGGGATAAAT
TACCGCCGTTCAAAAATTTTATTCC
Found at i:44982054 original size:79 final size:77
Alignment explanation
Indices: 44981769--44982204 Score: 433
Period size: 79 Copynumber: 5.5 Consensus size: 77
44981759 GGAAATTTAA
* * * ** * *
44981769 AGTAAAATAAAAATCATTTTGGGATTGATTCGTGCCATTCAATGATTTTATTCCAAAAAAATT-T
1 AGTAAAAT-AAAATCGTTTCGAGATTGATTCCCGCCATTCAACGATTTTATTCC---AAATTTGT
*
44981833 TTTATTTCCTAAAACG
62 TTTATTTCCAAAAACG
* * * * * *
44981849 ATTAAAATAAAATCGTTTCGAGATCGATTCCTGTCATTCAACGATTTTATTCTAAAATTGTTTTA
1 AGTAAAATAAAATCGTTTCGAGATTGATTCCCGCCATTCAACGATTTTATTCCAAATTTGTTTTA
44981914 TTTCCAAAAACG
66 TTTCCAAAAACG
* * ** * * **
44981926 AGTAAAATAAAATTGTTTCGGGATAAATTACCGCCGTTCAAAAATTTTATTCCAAATTTGTTTTA
1 AGTAAAATAAAATCGTTTCGAGATTGATTCCCGCCATTCAACGATTTTATTCCAAATTTGTTTTA
* *
44981991 TTTCTAAAAACA
66 TTTCCAAAAACG
* * *
44982003 AGTAAAATAAAAAATTGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
1 AGTAAAAT--AAAATCGTTTCGAGATTGATTCCCGCCATTCAACGATTTTATTCCAAATTTGTTT
*
44982068 TATTTCCAAAAATG
64 TATTTCCAAAAACG
* * * ** * *
44982082 AGAAAAATAAAAAAAATCCTTTCGAGATTGATTTCCGCTGTTCAACTATTTTATTTCAAATTTGT
1 AGTAAAAT----AAAATCGTTTCGAGATTGATTCCCGCCATTCAACGATTTTATTCCAAATTTGT
44982147 TTTATTTCCAAAAACG
62 TTTATTTCCAAAAACG
* *
44982163 AGTAACATAAAATCCATTTCGAGATTGATTCCCGCCATTCAA
1 AGTAAAATAAAAT-CGTTTCGAGATTGATTCCCGCCATTCAA
44982205 TAGATTTATT
Statistics
Matches: 302, Mismatches: 48, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
76 6 0.02
77 91 0.30
78 24 0.08
79 105 0.35
80 7 0.02
81 69 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (77 bp):
AGTAAAATAAAATCGTTTCGAGATTGATTCCCGCCATTCAACGATTTTATTCCAAATTTGTTTTA
TTTCCAAAAACG
Found at i:44982236 original size:78 final size:77
Alignment explanation
Indices: 44981832--44982238 Score: 282
Period size: 77 Copynumber: 5.2 Consensus size: 77
44981822 CAAAAAAATT
* * * * * * * * * *
44981832 TTTTATTTCCTAAAACGATTAAAATAAAATCGTTTCGAGATCGATTCCTGTCATTCAACGATTTT
1 TTTTATTGCCAAAAACGAGTAACATAAAATCCTTTCGAGATTGATTCCCGCCATTCAACTAATTT
*
44981897 ATT-CTAAAATTG
66 ATTAC-AAATTTG
* * ** * ** * * *
44981909 TTTTATTTCCAAAAACGAGTAAAATAAAATTGTTTCGGGATAAATTACCGCCGTTCAA-AAATTT
1 TTTTATTGCCAAAAACGAGTAACATAAAATCCTTTCGAGATTGATTCCCGCCATTCAACTAA-TT
*
44981973 TATTCCAAATTTG
65 TATTACAAATTTG
* * * * ** * * * *
44981986 TTTTATTTCTAAAAACAAGTAAAATAAAAAATTGTTTCGGGATTGATTCCCGCCGTTCAACGATT
1 TTTTATTGCCAAAAACGAGTAACAT--AAAATCCTTTCGAGATTGATTCCCGCCATTCAACTAAT
*
44982051 TTATTCCAAATTTG
64 TTATTACAAATTTG
* * * * * **
44982065 TTTTATTTCCAAAAATGAGAAAAATAAAAAAAATCCTTTCGAGATTGATTTCCGCTGTTCAACTA
1 TTTTATTGCCAAAAACGAGTAACAT----AAAATCCTTTCGAGATTGATTCCCGCCATTCAACTA
* *
44982130 TTTTATTTCAAATTTG
62 ATTTATTACAAATTTG
*
44982146 TTTTATTTCCAAAAACGAGTAACATAAAATCCATTTCGAGATTGATTCCCGCCATTCAA-TAGAT
1 TTTTATTGCCAAAAACGAGTAACATAAAATCC-TTTCGAGATTGATTCCCGCCATTCAACTA-AT
*
44982210 TTATTAC-ATTTTG
64 TTATTACAAATTTG
*
44982223 ATTTTGTTGCCAAAAA
1 -TTTTATTGCCAAAAA
44982239 TGAGAAATTA
Statistics
Matches: 278, Mismatches: 42, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
76 1 0.00
77 97 0.35
78 44 0.16
79 66 0.24
80 1 0.00
81 69 0.25
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (77 bp):
TTTTATTGCCAAAAACGAGTAACATAAAATCCTTTCGAGATTGATTCCCGCCATTCAACTAATTT
ATTACAAATTTG
Found at i:44982345 original size:85 final size:85
Alignment explanation
Indices: 44982242--44982408 Score: 282
Period size: 85 Copynumber: 2.0 Consensus size: 85
44982232 CCAAAAATGA
