Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 32 of 222
Found at i:9575523 original size:43 final size:43
Alignment explanation
Indices: 9575474--9575585 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 43
9575464 TGTTATTGTC
* * *
9575474 TAAGACCACGTCTAGGACGTTGGCATCGACT-TGTGTTTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGA-TATGTGATTACATG
9575517 TAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTACATG
1 TAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTACATG
* *
9575560 TAAGACCACCTCTGGGACATTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
9575586 TGTACAAGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
42 2 0.03
43 55 0.93
44 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATG
Found at i:9582995 original size:25 final size:26
Alignment explanation
Indices: 9582956--9583007 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
9582946 AGAAACTTTT
*
9582956 TAAACTTTTATAATTTTTAAAAAATA
1 TAAACTTTTAGAATTTTTAAAAAATA
* *
9582982 TAAA-TTTTAGAATTTTTTATAAATA
1 TAAACTTTTAGAATTTTTAAAAAATA
9583007 T
1 T
9583008 TTTGAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
TAAACTTTTAGAATTTTTAAAAAATA
Found at i:9583004 original size:19 final size:20
Alignment explanation
Indices: 9582980--9583019 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
9582970 TTTTAAAAAA
9582980 TATAAAT-TTTAGAATTTTT
1 TATAAATATTTAGAATTTTT
*
9582999 TATAAATATTTTGAATTTTT
1 TATAAATATTTAGAATTTTT
9583019 T
1 T
9583020 TGTGATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TATAAATATTTAGAATTTTT
Found at i:9590148 original size:19 final size:20
Alignment explanation
Indices: 9590124--9590162 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9590114 TATTTTAAAA
9590124 TATAAAT-TTTAGAATTTTT
1 TATAAATATTTAGAATTTTT
*
9590143 TATAAATATTTTGAATTTTT
1 TATAAATATTTAGAATTTTT
9590163 GAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TATAAATATTTAGAATTTTT
Found at i:9591123 original size:13 final size:13
Alignment explanation
Indices: 9591076--9591130 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
9591066 CAAAGTTTTA
9591076 TATTTAGCATTTC
1 TATTTAGCATTTC
9591089 TAATTT--C-TGTTC
1 T-ATTTAGCAT-TTC
*
9591101 -ATTTATCATTTC
1 TATTTAGCATTTC
9591113 TATTTAGCATTTC
1 TATTTAGCATTTC
9591126 TATTT
1 TATTT
9591131 TCGGACAGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
10 4 0.11
11 1 0.03
12 8 0.23
13 18 0.51
14 4 0.11
ACGTcount: A:0.22, C:0.15, G:0.05, T:0.58
Consensus pattern (13 bp):
TATTTAGCATTTC
Found at i:9591153 original size:38 final size:37
Alignment explanation
Indices: 9591076--9591153 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
9591066 CAAAGTTTTA
**
9591076 TATTTAGCATTTCTAATTTCTGTTCATTTATCATTTC
1 TATTTAGCATTTCTAATTTCTGGACATTTATCATTTC
*
9591113 TATTTAGCATTTCTATTTTC-GGACAGGTTTATCATTTC
1 TATTTAGCATTTCTAATTTCTGGACA--TTTATCATTTC
9591151 TAT
1 TAT
9591154 CAATTTCTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 3 0.08
37 19 0.53
38 14 0.39
ACGTcount: A:0.22, C:0.15, G:0.09, T:0.54
Consensus pattern (37 bp):
TATTTAGCATTTCTAATTTCTGGACATTTATCATTTC
Found at i:9593246 original size:21 final size:22
Alignment explanation
Indices: 9593222--9593273 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
9593212 ATAACATATG
*
9593222 ATATATATTATATA-ATGAAAA
1 ATATATATTATAAATATGAAAA
* *
9593243 ATATTTATTA-AAATATGATAA
1 ATATATATTATAAATATGAAAA
9593264 ATATA-ATTAT
1 ATATATATTAT
9593274 TTTTTACTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
ATATATATTATAAATATGAAAA
Found at i:9596081 original size:6 final size:6
Alignment explanation
Indices: 9596059--9596111 Score: 63
Period size: 6 Copynumber: 8.5 Consensus size: 6
9596049 CTTTTTGTTT
*
9596059 AAAATA AAAA-A ACAAATA TAAATAA AAAATA AATAATA AAAATA AAAATA
1 AAAATA AAAATA A-AAATA AAAAT-A AAAATA AA-AATA AAAATA AAAATA
9596109 AAA
1 AAA
9596112 TGTCTGAGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 2 0.05
6 27 0.66
7 12 0.29
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:9596083 original size:18 final size:20
Alignment explanation
Indices: 9596059--9596110 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
9596049 CTTTTTGTTT
*
9596059 AAAATAAAAAA-ACA-AATA
1 AAAATAAAAAATAAATAATA
*
9596077 TAAATAAAAAATAAATAATA
1 AAAATAAAAAATAAATAATA
9596097 AAAAT-AAAAATAAA
1 AAAATAAAAAATAAA
9596111 ATGTCTGAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 10 0.34
19 11 0.38
20 8 0.28
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAATAAAAAATAAATAATA
Found at i:9596112 original size:20 final size:19
Alignment explanation
Indices: 9596059--9596112 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
9596049 CTTTTTGTTT
*
9596059 AAAATAAAAAAACA-AATA
1 AAAATAAAAAAAAATAATA
*
9596077 TAAATAAAAAATAAATAATA
1 AAAATAAAAAA-AAATAATA
9596097 AAAATAAAAATAAAAT
1 AAAATAAAAA-AAAAT
9596113 GTCTGAGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 10 0.33
19 2 0.07
20 17 0.57
21 1 0.03
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATAAAAAAAAATAATA
Found at i:9596933 original size:13 final size:13
Alignment explanation
Indices: 9596915--9596941 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9596905 TTCCATTTTT
9596915 AAAATAAAAATAA
1 AAAATAAAAATAA
9596928 AAAATAAAAATAA
1 AAAATAAAAATAA
9596941 A
1 A
9596942 TCTAAAATAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:9599791 original size:104 final size:104
Alignment explanation
Indices: 9599608--9599811 Score: 300
Period size: 104 Copynumber: 2.0 Consensus size: 104
9599598 TGTCTGTTTT
9599608 TGTCCCCCCAAATAGCCCAGATTACACATGTTATTTCCTTGCACTTATCCTTAGAATGCACAAAG
1 TGTCCCCCCAAATAGCCCAGATTACACATGTTATTTCCTTGCACTTATCCTTAGAATGCACAAAG
* **
9599673 AACAAATAGTCCATCCACTATCAGTATCTCTCATTCGGC
66 AACAAACAAACCATCCACTATCAGTATCTCTCATTCGGC
* * * *
9599712 TGTCCTCCCAAATAGCCCAGATTGCACATGTTATTTCTTTGCACTTATCCTTAGAATGCACAAGG
1 TGTCCCCCCAAATAGCCCAGATTACACATGTTATTTCCTTGCACTTATCCTTAGAATGCACAAAG
* * * **
9599777 AACAACCAAACCATCCATTGTTTGTATCTCTCATT
66 AACAAACAAACCATCCACTATCAGTATCTCTCATT
9599812 AGACTAATCT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
104 88 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (104 bp):
TGTCCCCCCAAATAGCCCAGATTACACATGTTATTTCCTTGCACTTATCCTTAGAATGCACAAAG
AACAAACAAACCATCCACTATCAGTATCTCTCATTCGGC
Found at i:9600083 original size:100 final size:100
Alignment explanation
Indices: 9599953--9600150 Score: 378
Period size: 100 Copynumber: 2.0 Consensus size: 100
9599943 AATAAAATCA
9599953 TAATGATTTGTTTGTTTATGTCCTCTTTTATTTCATCAAAAGAAACAAAATCATAAAATAAAACA
1 TAATGATTTGTTTGTTTATGTCCTCTTTTATTTCATCAAAAGAAACAAAATCATAAAATAAAACA
*
9600018 GTTTAGTGAATTGGAGAAGTTATTTCTTTTTTTGG
66 ATTTAGTGAATTGGAGAAGTTATTTCTTTTTTTGG
*
9600053 TAATGATTTGTTTGTTTATGTGCTCTTTTATTTCATCAAAAGAAACAAAATCATAAAATAAAACA
1 TAATGATTTGTTTGTTTATGTCCTCTTTTATTTCATCAAAAGAAACAAAATCATAAAATAAAACA
9600118 ATTTAGTGAATTGGAGAAGTTATTTCTTTTTTT
66 ATTTAGTGAATTGGAGAAGTTATTTCTTTTTTT
9600151 CTTTTTTGGT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (100 bp):
TAATGATTTGTTTGTTTATGTCCTCTTTTATTTCATCAAAAGAAACAAAATCATAAAATAAAACA
ATTTAGTGAATTGGAGAAGTTATTTCTTTTTTTGG
Found at i:9605801 original size:35 final size:35
Alignment explanation
Indices: 9605758--9605828 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
9605748 TAAGGTGAAA
9605758 TGGTTGAAAGGGTCTCCATGAATTGGAAATTCGGT
1 TGGTTGAAAGGGTCTCCATGAATTGGAAATTCGGT
9605793 TGGTTGAAAGGGTCTCCATGAATTGGAAATTCGGT
1 TGGTTGAAAGGGTCTCCATGAATTGGAAATTCGGT
9605828 T
1 T
9605829 ATGTAATACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.11, G:0.31, T:0.32