* *
44982242 GAAATTAAATTAAATAAAATCTGTTTCGAA-ATTTATTCTCGCTGTTTAACAAGATTTTATTTGA
1 GAAATTAAATTAAATAAAATCTGTTTC-AAGATTTATTCCCGCAGTTTAACAAGATTTTATTTGA
*
44982306 TTTTATTTTGTTTCCAAATTC
65 TATTATTTTGTTTCCAAATTC
44982327 GAAATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCAGTTTAACAAGATTTTATTTGAT
1 GAAATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCAGTTTAACAAGATTTTATTTGAT
*
44982392 ATTGTTTTGTTTCCAAA
66 ATTATTTTGTTTCCAAA
44982409 CAAAGAAATA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
84 2 0.03
85 75 0.97
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (85 bp):
GAAATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCCGCAGTTTAACAAGATTTTATTTGAT
ATTATTTTGTTTCCAAATTC
Found at i:44986202 original size:23 final size:24
Alignment explanation
Indices: 44986158--44986202 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
44986148 TCAATTTTCC
*
44986158 TTTATTTCAATTATTTATTTTGGT
1 TTTATTTCAATTATTCATTTTGGT
44986182 TTTATTT-AATT-TTCATATTTG
1 TTTATTTCAATTATTCAT-TTTG
44986203 ATAAATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 8 0.42
24 7 0.37
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (24 bp):
TTTATTTCAATTATTCATTTTGGT
Found at i:44999227 original size:55 final size:55
Alignment explanation
Indices: 44999168--44999279 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
44999158 TAATCCAGTC
44999168 ATAAAGGAAGTGGTAAAAAAGGAACTGATCAAATGGTTAGACGCAAGTATTGTTT
1 ATAAAGGAAGTGGTAAAAAAGGAACTGATCAAATGGTTAGACGCAAGTATTGTTT
44999223 ATAAAGGAAGTGGTAAAAAAGGAACTGATCAAATGGTTAGACGCAAGTATTGTTT
1 ATAAAGGAAGTGGTAAAAAAGGAACTGATCAAATGGTTAGACGCAAGTATTGTTT
44999278 AT
1 AT
44999280 GCTATCTCTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.26
Consensus pattern (55 bp):
ATAAAGGAAGTGGTAAAAAAGGAACTGATCAAATGGTTAGACGCAAGTATTGTTT
Found at i:45000302 original size:12 final size:12
Alignment explanation
Indices: 45000287--45000311 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45000277 GGCAGTAGTG
45000287 TTTGCTATTCAT
1 TTTGCTATTCAT
45000299 TTTGCTATTCAT
1 TTTGCTATTCAT
45000311 T
1 T
45000312 ATGTGTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.60
Consensus pattern (12 bp):
TTTGCTATTCAT
Found at i:45010333 original size:146 final size:146
Alignment explanation
Indices: 45010131--45010433 Score: 570
Period size: 146 Copynumber: 2.1 Consensus size: 146
45010121 TTAAGATAAC
45010131 CAGTGTGACTAAGGCATCAATATATACATACATAAATATATCTTAGCATCCAATGTACTTTACCT
1 CAGTGTGACTAAGGCATCAATATATACATACATAAATATATCTTAGCATCCAATGTACTTTACCT
*
45010196 ATTAAAAATACTCTAATAGAATGAATATAAGTTGCAGCTTTTGAAAATTTACACTTCTCTTCATT
66 ATTAAAAATACTCTAATAGAATGAATATAAGTTGCAGCTTTTGAAAATTTACACTTATCTTCATT
45010261 AATTATCTCTGTATTG
131 AATTATCTCTGTATTG
45010277 CAGTGTGACTAAGGCATCAATATATACATACATAAATATATCTTAGCATCCAATGTACTTTACCT
1 CAGTGTGACTAAGGCATCAATATATACATACATAAATATATCTTAGCATCCAATGTACTTTACCT
45010342 ATTAAAAATACTCTAATAGAATGAATATAAGTTGCAGCTTTTGAAAATTTACACTTATCTTCATT
66 ATTAAAAATACTCTAATAGAATGAATATAAGTTGCAGCTTTTGAAAATTTACACTTATCTTCATT
*
45010407 AATTATCTTTGTATTG
131 AATTATCTCTGTATTG
* *
45010423 CATTGAGACTA
1 CAGTGTGACTA
45010434 GAGAGTGGTA
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
146 153 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (146 bp):
CAGTGTGACTAAGGCATCAATATATACATACATAAATATATCTTAGCATCCAATGTACTTTACCT
ATTAAAAATACTCTAATAGAATGAATATAAGTTGCAGCTTTTGAAAATTTACACTTATCTTCATT
AATTATCTCTGTATTG
Found at i:45016612 original size:4 final size:4