Consensus pattern (35 bp):
TGGTTGAAAGGGTCTCCATGAATTGGAAATTCGGT
Found at i:9612186 original size:21 final size:20
Alignment explanation
Indices: 9612160--9612198 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9612150 CTTTGACGTG
9612160 AGGGTTTCATATTTAAGGTTT
1 AGGGTTTCA-ATTTAAGGTTT
*
9612181 AGGGTTTCAATTTTAGGT
1 AGGGTTTCAATTTAAGGT
9612199 ACAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.46
Consensus pattern (20 bp):
AGGGTTTCAATTTAAGGTTT
Found at i:9613437 original size:20 final size:22
Alignment explanation
Indices: 9613379--9613439 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
9613369 CTTTTAATAA
* *
9613379 ATTAAGATAAAATTAAATATTTC
1 ATTAATATAAAATT-TATATTTC
* *
9613402 ATTCATATAAATTTTATATTT-
1 ATTAATATAAAATTTATATTTC
9613423 ATTAAT-TAAAATTTATA
1 ATTAATATAAAATTTATA
9613440 AGATTTCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 10 0.31
21 5 0.16
22 6 0.19
23 11 0.34
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTAATATAAAATTTATATTTC
Found at i:9620434 original size:49 final size:50
Alignment explanation
Indices: 9620319--9620556 Score: 246
Period size: 50 Copynumber: 4.7 Consensus size: 50
9620309 GATGAGATCC
* *
9620319 CATGTAAGACCAGGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCT
* *
9620375 CATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTC-
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * *
9620424 CATGTAAGACCATGTCT-GGACATAGCGTTGACACCGAGATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
** * * * * **
9620473 CCCGTAAGACCATGTCTGGGACATGACATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * *
9620523 CATGTAAGACCATATCTGGGATATGACATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
9620557 GTACAAGAAA
Statistics
Matches: 157, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
48 29 0.18
49 31 0.20
50 62 0.39
53 3 0.02
55 1 0.01
56 31 0.20
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
Found at i:9620484 original size:98 final size:99
Alignment explanation
Indices: 9620364--9620541 Score: 250
Period size: 98 Copynumber: 1.8 Consensus size: 99
9620354 CATTGAGATT
* * * * * **
9620364 ATGAGAGGTCTCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTC-CATG
1 ATGAGAGGTCTCACGTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAACTCTCATG
*
9620428 TAAGACCATGTCTGGACATAGCGTTGACACCGAG
66 TAAGACCATATCTGGACATAGCGTTGACACCGAG
* * *
9620462 ATGAGAGGTCTCCCGTAAGACCATGTCTGGGACATGACATGGGCACCTATATGAGAACTCTCATG
1 ATGAGAGGTCTCACGTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAACTCTCATG
9620527 TAAGACCATATCTGG
66 TAAGACCATATCTGG
9620542 GATATGACAT
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
98 50 0.74
99 18 0.26
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (99 bp):
ATGAGAGGTCTCACGTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAACTCTCATG
TAAGACCATATCTGGACATAGCGTTGACACCGAG
Found at i:9620590 original size:49 final size:50
Alignment explanation
Indices: 9620372--9620595 Score: 145
Period size: 49 Copynumber: 4.5 Consensus size: 50
9620362 TTATGAGAGG
* * * * * * * **
9620372 TCTCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCTCATGTAAGACCATGTCTGGGACATGACATGGGCACCTACAAGAGAAC
* * * * * * **
9620422 TC-CATGTAAGACCATGTCT-GGACAT-AGCGTTGACACCGAGATGAGAGG
1 TCTCATGTAAGACCATGTCTGGGACATGA-CATGGGCACCTACAAGAGAAC
** * *
9620470 TCTCCCGTAAGACCATGTCTGGGACATGACATGGGCACCTATATGAGAAC
1 TCTCATGTAAGACCATGTCTGGGACATGACATGGGCACCTACAAGAGAAC
* * * *
9620520 TCTCATGTAAGACCATATCTGGGATATGACATTGGCA-GTACAAGA-AAC
1 TCTCATGTAAGACCATGTCTGGGACATGACATGGGCACCTACAAGAGAAC
*
9620568 ATC-CAATGTAAGACTATGTCTGGGACAT
1 -TCTC-ATGTAAGACCATGTCTGGGACAT
9620596 AGCTTTGGCA
Statistics
Matches: 145, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
48 32 0.22
49 58 0.40
50 54 0.37
51 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (50 bp):
TCTCATGTAAGACCATGTCTGGGACATGACATGGGCACCTACAAGAGAAC
Found at i:9620885 original size:16 final size:15
Alignment explanation
Indices: 9620864--9620925 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 15
9620854 TTAATGAAAA
9620864 TTTATGAATATAATTG
1 TTTATGAATATAA-TG
9620880 TTTATG-ATA-AATG
1 TTTATGAATATAATG
9620893 TTGTTATGAATATAACTG
1 -T-TTATGAATATAA-TG
9620911 TTTATG-ATA-AATG
1 TTTATGAATATAATG
9620924 TT
1 TT
9620926 ATTATTTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
13 6 0.15
14 5 0.12
15 11 0.27
16 14 0.34
17 3 0.07
18 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (15 bp):
TTTATGAATATAATG
Found at i:9620900 original size:31 final size:31
Alignment explanation
Indices: 9620865--9620930 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
9620855 TAATGAAAAT
* *
9620865 TTATGAATATAATTGTTTATGATAAATGTTG
1 TTATGAATATAACTGTTTATGATAAATGTTA
9620896 TTATGAATATAACTGTTTATGATAAATGTTA
1 TTATGAATATAACTGTTTATGATAAATGTTA
9620927 TTAT
1 TTAT
9620931 TTATTTACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (31 bp):
TTATGAATATAACTGTTTATGATAAATGTTA
Found at i:9620901 original size:15 final size:14
Alignment explanation
Indices: 9620880--9620930 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
9620870 AATATAATTG
9620880 TTTATGATAAATGT
1 TTTATGATAAATGT
9620894 TGTTATGAATATAACTG-
1 T-TTATG-ATA-AA-TGT
9620911 TTTATGATAAATGT
1 TTTATGATAAATGT
9620925 TATTAT
1 T-TTAT
9620931 TTATTTACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
13 2 0.06
14 4 0.13
15 12 0.39
16 8 0.26
17 3 0.10
18 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (14 bp):
TTTATGATAAATGT
Found at i:9620925 original size:13 final size:13
Alignment explanation
Indices: 9620873--9620925 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 13
9620863 ATTTATGAAT
*
9620873 ATAATTGTTTATG
1 ATAAATGTTTATG
9620886 ATAAATGTTGTTATG
1 ATAAATG-T-TTATG
9620901 AATATAACTGTTTATG
1 -ATA-AA-TGTTTATG
9620917 ATAAATGTT
1 ATAAATGTT
9620926 ATTATTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
13 10 0.29
14 3 0.09
15 8 0.24
16 8 0.24
17 3 0.09
18 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (13 bp):
ATAAATGTTTATG
Found at i:9622473 original size:52 final size:51
Alignment explanation
Indices: 9622387--9622498 Score: 127
Period size: 52 Copynumber: 2.2 Consensus size: 51
9622377 AATAATGCAT
* ***
9622387 AAGAGGACTATGACACATCAAACTTTATCAAAAGTAAAGTTTAATAATTTAC
1 AAGAGGACGATGACACATCAAACTTTAT-AAAAGTAAAGCACAATAATTTAC
* * *
9622439 AAGAGGACGATGACTCACTCATACTTTAGT-AAAGTAAAGCACAATAATTTAT
1 AAGAGGACGATGACACA-TCAAACTTTA-TAAAAGTAAAGCACAATAATTTAC
9622491 AAGAGGAC
1 AAGAGGAC
9622499 AAAAGACTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
52 41 0.80
53 9 0.18
54 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (51 bp):
AAGAGGACGATGACACATCAAACTTTATAAAAGTAAAGCACAATAATTTAC
Found at i:9624534 original size:22 final size:22
Alignment explanation
Indices: 9624506--9624550 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9624496 TTGACATATG
9624506 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
9624528 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
9624550 T
1 T
9624551 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:9628305 original size:22 final size:22
Alignment explanation
Indices: 9628277--9628321 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9628267 AGGGGGAGTG
9628277 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
9628299 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
9628321 T
1 T
9628322 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:9634589 original size:40 final size:40
Alignment explanation
Indices: 9634539--9634664 Score: 193
Period size: 40 Copynumber: 3.1 Consensus size: 40
9634529 TTATTTTTAT
*
9634539 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
9634579 TTTTTTAATTTTAAAATATTTTTAAAATAC--TTTTTAAA
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
*
9634617 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTAA
1 --TTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTTAAA
9634660 TTTTT
1 TTTTT
9634665 AAAATAAATT
Statistics
Matches: 79, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
38 8 0.10
40 59 0.75
41 5 0.06
43 7 0.09
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAA
Found at i:9634601 original size:11 final size:11
Alignment explanation
Indices: 9634547--9634653 Score: 65
Period size: 11 Copynumber: 10.4 Consensus size: 11
9634537 ATTTTTTTAA
*
9634547 TTTTAAAATAC
1 TTTTAAAATAT
9634558 TTTTAAAATACTT
1 TTTTAAAATA--T
*
9634571 TTTTTAAAT-T
1 TTTTAAAATAT
9634581 TTTT---A-A-
1 TTTTAAAATAT
9634587 TTTTAAAATAT
1 TTTTAAAATAT
9634598 TTTTAAAATACT
1 TTTTAAAATA-T
9634610 TTTT-AAAT-T
1 TTTTAAAATAT
* *
9634619 TTTT---TTAA
1 TTTTAAAATAT
9634627 TTTTAAAATAT
1 TTTTAAAATAT
9634638 TTTTAAAATACT
1 TTTTAAAATA-T
9634650 TTTT
1 TTTT
9634654 TTTTAATTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 27
0.70 0.06 0.25
Matches are distributed among these distances:
6 4 0.05
7 2 0.03
8 4 0.05
9 6 0.08
10 6 0.08
11 36 0.47
12 10 0.13
13 8 0.11
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:9634612 original size:29 final size:29
Alignment explanation
Indices: 9634558--9634620 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
9634548 TTTAAAATAC
*
9634558 TTTTAAAATACTTTTTTTAAATTTTTT-AA
1 TTTTAAAATAC-TTTTTAAAATTTTTTAAA
9634587 TTTTAAAATA-TTTTTAAAATACTTTTTAAA
1 TTTTAAAATACTTTTTAAAAT--TTTTTAAA
9634617 TTTT
1 TTTT
9634621 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.30
29 15 0.50
30 6 0.20
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTTAAAATACTTTTTAAAATTTTTTAAA
Found at i:9634684 original size:22 final size:22
Alignment explanation
Indices: 9634635--9634684 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
9634625 AATTTTAAAA
** **
9634635 TATTTTTAAAATACTTTTTTTT
1 TATTTTTAAAATAAATTTTTGG
9634657 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTTGG
9634680 TATTT
1 TATTT
9634685 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTGG
Found at i:9637555 original size:408 final size:408
Alignment explanation
Indices: 9636780--9637544 Score: 961
Period size: 408 Copynumber: 1.9 Consensus size: 408
9636770 CTACTTACAC
* * ** *
9636780 TTACACGTTTTTTTTCCTTCCACATTTCAATTAATGATTTTTTTTGTTTGTTTTCTTTTGTTACA
1 TTACACGTTTTTTTTCCTTCCACATTTCAATTAATGAGTTTTGTCATTTGTTTTCTTCTGTTACA
* * *
9636845 CAAATGTACACACTCGCACTTACTTTTTCTTTTAGTCACAAACATTTAAAGTGTAAAACCCCCTA
66 CAAACGCACACACTCGCACTTACTTTTTCTTTTAGTCACAAACATTAAAAGTGTAAAACCCCCTA
* * *
9636910 ATGGCTCCCACGCGTACACGTATACTCTGCCTTACTTACCCTTCCCCTACCCTCTTTATTTTTCG
131 ATGGCTCCCACGCGCACACATATACTCTGCCTTACTTACACTTCCCCTACCCTCTTTATTTTTCG
9636975 TTATGGTCCAATTTTATTCTACAAACAAAAATTAATTCCCAAATAGTATTATGATAATGGTGTAA
196 TTATGGTCCAATTTTATTCTACAAACAAAAATTAATTCCCAAATAGTATTATGATAATGGTGTAA
*** * * *
9637040 AGAAAAACAAAGCATTGGTGAGTCTGATTCTATTTGGAAATGGCAAGAAATGATTTGCTTAAAAA
261 AGAAAAACAAAGCATTGGTGAGTCTGATTCTATTTGGAAACAACAAGAAATAATCTACTTAAAAA
* * *
9637105 GGAAATAATTAGAACTGTTATGTGCATTATTCATGAATGATTCGTGTACTATTAAGTAACGGCAA
326 GGAAAGAATCAGAACTGTTATGTGCATAATTCATGAATGATTCGTGTACTATTAAGTAACGGCAA
9637170 CTACGACTCTCACTGTAA
391 CTACGACTCTCACTGTAA
** *
9637188 TTACACGTTTTTCTTTCCTTCCGTATTTTAATTAATG-GTTTTGTCATTT-TTTTCTTCTGTTAC
1 TTACACGTTTTT-TTTCCTTCCACATTTCAATTAATGAGTTTTGTCATTTGTTTTCTTCTGTTAC
* * * * * * *
9637251 AGATACGCACACACTTGCACTTACTTTTTCTTTTTG-CTGCGAACATGTAAAAGTGTAAAATCCC
65 ACAAACGCACACACTCGCACTTACTTTTTCTTTTAGTC-ACAAACAT-TAAAAGTGTAAAACCCC
* * * * * * *
9637315 CTTATGGCTCCCACGCGCGCGCATATATTCTGCCTTACTTGCACTTCCCCCTGTCCC-CTTTGTT
128 CTAATGGCTCCCACGCGCACACATATACTCTGCCTTACTTACACTT-CCCCT-ACCCTCTTTATT
* * * * *
9637379 TTT-GTTATGGTTCAGTTTTATTCTACGAACAAAAATTAATTTCCAAATAGTATTATGATTATGG
191 TTTCGTTATGGTCCAATTTTATTCTACAAACAAAAATTAATTCCCAAATAGTATTATGATAATGG
** * *
9637443 TGTAAAGAAACCCAAAGCA-TGAGTGGGGT-TGATAT-TGTTTGGAAACAACAAGAAATAATCTA
256 TGTAAAGAAAAACAAAGCATTG-GT-GAGTCTGAT-TCTATTTGGAAACAACAAGAAATAATCTA
* * *
9637505 CTTCAAAAGGCAAGAATCAGAATTGTTATGTGCATAATTC
318 CTTAAAAAGGAAAGAATCAGAACTGTTATGTGCATAATTC
9637545 GTACATGATT
Statistics
Matches: 300, Mismatches: 49, Indels: 16
0.82 0.13 0.04
Matches are distributed among these distances:
406 1 0.00
407 51 0.17
408 206 0.69
409 39 0.13
410 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (408 bp):
TTACACGTTTTTTTTCCTTCCACATTTCAATTAATGAGTTTTGTCATTTGTTTTCTTCTGTTACA
CAAACGCACACACTCGCACTTACTTTTTCTTTTAGTCACAAACATTAAAAGTGTAAAACCCCCTA
ATGGCTCCCACGCGCACACATATACTCTGCCTTACTTACACTTCCCCTACCCTCTTTATTTTTCG
TTATGGTCCAATTTTATTCTACAAACAAAAATTAATTCCCAAATAGTATTATGATAATGGTGTAA
AGAAAAACAAAGCATTGGTGAGTCTGATTCTATTTGGAAACAACAAGAAATAATCTACTTAAAAA
GGAAAGAATCAGAACTGTTATGTGCATAATTCATGAATGATTCGTGTACTATTAAGTAACGGCAA
CTACGACTCTCACTGTAA
Found at i:9638074 original size:14 final size:14
Alignment explanation
Indices: 9638047--9638122 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
9638037 GTATGTGTGC
*
9638047 ATGATTTGTACATT
1 ATGATTTGTGCATT
*
9638061 ATGTTTTGTGCATT
1 ATGATTTGTGCATT
* ** *
9638075 AAAGATTCATGTATT
1 -ATGATTTGTGCATT
*
9638090 AATGATTTCTGCATT
1 -ATGATTTGTGCATT
9638105 ATG-TTTCGTGCATT
1 ATGATTT-GTGCATT
9638119 ATGA
1 ATGA
9638123 AGCAACGACA
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
13 3 0.06
14 24 0.51
15 20 0.43
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.47
Consensus pattern (14 bp):
ATGATTTGTGCATT
Found at i:9638447 original size:190 final size:178
Alignment explanation
Indices: 9638119--9638648 Score: 511
Period size: 190 Copynumber: 2.9 Consensus size: 178
9638109 TTCGTGCATT
* * * * * * *
9638119 ATGAAGCAACGACAATTACAACTCTAACTGTACTTAAACTTACA-TATTTTTTTCCTTCCCTATT
1 ATGAAGCAGCGACAACTACGACTCTCACTGTACTTACACTTACACT-TTTTTTTCTTTCCTTATT
* * *
9638183 TCAATTAATGGTTTTGTCGTTTGTTTTCTTTTGTTACATATACATACACATGTGCACTTACTTTT
65 TCAATTAATGGTTTTGTCATTTGTTTTCTTCTGTTACACATACATACACATGTGCACTTACTTTT
*
9638248 TCTTTTTGCCACAAACATGTAAAACTGTAAAAACTCAATGATTATGATGATGATTATGCTC
130 TCATTTTGCCACAAACATGTAAAACTGTAAAAACTC---G---ATGATGATG---A---TC
*
9638309 ATGAAGCAGCGGCAACTACGACTCTCACTGTACTTACACTTACACGTTTTTTTTCTTTCCTTATT
1 ATGAAGCAGCGACAACTACGACTCTCACTGTACTTACACTTACAC-TTTTTTTTCTTTCCTTATT
** * *
9638374 TCAATTAATGGTTTTGTCATTTGTTTT-TTCTGTTACACATATGTACATAT-TCGCATTTACTTT
65 TCAATTAATGGTTTTGTCATTTGTTTTCTTCTGTTACACATACATACACATGT-GCACTTACTTT
*** * **
9638437 TTCATTTTGCCGTGAACATGTAAAAGTGTGGAAACTCGATGATGATGATC
129 TTCATTTTGCCACAAACATGTAAAACTGTAAAAACTCGATGATGATGATC
* * * *
9638487 ATGAAGCAGCAACAGCTACGACTCTCACTTTACTTACACTTACACACTTTGTTTTCCTTT--TGT
1 ATGAAGCAGCGACAACTACGACTCTCACTGTACTTACACTT--ACACTTT-TTTTTCTTTCCT-T
** * *
9638550 ATTTCAATTAATGGCATTGTCATTTGTTTTCTTCTGTTACACATACATAAACACT-CGCACTTAC
62 ATTTCAATTAATGGTTTTGTCATTTGTTTTCTTCTGTTACACATACATACACA-TGTGCACTTAC
* * * *
9638614 TTCTT--TTTT-CCGCAAACATGTAAAAGTATAAAAAC
126 TTTTTCATTTTGCCACAAACATGTAAAACTGTAAAAAC
9638649 CCCCTTATGG
Statistics
Matches: 290, Mismatches: 41, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
177 21 0.07
178 44 0.15
179 32 0.11
180 41 0.14
181 2 0.01
184 9 0.03
187 1 0.00
189 1 0.00
190 96 0.33
191 42 0.14
192 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (178 bp):
ATGAAGCAGCGACAACTACGACTCTCACTGTACTTACACTTACACTTTTTTTTCTTTCCTTATTT