Alignment explanation
Indices: 45016599--45016629 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
45016589 GTTGTAAAGT
45016599 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
45016630 CTTAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:45026382 original size:95 final size:95
Alignment explanation
Indices: 45026219--45026397 Score: 326
Period size: 95 Copynumber: 1.9 Consensus size: 95
45026209 ATGGGTCTGA
45026219 AGTAATATTCCAAATATAAGTACTCGATAAGCAAGAGTGTATGCATTAGTGATCTTTCTCTTCTC
1 AGTAATATTCCAAATATAAGTACTCGATAAGCAAGAGTGTATGCATTAGTGATCTTTCTCTTCTC
45026284 TAATTCCT-CTATTATCAAAGATTAGTCTAG
66 TAATTCCTGC-ATTATCAAAGATTAGTCTAG
45026314 AGTAATATTCCAAATATAAGTAC-CTGATAAGCAAGAGTGTATGCATTAGTGATCTTTCTCTTCT
1 AGTAATATTCCAAATATAAGTACTC-GATAAGCAAGAGTGTATGCATTAGTGATCTTTCTCTTCT
45026378 CTAATTCCTGCATTATCAAA
65 CTAATTCCTGCATTATCAAA
45026398 TCCACACATT
Statistics
Matches: 82, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
94 1 0.01
95 80 0.98
96 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (95 bp):
AGTAATATTCCAAATATAAGTACTCGATAAGCAAGAGTGTATGCATTAGTGATCTTTCTCTTCTC
TAATTCCTGCATTATCAAAGATTAGTCTAG
Found at i:45032107 original size:23 final size:22
Alignment explanation
Indices: 45032055--45032107 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
45032045 TCCACGTCTT
*
45032055 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
45032077 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
45032100 TTTCTTTT
1 TTTCTTTT
45032108 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:45037499 original size:103 final size:98
Alignment explanation
Indices: 45037387--45037572 Score: 228
Period size: 103 Copynumber: 1.8 Consensus size: 98
45037377 GGGTGCTGAC
* * * * * *
45037387 CTGTCAATGGCCGGCACCCAGTACAATTTTTAAAAAAAAATTTGTGTTAGAGTCAGATATCAGTA
1 CTGTCAATGGACGGCACCCAGTACAA--CTT-AAAAAAAA-TCGTGTCAGAATCAGATATCAATA
*
45037452 TATGAAAAAAATAAAAATAAAAATTTTTGGGTGTTGGT
62 TACG-AAAAAATAAAAATAAAAATTTTTGGGTGTTGGT
* * *
45037490 CTGTCAATGGATGGCACCTAGTACAACTTAAAAAAAATCGTGTCAGAATCATATATCAATATACG
1 CTGTCAATGGACGGCACCCAGTACAACTTAAAAAAAATCGTGTCAGAATCAGATATCAATATACG
*
45037555 AAAAAATAATAATAAAAA
66 AAAAAATAAAAATAAAAA
45037573 ATTCGTAAAC
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
98 17 0.24
99 22 0.31
100 8 0.11
101 2 0.03
103 23 0.32
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (98 bp):
CTGTCAATGGACGGCACCCAGTACAACTTAAAAAAAATCGTGTCAGAATCAGATATCAATATACG
AAAAAATAAAAATAAAAATTTTTGGGTGTTGGT
Found at i:45038083 original size:15 final size:17
Alignment explanation
Indices: 45038059--45038095 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
45038049 GCTAAATTCA
45038059 AAAAATGAAA-AATTAT
1 AAAAATGAAATAATTAT
*
45038075 AAAAA-GAAATTATTAT
1 AAAAATGAAATAATTAT
45038091 AAAAA
1 AAAAA
45038096 CTAACAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAAATGAAATAATTAT
Found at i:45040987 original size:45 final size:45
Alignment explanation
Indices: 45040927--45041022 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
45040917 TACTATGTGA
* * * * * *
45040927 ACCGAACATCATTGATTAGTAAGGTGGTTGTTATGTGTTGATTCC
1 ACCGAACACCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
*
45040972 ACCGGACACCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
1 ACCGAACACCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
45041017 ACCGAA
1 ACCGAA
45041023 TATTTGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (45 bp):
ACCGAACACCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCC
Found at i:45041091 original size:23 final size:22
Alignment explanation
Indices: 45041065--45041108 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
45041055 AATTGACTAA
45041065 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
45041088 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
45041109 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:45048206 original size:3 final size:3
Alignment explanation
Indices: 45048198--45048223 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
45048188 ATTCGATCTT
45048198 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
45048224 TTAAAAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:45049580 original size:20 final size:20
Alignment explanation
Indices: 45049557--45049607 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
45049547 AAATCAAAGT
*
45049557 TTTTTTTAAAAAATCATTAA
1 TTTTCTTAAAAAATCATTAA
*
45049577 TTTTCTT-AAAAATCATTAC
1 TTTTCTTAAAAAATCATTAA
45049596 TTTTCTTAAAAA
1 TTTTCTTAAAAA
45049608 TTAAAACCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTCTTAAAAAATCATTAA
Found at i:45049608 original size:19 final size:19
Alignment explanation
Indices: 45049565--45049608 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
45049555 GTTTTTTTTA
45049565 AAAAATCATTAATTTTCTT
1 AAAAATCATTAATTTTCTT
*
45049584 AAAAATCATTACTTTTCTT
1 AAAAATCATTAATTTTCTT
45049603 AAAAAT
1 AAAAAT
45049609 TAAAACCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAAATCATTAATTTTCTT
Found at i:45049806 original size:20 final size:20
Alignment explanation
Indices: 45049781--45049825 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
45049771 AATAGTTGAA
*
45049781 AAAATTCAAAACTTTATTTT
1 AAAATTCAAAACTTTACTTT
** *
45049801 AAAATTTTAAACTTTCCTTT
1 AAAATTCAAAACTTTACTTT
45049821 AAAAT
1 AAAAT
45049826 GACTAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATTCAAAACTTTACTTT
Found at i:45050139 original size:5 final size:5
Alignment explanation
Indices: 45050129--45050154 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45050119 CTTCTCCTTT
45050129 TTTCA TTTCA TTTCA TTTCA TTTCA T
1 TTTCA TTTCA TTTCA TTTCA TTTCA T
45050155 GTTTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTCA
Found at i:45050228 original size:3 final size:3
Alignment explanation
Indices: 45050222--45050267 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
45050212 TTACTGCTAC
45050222 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
45050268 GATGATAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:45050343 original size:18 final size:18
Alignment explanation
Indices: 45050305--45050343 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
45050295 TGACAAGCCC
* *
45050305 AAAAAGGAAAGAAGAAGA
1 AAAAAGAAAAGAAAAAGA
*
45050323 AAAAAGAAAAGAAAAATA
1 AAAAAGAAAAGAAAAAGA
45050341 AAA
1 AAA
45050344 GTCTCAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:45050653 original size:16 final size:16
Alignment explanation
Indices: 45050632--45050662 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45050622 TAGGCCTCTA
45050632 AATGCAATGAAAAGTC
1 AATGCAATGAAAAGTC
45050648 AATGCAATGAAAAGT
1 AATGCAATGAAAAGT
45050663 AAACTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (16 bp):
AATGCAATGAAAAGTC
Found at i:45050728 original size:42 final size:42
Alignment explanation
Indices: 45050669--45051006 Score: 414