CAATTAATGGTTTTGTCATTTGTTTTCTTCTGTTACACATACATACACATGTGCACTTACTTTTT
CATTTTGCCACAAACATGTAAAACTGTAAAAACTCGATGATGATGATC
Found at i:9644212 original size:23 final size:23
Alignment explanation
Indices: 9644185--9644282 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
9644175 AGTGTTATTG
9644185 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
9644208 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
9644231 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9644253 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9644276 ATCAGTG
1 ATCAGTG
9644283 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:9644251 original size:45 final size:45
Alignment explanation
Indices: 9644187--9644275 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
9644177 TGTTATTGAT
* *
9644187 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
9644232 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
9644276 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:9655665 original size:23 final size:23
Alignment explanation
Indices: 9655639--9655734 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
9655629 ATAAGTGCCA
9655639 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
9655662 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
9655685 CACTG--ATGTAGCC-AAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
9655705 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
9655728 CACTGAT
1 CACTGAT
9655735 CAATAACACT
Statistics
Matches: 69, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
20 12 0.17
21 8 0.12
22 8 0.12
23 41 0.59
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:9655705 original size:43 final size:44
Alignment explanation
Indices: 9655646--9655734 Score: 162
Period size: 43 Copynumber: 2.0 Consensus size: 44
9655636 CCACACTGAT
*
9655646 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
9655690 ATGTAGCC-AAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
9655733 AT
1 AT
9655735 CAATAACACT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 36 0.82
44 8 0.18
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (44 bp):
ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
Found at i:9668039 original size:7 final size:7
Alignment explanation
Indices: 9668027--9668051 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9668017 AACAGTCCAT
9668027 TTGCCAA
1 TTGCCAA
9668034 TTGCCAA
1 TTGCCAA
9668041 TTGCCAA
1 TTGCCAA
9668048 TTGC
1 TTGC
9668052 AAATGGCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (7 bp):
TTGCCAA
Found at i:9672585 original size:21 final size:21
Alignment explanation
Indices: 9672559--9672599 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9672549 ATCTGCTCAA
* *
9672559 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
9672580 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
9672600 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:9681734 original size:20 final size:20
Alignment explanation
Indices: 9681709--9681749 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9681699 TTGAATAATC
9681709 TATAATCATACGAAGATGAT
1 TATAATCATACGAAGATGAT
*
9681729 TATAATCATATGAAGATGAT
1 TATAATCATACGAAGATGAT
9681749 T
1 T
9681750 CTCAATGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (20 bp):
TATAATCATACGAAGATGAT
Found at i:9686645 original size:24 final size:25
Alignment explanation
Indices: 9686586--9686645 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
9686576 TGATACTCAA
9686586 CTCGTATGAGCTTACCGTTGTTCAG
1 CTCGTATGAGCTTACCGTTGTTCAG
* *
9686611 CTCGGAGGAGCTTACCGTT-TATC-G
1 CTCGTATGAGCTTACCGTTGT-TCAG
9686635 CTCGTATGAGC
1 CTCGTATGAGC
9686646 ATACATGTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.17, C:0.25, G:0.27, T:0.32
Consensus pattern (25 bp):
CTCGTATGAGCTTACCGTTGTTCAG
Found at i:9687817 original size:12 final size:12
Alignment explanation
Indices: 9687797--9687827 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9687787 CTTCAGTTTT
*
9687797 CACATGGCCTAG
1 CACACGGCCTAG
9687809 CACACGGCCTAG
1 CACACGGCCTAG
9687821 CACACGG
1 CACACGG
9687828 GCGTGTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.39, G:0.26, T:0.10
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:9697246 original size:9 final size:9
Alignment explanation
Indices: 9697212--9697239 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9697202 TTGATATTAA
9697212 AATTTTATT
1 AATTTTATT
9697221 AATTTTATT
1 AATTTTATT
9697230 AATTTTATT
1 AATTTTATT
9697239 A
1 A
9697240 TCTTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
AATTTTATT
Found at i:9700150 original size:18 final size:20
Alignment explanation
Indices: 9700112--9700153 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
9700102 ATTATGTTAT
9700112 ATGTTATAATAAAAGATATA
1 ATGTTATAATAAAAGATATA
*
9700132 ATGTTAT-ATAATA-ATATA
1 ATGTTATAATAAAAGATATA
9700150 ATGT
1 ATGT
9700154 CTAATCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 5 0.24
20 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGTTATAATAAAAGATATA
Found at i:9701246 original size:24 final size:25
Alignment explanation
Indices: 9701218--9701278 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
9701208 ATAGATTATA
9701218 ATATAATATATAAT-ATTACATA-AT
1 ATATAATATATAATCATTA-ATACAT
* *
9701242 CTATAATATCTAATCATTAATACAT
1 ATATAATATATAATCATTAATACAT
9701267 ATAT-ATATATAA
1 ATATAATATATAA
9701279 AGTATTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 22 0.71
25 9 0.29
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (25 bp):
ATATAATATATAATCATTAATACAT
Found at i:9704143 original size:18 final size:18
Alignment explanation
Indices: 9704119--9704166 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
9704109 ATGTATAGGT
*
9704119 ATATATATAAAATATAAA
1 ATATATATAAAATAAAAA
* *
9704137 GTATATA-AAAGTTAAAAA
1 ATATATATAAA-ATAAAAA
9704155 ATATATATAAAA
1 ATATATATAAAA
9704167 AAACGTATGG
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (18 bp):
ATATATATAAAATAAAAA
Found at i:9704372 original size:3 final size:3
Alignment explanation
Indices: 9704364--9704405 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
9704354 ATATCTATAG
9704364 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9704406 ATAACGATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9704417 original size:18 final size:19
Alignment explanation
Indices: 9704364--9704426 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 19
9704354 ATATCTATAG
*
9704364 TAAT-AATAATAATAATAA
1 TAATAAATAACAATAATAA
*
9704382 TAAT-AATAATAATAATAA
1 TAATAAATAACAATAATAA
*
9704400 TAATAAATAACGAT-ATAA
1 TAATAAATAACAATAATAA
*
9704418 TGATAAATA
1 TAATAAATA
9704427 TTTAAAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
18 34 0.83
19 7 0.17
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (19 bp):
TAATAAATAACAATAATAA
Found at i:9710130 original size:5 final size:5
Alignment explanation
Indices: 9710120--9710191 Score: 56
Period size: 5 Copynumber: 13.4 Consensus size: 5
9710110 AGTAATAAAT
* *
9710120 AATAA AATAA AATAA AATAATA AATAA AATAA AAGAA AA-AA AGAAAA
1 AATAA AATAA AATAA AAT-A-A AATAA AATAA AATAA AATAA A-ATAA
*
9710167 AACAA AAGTAAAA AATAA AATAA AA
1 AATAA AA-T--AA AATAA AATAA AA
9710192 ATTGGGTTGC
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
4 3 0.05
5 40 0.70
6 5 0.09
7 5 0.09
8 4 0.07
ACGTcount: A:0.81, C:0.01, G:0.04, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:9710130 original size:12 final size:12
Alignment explanation
Indices: 9710113--9710192 Score: 83
Period size: 12 Copynumber: 6.7 Consensus size: 12
9710103 CCAAATAAGT
*
9710113 AATAAATAATAA
1 AATAAAAAATAA
9710125 AAT--AAAATAA
1 AATAAAAAATAA
*
9710135 AATAATAAATAA
1 AATAAAAAATAA
*
9710147 AATAAAAGAAAAA
1 AATAAAA-AATAA
* *
9710160 AAGAAAAAACAA
1 AATAAAAAATAA
9710172 AAGTAAAAAATAA
1 AA-TAAAAAATAA
9710185 AATAAAAA
1 AATAAAAA
9710193 TTGGGTTGCC
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
10 9 0.16
12 27 0.48
13 20 0.36
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:9710135 original size:17 final size:16
Alignment explanation
Indices: 9710113--9710152 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
9710103 CCAAATAAGT
9710113 AATAAATAATAAAATAA
1 AATAAATAAT-AAATAA
9710130 AATAAAATAATAAATAA
1 AAT-AAATAATAAATAA
9710147 AATAAA
1 AATAAA
9710153 AGAAAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 12 0.55
18 7 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAATAATAAATAA
Found at i:9710138 original size:22 final size:22
Alignment explanation
Indices: 9710113--9710179 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
9710103 CCAAATAAGT
9710113 AATAAATAATAAAATAAAATAA
1 AATAAATAATAAAATAAAATAA
*
9710135 AAT-AATAAATAAAATAAAAGAA
1 AATAAAT-AATAAAATAAAATAA
* *
9710157 AA-AAAGAA-AAAACAAAAGTAA
1 AATAAATAATAAAATAAAA-TAA
9710178 AA
1 AA
9710180 AATAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 8 0.21
21 9 0.24
22 21 0.55
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (22 bp):
AATAAATAATAAAATAAAATAA
Found at i:9710153 original size:17 final size:18
Alignment explanation
Indices: 9710116--9710191 Score: 75
Period size: 18 Copynumber: 4.2 Consensus size: 18
9710106 AATAAGTAAT
9710116 AAATAATAAAATAAAATA
1 AAATAATAAAATAAAATA
9710134 AAATAAT-AAATAAAATA
1 AAATAATAAAATAAAATA
* * * *
9710151 AAAGAAAAAAAGAAAAAACA
1 AAA-TAATAAA-ATAAAATA
9710171 AAAGTAA-AAAATAAAATA
1 AAA-TAATAAAATAAAATA
9710189 AAA
1 AAA
9710192 ATTGGGTTGC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
17 13 0.27
18 18 0.38
19 5 0.10
20 12 0.25
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.14
Consensus pattern (18 bp):
AAATAATAAAATAAAATA
Found at i:9710161 original size:25 final size:24
Alignment explanation
Indices: 9710112--9710193 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 24
9710102 TCCAAATAAG
9710112 TAATAAATAATAA-AATAAAATAAAA
1 TAATAAATAA-AATAA-AAAATAAAA
*
9710137 TAATAAATAAAATAAAAGAAAAAAA
1 TAATAAATAAAATAAAA-AATAAAA
* * *
9710162 GAAAAAACAAAAGTAAAAAATAAAA
1 TAATAAATAAAA-TAAAAAATAAAA
9710187 TAA-AAAT
1 TAATAAAT
9710194 TGGGTTGCCT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 7 0.15
25 35 0.74
26 5 0.11
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (24 bp):
TAATAAATAAAATAAAAAATAAAA
Found at i:9713793 original size:270 final size:270
Alignment explanation
Indices: 9713302--9713836 Score: 851
Period size: 270 Copynumber: 2.0 Consensus size: 270
9713292 ATAAAATAAA
*
9713302 AACAAAATTAAGAATATTGAATCGAAAATTCGAGAAATTAAAAATAAAGTTGAGAGAAAGAAAAT
1 AACAAAATTAAGAATATTGAATCGAAAATTCAAGAAATTAAAAATAAAGTTGAGAGAAAGAAAAT
*
9713367 TCTTATGGAAGGTTCCAGCCTCCAGTTGTCTCGTTGTGCCTTGGGTTCAATCCTCGGCTTTAGAT
66 TCTTATGGAAGGTTCCAGCCTCCAGTTGTCTCGTTGTGCCTTGGGTTCAATCCTCGACTTTAGAT
* *
9713432 GATCCTTCCCAAACCGAATAAGTCAGTTATAGTGGAAGAGGACACCTACGACCACCAGCTCCAAG
131 AATCCTTCCCAAACCGAATAAGTCAGTTATAGTGGAAGAGGACACCTACGACCACCAACTCCAAG
* * * *
9713497 GATTTAGACTTACGATTTAATGGAACCTGACTCTAGCTAACAACCGCTTCTGTGGGATCTTCTTA
196 GATTTAGACTTACGAATTAATGGAACCTGACTCTAGCCAACAACCACTTCTGTGGGATCGTCTTA
9713562 TGCTAAAAAT
261 TGCTAAAAAT
* * *
9713572 AACAGAATTAAGAATATTGAATCGAAAATTCAAGAAATTAAAAATAGAGTTGAGAGAAAGGAAAT
1 AACAAAATTAAGAATATTGAATCGAAAATTCAAGAAATTAAAAATAAAGTTGAGAGAAAGAAAAT
* *
9713637 TCTTCTTGG-AGGTTCTAGCCTCCAGTTGTCTCGTT-TCGCCTTGGGTTCAATCCTCGACTTTAG
66 TCTT-ATGGAAGGTTCCAGCCTCCAGTTGTCTCGTTGT-GCCTTGGGTTCAATCCTCGACTTTAG
* * *
9713700 ATAATCCTTCCCAAACCGAATAAG-CTAGTTTTAGTGGAAGAGGACGCCTACGACCACCAACTCT
129 ATAATCCTTCCCAAACCGAATAAGTC-AGTTATAGTGGAAGAGGACACCTACGACCACCAACTCC
* * *
9713764 AAGGATTTAGACTTACGAATTAGTGGAACCTGACTCTAGCCAACAATCACTTTTGTGGGATCGTC
193 AAGGATTTAGACTTACGAATTAATGGAACCTGACTCTAGCCAACAACCACTTCTGTGGGATCGTC
9713829 TTATGCTA
258 TTATGCTA
9713837 GATCAACACT
Statistics
Matches: 243, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
269 2 0.01
270 238 0.98
271 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (270 bp):
AACAAAATTAAGAATATTGAATCGAAAATTCAAGAAATTAAAAATAAAGTTGAGAGAAAGAAAAT
TCTTATGGAAGGTTCCAGCCTCCAGTTGTCTCGTTGTGCCTTGGGTTCAATCCTCGACTTTAGAT
AATCCTTCCCAAACCGAATAAGTCAGTTATAGTGGAAGAGGACACCTACGACCACCAACTCCAAG
GATTTAGACTTACGAATTAATGGAACCTGACTCTAGCCAACAACCACTTCTGTGGGATCGTCTTA
TGCTAAAAAT
Found at i:9714402 original size:15 final size:14
Alignment explanation
Indices: 9714381--9714416 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
9714371 ATAACCTTTA
*
9714381 ATAATTATCTTAAT
1 ATAATTATCCTAAT
9714395 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
9714410 ATAATTA
1 ATAATTA
9714417 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:9716761 original size:24 final size:23
Alignment explanation
Indices: 9716683--9716761 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
9716673 CTCTTTCATA
* *
9716683 AGCTTCCTGATATATGGCTTTTTGG
1 AGCTTCCCGAT-TATGGCTCTTT-G
*
9716708 AGCTTCCCGA-TATTGGCTCGCTTG
1 AGCTTCCCGATTA-TGGCTC-TTTG
*
9716732 AACTTCCCGATTATGGCTCTTATG
1 AGCTTCCCGATTATGGCTCTT-TG
9716756 AGCTTC
1 AGCTTC
9716762 TCTTTATACA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
23 3 0.07
24 28 0.64
25 13 0.30
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (23 bp):
AGCTTCCCGATTATGGCTCTTTG
Found at i:9724015 original size:17 final size:17
Alignment explanation
Indices: 9723993--9724040 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
9723983 TTTTTGTATG
9723993 GTGTCATCGTTGCTGTT
1 GTGTCATCGTTGCTGTT
* *
9724010 GTGTCATCTTTGGTGTT
1 GTGTCATCGTTGCTGTT
*
9724027 GGGT-ATCGTATGCT
1 GTGTCATCGT-TGCT
9724041 CTTTTCCTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (17 bp):
GTGTCATCGTTGCTGTT
Found at i:9729727 original size:24 final size:24
Alignment explanation
Indices: 9729700--9729747 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
9729690 AGTCAACAAG
9729700 GTGGAAAAAAATTGAGAATAAAAA
1 GTGGAAAAAAATTGAGAATAAAAA
*
9729724 GTGGAAAAGAATTGAGAATAAAAA
1 GTGGAAAAAAATTGAGAATAAAAA
9729748 CAACACAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (24 bp):
GTGGAAAAAAATTGAGAATAAAAA
Found at i:9741786 original size:7 final size:7
Alignment explanation
Indices: 9741774--9741798 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9741764 ATGGCCATTT
9741774 GCAATTG
1 GCAATTG
9741781 GCAATTG
1 GCAATTG
9741788 GCAATTG
1 GCAATTG
9741795 GCAA
1 GCAA
9741799 ATGGACTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (7 bp):
GCAATTG
Found at i:9748709 original size:22 final size:22
Alignment explanation
Indices: 9748654--9748718 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
9748644 TTGCAGTAAG
*
9748654 CCACGATATTTTATTTAAGTTC
1 CCACGATATTTTATTTTAGTTC
* * *
9748676 CCA-GAGT-GTTTATTTTTGTTT
1 CCACGA-TATTTTATTTTAGTTC
9748697 CCACGATATTTTATTTTAGTTC
1 CCACGATATTTTATTTTAGTTC
9748719 TCGGGCCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (22 bp):
CCACGATATTTTATTTTAGTTC
Found at i:9752357 original size:35 final size:36
Alignment explanation
Indices: 9752305--9752374 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
9752295 ACAGAAATGC
* *
9752305 TTTTTAGTTCTTATATATATTTGTA-ATTTTATAAT
1 TTTTTAGATCTTATATATATTTATATATTTTATAAT
*
9752340 TTTTTAGATCTTTTATATATTTATATATTTTATAA
1 TTTTTAGATCTTATATATATTTATATATTTTATAA