Period size: 42 Copynumber: 8.1 Consensus size: 42
45050659 AAGTAAACTA
* * *
45050669 GAAAAGT-AAACGGACCTCTACACTTGGGTTTCTAAATGCAAT
1 GAAAAGTGAAA-GGACCTCCACACCTGGGTCTCTAAATGCAAT
* * * *
45050711 GAAAAGTCAAAGAACCTCCGCACCTGGGTCTCTAACTGCAAT
1 GAAAAGTGAAAGGACCTCCACACCTGGGTCTCTAAATGCAAT
* *
45050753 GAAAAGTG-AATGACCTCCACACCTGGGTCTCTAGATGCAAT
1 GAAAAGTGAAAGGACCTCCACACCTGGGTCTCTAAATGCAAT
* * * *
45050794 GAAAAGTGAATGGACCTCCACACCTAGGTTTCTAAATGTAAT
1 GAAAAGTGAAAGGACCTCCACACCTGGGTCTCTAAATGCAAT
* *
45050836 GAAAAGTGAATA-GACCTCTACACCTGGGTCTCTAGATGCAAT
1 GAAAAGTGAA-AGGACCTCCACACCTGGGTCTCTAAATGCAAT
* * * * *
45050878 GAAAAGTGAATGGACTTCCAGAACTGGGTTTCTAAATGCAAT
1 GAAAAGTGAAAGGACCTCCACACCTGGGTCTCTAAATGCAAT
* * *
45050920 GAAAAGTGAATGGACCTCCACACCTGGGTCTTTGAATGCAAT
1 GAAAAGTGAAAGGACCTCCACACCTGGGTCTCTAAATGCAAT
45050962 GAAAAGT-AAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
1 GAAAAGTGAAA-GGACCTCCACACCTGGGTCTCTAAATGCAAT
45051004 GAA
1 GAA
45051007 TGTTTTCCTT
Statistics
Matches: 251, Mismatches: 40, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
41 38 0.15
42 210 0.84
43 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
GAAAAGTGAAAGGACCTCCACACCTGGGTCTCTAAATGCAAT
Found at i:45051447 original size:21 final size:19
Alignment explanation
Indices: 45051397--45051455 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
45051387 TTACTCTCTC
*
45051397 TTTAT-TTTTTGGTTTCTTT
1 TTTATCTTTTTTGTTT-TTT
*
45051416 TTTTTCCTTTTTTGTTTTTT
1 TTTAT-CTTTTTTGTTTTTT
45051436 TTCTATC-TTTTTGTTTTTT
1 TT-TATCTTTTTTGTTTTTT
45051455 T
1 T
45051456 CTTGATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 17 0.50
20 6 0.18
21 11 0.32
ACGTcount: A:0.03, C:0.08, G:0.07, T:0.81
Consensus pattern (19 bp):
TTTATCTTTTTTGTTTTTT
Found at i:45055163 original size:33 final size:33
Alignment explanation
Indices: 45055121--45055186 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
45055111 ATGGATTGAT
45055121 TTTAGGGAATATTGTTTGCACTAAAGAGATCAC
1 TTTAGGGAATATTGTTTGCACTAAAGAGATCAC
* * *
45055154 TTTAGGGAATATTGTTTGCGCTGAAGGGATCAC
1 TTTAGGGAATATTGTTTGCACTAAAGAGATCAC
45055187 GGTCGATAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (33 bp):
TTTAGGGAATATTGTTTGCACTAAAGAGATCAC
Found at i:45055658 original size:17 final size:17
Alignment explanation
Indices: 45055636--45055670 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
45055626 ACTTATTAGG
45055636 TTGATTCGATGGATTCT
1 TTGATTCGATGGATTCT
45055653 TTGATTCGATGGATTCT
1 TTGATTCGATGGATTCT
45055670 T
1 T
45055671 CTATTACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.23, T:0.49
Consensus pattern (17 bp):
TTGATTCGATGGATTCT
Found at i:45058726 original size:23 final size:23
Alignment explanation
Indices: 45058700--45058751 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
45058690 TGATTTTTAA
* *
45058700 ATTTTGAATTATTTAATGATAGT
1 ATTTAGAATTATTTAATGATAAT
*
45058723 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAT
45058746 ATTTAG
1 ATTTAG
45058752 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAT
Found at i:45060941 original size:16 final size:16
Alignment explanation
Indices: 45060920--45060955 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
45060910 TTTGGTTCGC
45060920 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
45060936 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
45060952 TGTA
1 TGTA
45060956 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Done.