9752375 ATCTATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 22 0.71
36 9 0.29
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (36 bp):
TTTTTAGATCTTATATATATTTATATATTTTATAAT
Found at i:9752370 original size:17 final size:17
Alignment explanation
Indices: 9752318--9752407 Score: 69
Period size: 17 Copynumber: 5.3 Consensus size: 17
9752308 TTAGTTCTTA
*
9752318 TATATATTTGTA-ATTT
1 TATATATTTATATATTT
* * *
9752334 TATAATTTTTTAGATCTTT
1 TAT-A-TATTTATATATTT
9752353 TATATATTTATATATTT
1 TATATATTTATATATTT
* *
9752370 TATAAATCTATAT-TTT
1 TATATATTTATATATTT
*
9752386 TAT-TAATTTATATATTA
1 TATAT-ATTTATATATTT
9752403 TATAT
1 TATAT
9752408 TTTTCAAAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
16 16 0.29
17 27 0.48
18 7 0.12
19 6 0.11
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TATATATTTATATATTT
Found at i:9753780 original size:16 final size:18
Alignment explanation
Indices: 9753758--9753798 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
9753748 GGAAGATAGT
9753758 TTTATTTCTAATTT-TTG
1 TTTATTTCTAATTTATTG
*
9753775 -TTATTT-TACTTTATTG
1 TTTATTTCTAATTTATTG
9753791 TTTATTTC
1 TTTATTTC
9753799 ACTAACCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 5 0.25
16 9 0.45
17 6 0.30
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTATTTCTAATTTATTG
Found at i:9758344 original size:26 final size:24
Alignment explanation
Indices: 9758296--9758346 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
9758286 TTTAAAATAC
* *
9758296 TTTTAAAATATTTTTATTTTTTAT
1 TTTTAAAATATTTTTAATGTTTAT
9758320 TTTTAAAATAATTTTTTAATGTTTAT
1 TTTTAAAAT-A-TTTTTAATGTTTAT
9758346 T
1 T
9758347 AAAAAATAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 1 0.04
26 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTAAAATATTTTTAATGTTTAT
Found at i:9768199 original size:18 final size:18
Alignment explanation
Indices: 9768158--9768200 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
9768148 AAAGTATTTT
*
9768158 AAAAATATTTTAAAATTA
1 AAAAATATTTTAAAATAA
*
9768176 ATAAATATTTTAAAATAA
1 AAAAATATTTTAAAATAA
9768194 AAAAATA
1 AAAAATA
9768201 AAAATATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATATTTTAAAATAA
Found at i:9768212 original size:28 final size:27
Alignment explanation
Indices: 9768117--9768212 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 27
9768107 AATAAACACC
9768117 AAAAATTTATTTTAAAATAAAAAAATTA
1 AAAAATTTATTTTAAAATAAAAAAA-TA
** * *
9768145 AAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTTATTTT-AAAATA---AAAAAATA
*
9768176 ATAAA--TATTTTAAAATAAAAAAATA
1 AAAAATTTATTTTAAAATAAAAAAATA
9768201 AAAATATTTATT
1 AAAA-ATTTATT
9768213 ATATTTGGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
25 9 0.17
26 1 0.02
28 21 0.40
29 12 0.23
31 6 0.11
32 4 0.08
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (27 bp):
AAAAATTTATTTTAAAATAAAAAAATA
Found at i:9772492 original size:13 final size:13
Alignment explanation
Indices: 9772462--9772505 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
9772452 TTGGGTTGAG
*
9772462 AAATTAATTTAGTT
1 AAATTAATTGA-TT
9772476 AAATTAATTGATT
1 AAATTAATTGATT
9772489 AAATTAATTGATT
1 AAATTAATTGATT
9772502 AAAT
1 AAAT
9772506 AAATAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (13 bp):
AAATTAATTGATT
Found at i:9776532 original size:31 final size:31
Alignment explanation
Indices: 9776466--9776532 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
9776456 TTTATGTATC
* * *
9776466 ATTATATTAAATTATTTAAATATCATTTATT
1 ATTATATTAAATAATTTAAATATAATTTATA
9776497 ATTATATTTAAA-AATTTAAA-ATAATTTACTA
1 ATTATA-TTAAATAATTTAAATATAATTTA-TA
9776528 ATTAT
1 ATTAT
9776533 TAAAAACTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 7 0.23
31 19 0.61
32 5 0.16
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (31 bp):
ATTATATTAAATAATTTAAATATAATTTATA
Found at i:9781158 original size:42 final size:42
Alignment explanation
Indices: 9781111--9781206 Score: 97
Period size: 42 Copynumber: 2.3 Consensus size: 42
9781101 AGAAAACGCG
* *
9781111 TCCAACTGGGCACATTTTCCCTAACATGTCAAC-AAAAATGCT
1 TCCAACTGGGC-CATTGTCCCCAACATGTCAACAAAAAATGCT
** * *
9781153 TCCAACCTGGTG-TGTTGTCCCCGACATGTCAGCAAAAAATGCT
1 TCCAA-CTGG-GCCATTGTCCCCAACATGTCAACAAAAAATGCT
9781196 TCCAACTGGGC
1 TCCAACTGGGC
9781207 GTGCTTTCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
41 1 0.02
42 24 0.55
43 18 0.41
44 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (42 bp):
TCCAACTGGGCCATTGTCCCCAACATGTCAACAAAAAATGCT
Found at i:9784429 original size:18 final size:19
Alignment explanation
Indices: 9784408--9784448 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
9784398 AAAAATAAAC
9784408 TTTTAAA-TTTATTTTT-AT
1 TTTTAAAGTTT-TTTTTAAT
9784426 TTTTAAAGTTTTTTTTAAT
1 TTTTAAAGTTTTTTTTAAT
9784445 TTTT
1 TTTT
9784449 TATGAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTAAAGTTTTTTTTAAT
Found at i:9790868 original size:16 final size:16
Alignment explanation
Indices: 9790847--9790915 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
9790837 TTAATTAATT
9790847 TTTAAAATTTAAAAAA
1 TTTAAAATTTAAAAAA
* *
9790863 TTTAAAAATTAAATAA
1 TTTAAAATTTAAAAAA
*
9790879 TTT---ATTTGAAAAA
1 TTTAAAATTTAAAAAA
*
9790892 -TTAAAATTATTAAAAA
1 TTTAAAATT-TAAAAAA
9790908 TTGTAAAA
1 TT-TAAAA
9790916 ATATTTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
12 2 0.05
13 7 0.17
15 3 0.07
16 23 0.56
17 1 0.02
18 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTAAAATTTAAAAAA
Found at i:9793470 original size:17 final size:15
Alignment explanation
Indices: 9793450--9793491 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
9793440 TATTTTATGC
*
9793450 TATTAATTATTTACTAT
1 TATT-ATTATTTA-TAA
9793467 TATTATT-TTTATAA
1 TATTATTATTTATAA
9793481 TATTATTATTT
1 TATTATTATTT
9793492 TTTCATTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 9 0.39
15 7 0.30
16 3 0.13
17 4 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTATTATTTATAA
Found at i:9805920 original size:23 final size:24
Alignment explanation
Indices: 9805841--9805914 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 24
9805831 TAATTATATT
* *
9805841 TTATGTATATTATAAATATTAAATATCA
1 TTATATATATTAAAAATA-TAAA-A--A
*
9805869 TTATATATATTAAAAATTTAAAAA
1 TTATATATATTAAAAATATAAAAA
*
9805893 TTATA-ATATTAAAACTATAAAA
1 TTATATATATTAAAAATATAAAA
9805915 CATATATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 15 0.37
24 6 0.15
26 1 0.02
27 4 0.10
28 15 0.37
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (24 bp):
TTATATATATTAAAAATATAAAAA
Found at i:9813545 original size:18 final size:17
Alignment explanation
Indices: 9813507--9813545 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
9813497 CAAAATAAAC
*
9813507 TTTTAAATTTATTTTAT
1 TTTTAAATTTATTTTAA
*
9813524 TTTTAAAGTTTTTTTTAA
1 TTTTAAA-TTTATTTTAA
9813542 TTTT
1 TTTT
9813546 TATGAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTAAATTTATTTTAA
Found at i:9825250 original size:110 final size:110
Alignment explanation
Indices: 9825018--9825242 Score: 443
Period size: 110 Copynumber: 2.1 Consensus size: 110
9825008 GTCATATTTA
9825018 TTCAAATATATTTATTATAATTGTAAATTTGTTTTTGCATTGATTGATTGATTCTGTTGACACAT
1 TTCAAATATATTTATTATAATTGTAAATTTGTTTTTGCATTGATTGATTGATTCTGTTGACACAT
9825083 TTGAAGGCAAAGGAAAATTTCTATGGTTGAAACAGTGACCATAAC
66 TTGAAGGCAAAGGAAAATTTCTATGGTTGAAACAGTGACCATAAC
9825128 TTCAAATATATTTATTATAATTGTAAATTTGTTTTTGCATTGATTGATTGATTCTGTTGACACAT
1 TTCAAATATATTTATTATAATTGTAAATTTGTTTTTGCATTGATTGATTGATTCTGTTGACACAT
9825193 TTGAAGGC-AAGGAAAATTTCTATGGTTGAAACAGTGACCATAAC
66 TTGAAGGCAAAGGAAAATTTCTATGGTTGAAACAGTGACCATAAC
9825237 TTCAAA
1 TTCAAA
9825243 CACTATTTTA
Statistics
Matches: 115, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
109 42 0.37
110 73 0.63
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (110 bp):
TTCAAATATATTTATTATAATTGTAAATTTGTTTTTGCATTGATTGATTGATTCTGTTGACACAT
TTGAAGGCAAAGGAAAATTTCTATGGTTGAAACAGTGACCATAAC
Found at i:9830186 original size:59 final size:58
Alignment explanation
Indices: 9830123--9830307 Score: 153
Period size: 59 Copynumber: 3.1 Consensus size: 58
9830113 TTTAATATTA
9830123 ATTATTTCAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAG
1 ATTATTT-AAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAG
** * * * * * * * *
9830182 ATTA-TTAATTATTAAGAATTTTATTA-AATTATATATT-TTAATTAAGATATATTTA-ATAATA
1 ATTATTTAA--ATT-A-TCTTTTA-TAGTATAATATATTATGATTTGAG-TAAATTCATATAA-G
*
9830243 ATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
1 ATTAT-TTAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAG
*
9830302 AATATT
1 ATTATT
9830308 AATTATTAAG
Statistics
Matches: 93, Mismatches: 21, Indels: 25
0.67 0.15 0.18
Matches are distributed among these distances:
57 2 0.02
58 5 0.05
59 31 0.33
60 22 0.24
61 27 0.29
62 2 0.02
63 4 0.04
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (58 bp):
ATTATTTAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAG
Found at i:9830188 original size:66 final size:64
Alignment explanation
Indices: 9830117--9830434 Score: 189
Period size: 66 Copynumber: 5.2 Consensus size: 64
9830107 AATATATTTA
9830117 ATATTAATTATTTCAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAG
1 ATATTAATTATTT-AAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAG
* * * * * * * *
9830182 ATTATTAATTATTAAGAATT-T-TATTA-A--ATTATATATT-TTAATTAAG-ATA-T-AT-TTA
1 A-TATTAATTATTTA-AATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAA
9830237 -
64 G
* *
9830237 ATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
1 ATATTAATTAT-TTAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAG
* * * *
9830302 AATATTAATTA-TT-AA-GA-GTTTTAT--TA-AAT-TA-TAT-ATTTTAATTATAA-T-ATATT
1 -ATATTAATTATTTAAATTATCTTTTATAGTATAATATATTATGA-TTTGAGTA-AATTCATA-T
*
9830355 TA-
62 AAG
* * * * * *
9830357 ATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATCAG
1 ATATTAATTAT-TTAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAG
9830422 AATATTAATTATT
1 -ATATTAATTATT
9830435 AAGAATTTTA
Statistics
Matches: 187, Mismatches: 33, Indels: 66
0.65 0.12 0.23
Matches are distributed among these distances:
54 22 0.12
55 8 0.04
56 20 0.11
57 8 0.04
58 4 0.02
59 19 0.10
60 12 0.06
61 19 0.10
62 4 0.02
63 9 0.05
64 20 0.11
65 8 0.04
66 34 0.18
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
ATATTAATTATTTAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAAG
Found at i:9830216 original size:61 final size:61
Alignment explanation
Indices: 9830151--9830458 Score: 212
Period size: 61 Copynumber: 5.1 Consensus size: 61
9830141 TTATAGTATA
9830151 ATATATTATGATTTGAGTAAATTCATATAAGATTATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGATTATTAATTATTAAGAATTTTATTAAATT
* * * * * * ** *
9830212 ATATATT-TTAATTAAGATATATTTA-ATAATAATTATGTTAA--ATT-A-TCTTTTA-TAGTAT
1 ATATATTATGATTTGAG-TAAATTCATATAA-GATTA--TTAATTATTAAGAATTTTATTA-AAT
*
9830270 C
61 T
* *
9830271 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAGTTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGATTATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
9830332 ATATATTTTAATTAT-AATATATTTA-ATAATAATTATGTTAA-T-TT-A-TATTTTA-TAGTAT
1 ATATATTATGATT-TGAGTAAATTCATATAA-GATTA--TTAATTATTAAGAATTTTATTA-AAT
*
9830390 C
61 T
* * *
9830391 ATATATTATTATTTGAGTAAATTCATATCAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGATTATTAATTATTAAGAATTTTATTAAATT
9830452 ATATATT
1 ATATATT
9830459 TTAATTAAAA
Statistics
Matches: 180, Mismatches: 43, Indels: 48
0.66 0.16 0.18
Matches are distributed among these distances:
57 8 0.04
58 6 0.03
59 56 0.31
60 31 0.17
61 65 0.36
62 6 0.03
63 8 0.04
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGATTATTAATTATTAAGAATTTTATTAAATT
Found at i:9830280 original size:120 final size:120
Alignment explanation
Indices: 9830078--9830487 Score: 705
Period size: 120 Copynumber: 3.4 Consensus size: 120
9830068 AATTATTTTA
* *
9830078 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTT
* *
9830142 TATAGTATAATATATTATGATTTGAGTAAATTCATATAAGATTATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
9830198 AATTTTATTAAATTATATATTTTAATTAAGATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
9830263 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * * *
9830318 AGTTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
* *
9830383 ATAGTATCATATATTATTATTTGAGTAAATTCATATCAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
9830438 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
9830488 ATTTAAATAT
Statistics
Matches: 275, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
120 273 0.99
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:9830358 original size:15 final size:15
Alignment explanation
Indices: 9830323--9830374 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9830313 TTAAGAGTTT
*
9830323 TATTAAATTAT-ATA
1 TATTTAATTATAATA
9830337 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
9830351 TATTTAATAATAAT-
1 TATTTAATTATAATA
9830365 TATGTTAATT
1 TAT-TTAATT
9830375 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:9830467 original size:18 final size:18
Alignment explanation
Indices: 9830439--9830489 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
9830429 ATTATTAAGA
9830439 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
9830456 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
9830472 A-TTTAATAATAATTATAT
1 ATTTTAATTA-AATTATAT
9830490 TTAAATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 5 0.17
18 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:9830717 original size:45 final size:41
Alignment explanation
Indices: 9830619--9830728 Score: 125
Period size: 45 Copynumber: 2.6 Consensus size: 41
9830609 TTTTCCATTA
9830619 TGCTATTACACCTCTATTCCATT-C-AACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACAAACCAAACACAAGAT
* * ***
9830658 TACTATTACGCCTCTATTCCATTACATTTAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACA---AACCAAACACAAGA-T
9830703 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
9830729 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 21 0.36
40 1 0.02
44 11 0.19
45 25 0.43
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (41 bp):
TGCTATTACACCTCTATTCCATTACAAACCAAACACAAGAT
Found at i:9830728 original size:16 final size:16
Alignment explanation
Indices: 9830707--9830776 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
9830697 TTGATTTGCT
*
9830707 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
9830723 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
9830739 ATTATACCTCTAATCC
1 ATTACACCTCTAATCC
* *
9830755 AATACATCTCTAATCC
1 ATTACACCTCTAATCC
*
9830771 AATACA
1 ATTACA
9830777 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:9831106 original size:43 final size:44
Alignment explanation
Indices: 9830995--9831314 Score: 217
Period size: 43 Copynumber: 7.4 Consensus size: 44
9830985 ACTTGTTTTT
* * * * *
9830995 AGAT-AAAT-TGCCATTAGGCTGTAGATGCACAGCAAGATTTGC
1 AGATAAAATCTGCCACTAGGCTGTGGATACACAACAAAATTTGC
* *
9831037 AGATAAAATCTACCACT-GGACAGTGGATACACAACAAAATTTGC
1 AGATAAAATCTGCCACTAGG-CTGTGGATACACAACAAAATTTGC
** *
9831081 AGAT-AAATCTATCACTAGGCTGTGGATACACAAC-AAATTCGC
1 AGATAAAATCTGCCACTAGGCTGTGGATACACAACAAAATTTGC
* * * *** * * *
9831123 ATATAAAATTTGCCATTAATATGTGGATACATAACAAAATTCGT
1 AGATAAAATCTGCCACTAGGCTGTGGATACACAACAAAATTTGC
* * * * * **
9831167 AGATAAAATTTTCCACTAAGCTATGGGTACACAGTAAAATTTGC
1 AGATAAAATCTGCCACTAGGCTGTGGATACACAACAAAATTTGC
* * * * * *
9831211 AGAT-AAATCTGCCACT-GATCTGTGGGTATATAGCAAAATTCGC
1 AGATAAAATCTGCCACTAG-GCTGTGGATACACAACAAAATTTGC
* * * *
9831254 AGAT-AAGTCTGCCACTGGGCTATGGATACACAACAAAATTTTGT
1 AGATAAAATCTGCCACTAGGCTGTGGATACACAACAAAA-TTTGC
9831298 AGATGAAAA-CTGCCACT
1 AGAT-AAAATCTGCCACT
9831315 TAGCTATGAG
Statistics
Matches: 216, Mismatches: 51, Indels: 19
0.76 0.18 0.07
Matches are distributed among these distances:
42 14 0.06
43 111 0.51
44 81 0.38
45 8 0.04
46 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (44 bp):
AGATAAAATCTGCCACTAGGCTGTGGATACACAACAAAATTTGC
Found at i:9831565 original size:38 final size:38
Alignment explanation
Indices: 9831451--9831554 Score: 163
Period size: 38 Copynumber: 2.7 Consensus size: 38
9831441 GTATAGCATA
* * * *
9831451 TACTCAATTTAGCACTAACAGTAGAAATGTTTAACATG
1 TACTCAATTCATCATTAACAGTAGACATGTTTAACATG
9831489 TACTCAATTCATCATTAACAGTAGACATGTTTAACATG
1 TACTCAATTCATCATTAACAGTAGACATGTTTAACATG
*
9831527 TACTCAGTTCATCATTAACAGTAGACAT
1 TACTCAATTCATCATTAACAGTAGACAT
9831555 ACTTATCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (38 bp):
TACTCAATTCATCATTAACAGTAGACATGTTTAACATG
Found at i:9832209 original size:21 final size:19
Alignment explanation
Indices: 9832177--9832222 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
9832167 GATTGATGTC
9832177 AAGATTGACAAGATTTGCAA
1 AAGATTGACAAGA-TTGCAA
*
9832197 AAGAGTTGTCAAGATTGCAA
1 AAGA-TTGACAAGATTGCAA
9832217 ATAGAT
1 A-AGAT
9832223 CAATTGAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (19 bp):
AAGATTGACAAGATTGCAA
Found at i:9837242 original size:9 final size:8
Alignment explanation
Indices: 9837228--9837270 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
9837218 AAATTTTTTA
9837228 TTTAAATT
1 TTTAAATT
9837236 CTTTAAAATT
1 -TTT-AAATT
9837246 TTTAAAATT
1 TTT-AAATT
*
9837255 TTTAAAAT
1 TTTAAATT
9837263 TTTAAATT
1 TTTAAATT
9837271 AGTAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 11 0.35
9 15 0.48
10 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTAAATT
Found at i:9837251 original size:18 final size:16
Alignment explanation
Indices: 9837228--9837270 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 16
9837218 AAATTTTTTA
9837228 TTTAAATTCTTTAAAATT
1 TTTAAATT-TTTAAAA-T
9837246 TTTAAAATTTTTAAAAT
1 TTT-AAATTTTTAAAAT
9837263 TTTAAATT
1 TTTAAATT
9837271 AGTAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.21
17 4 0.17
18 10 0.42
19 5 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAAATTTTTAAAAT
Found at i:9837268 original size:8 final size:9
Alignment explanation
Indices: 9837231--9837265 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
9837221 TTTTTTATTT
9837231 AAATTCTTTA
1 AAATT-TTTA
9837241 AAATTTTTA
1 AAATTTTTA
9837250 AAATTTTTA
1 AAATTTTTA
9837259 AAATTTT
1 AAATTTT
9837266 AAATTAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (9 bp):
AAATTTTTA
Found at i:9838958 original size:125 final size:124
Alignment explanation
Indices: 9838587--9838962 Score: 529
Period size: 126 Copynumber: 3.0 Consensus size: 124
9838577 GAATTTTTTG
*
9838587 GGTCCTGAAAAAATTATTTCGAGTTGAAGTTTCTGAGCAAATAGTATAAAATCGCTTCTA-CTAG
1 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC-AG
* ** *
9838651 GATGCTTTATGAGAAGAATTTGTGAAATCGTACCCACGTGGACGTGGTTTTGCTACAGTA
65 GATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGGTTTTGCTACAGTA
* * *
9838711 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCAAGCA
1 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAG--TATAAAATCGCTTCTAGCA
** * * * * * *
9838776 GGATGCGATCTGAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGGGGTTTCGCTACAGTT
64 GGATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGGTTTTGCTACAGTA
* *
9838837 GGTCCTGAAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTTTAGCAG
1 GGTCCTGAAA-AAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
* *
9838902 GATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGCTTTTACTACAGTA
65 GATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGGTTTTGCTACAGTA
9838962 G
1 G
9838963 CATGTTTGGG
Statistics
Matches: 219, Mismatches: 29, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
124 43 0.20
125 67 0.31
126 75 0.34
127 34 0.16
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (124 bp):
GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGG
ATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGGTTTTGCTACAGTA
Found at i:9841327 original size:15 final size:15
Alignment explanation
Indices: 9841304--9841334 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9841294 TCAAATTATA
9841304 TTTAAGTTAAGGGTT
1 TTTAAGTTAAGGGTT
*
9841319 TTTAGGTTAAGGGTT
1 TTTAAGTTAAGGGTT
9841334 T
1 T
9841335 AGGGTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (15 bp):
TTTAAGTTAAGGGTT
Found at i:9841338 original size:7 final size:7
Alignment explanation
Indices: 9841319--9841780 Score: 114
Period size: 7 Copynumber: 65.4 Consensus size: 7
9841309 GTTAAGGGTT
9841319 TTTA-GG
1 TTTAGGG
*
9841325 TTAAGGG
1 TTTAGGG
9841332 TTTAGGG
1 TTTAGGG
9841339 TTTTTA-GG
1 --TTTAGGG
*
9841347 TTGAGGG
1 TTTAGGG
9841354 -TTAGGG
1 TTTAGGG
9841360 TTTTTA-GG
1 --TTTAGGG
*
9841368 TTAAGGG
1 TTTAGGG
*
9841375 TTTAAGGTT
1 TTT-AGG-G
9841384 TTTA-GG
1 TTTAGGG
9841390 TTTAGGG
1 TTTAGGG
*
9841397 -TTAAGG
1 TTTAGGG
* *
9841403 TTAAGGTT
1 TTTAGG-G
*
9841411 TTTA-TG
1 TTTAGGG
*
9841417 TTGAGGG
1 TTTAGGG
9841424 -TTAGGG
1 TTTAGGG
9841430 TTTTTA-GG
1 --TTTAGGG
* *
9841438 TTAAAGG
1 TTTAGGG
9841445 TTTAGGG
1 TTTAGGG
9841452 TTTTTA-GG
1 --TTTAGGG
*
9841460 TTAAGGG
1 TTTAGGG
9841467 -TTAGGG
1 TTTAGGG
9841473 TTTTTA-GG
1 --TTTAGGG
*
9841481 TTTATGG
1 TTTAGGG
*
9841488 TTTATGG
1 TTTAGGG
9841495 TTTAGGG
1 TTTAGGG
9841502 TTTAGGG
1 TTTAGGG
9841509 -TTAGGG
1 TTTAGGG
9841515 TTTTA-GG
1 -TTTAGGG
*
9841522 TTGAGGG
1 TTTAGGG
9841529 -TTAGGG
1 TTTAGGG
9841535 TTTTTA-GG
1 --TTTAGGG
*
9841543 TTAAGGG
1 TTTAGGG
***
9841550 TTTCTAATT
1 -TT-TAGGG
9841559 TTTA-GG
1 TTTAGGG
*
9841565 TTAAGGG
1 TTTAGGG
*
9841572 TTTAGAG
1 TTTAGGG
*
9841579 TTTTGAGG
1 TTTAG-GG
*
9841587 TTAAGGG
1 TTTAGGG
*
9841594 -TTAGTGCT
1 TTTAG-G-G
9841602 TTTA-GG
1 TTTAGGG
* *
9841608 TTAAGAG
1 TTTAGGG
9841615 TTTAGGG
1 TTTAGGG
9841622 TTTTA-GG
1 -TTTAGGG
*
9841629 TTAAGGG
1 TTTAGGG
* *
9841636 TTAAGGTT
1 TTTAGG-G
9841644 TTTA-GG
1 TTTAGGG
9841650 TTTAGGG
1 TTTAGGG
9841657 TTTAGGG
1 TTTAGGG
9841664 TTTTA-GG
1 -TTTAGGG
* *
9841671 TTAAGAG
1 TTTAGGG
9841678 -TTAGGG
1 TTTAGGG
9841684 TTTAGGG
1 TTTAGGG
9841691 TTTAGGG
1 TTTAGGG
**
9841698 TTTAAGATT
1 TTT-AG-GG
9841707 TTTA-GG
1 TTTAGGG
*
9841713 TTTAAGGT
1 TTT-AGGG
9841721 TTTAGGG
1 TTTAGGG
9841728 TTTTTA-GG
1 --TTTAGGG
*
9841736 TTAAGGG
1 TTTAGGG
*
9841743 TTTAAGGTT
1 TTT-AGG-G
*
9841752 TTTA-AG
1 TTTAGGG
*
9841758 TTTGGGG
1 TTTAGGG
9841765 TTTAGGG
1 TTTAGGG
9841772 -TTAGGG
1 TTTAGGG
9841778 TTT
1 TTT
9841781 TTACCTTAAG
Statistics
Matches: 329, Mismatches: 69, Indels: 115
0.64 0.13 0.22
Matches are distributed among these distances:
6 101 0.31
7 137 0.42
8 54 0.16
9 37 0.11
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:9841339 original size:22 final size:22
Alignment explanation
Indices: 9841313--9841773 Score: 416
Period size: 22 Copynumber: 21.3 Consensus size: 22
9841303 ATTTAAGTTA
9841313 AGGGTTTTTAGGTTAAGGGTTT
1 AGGGTTTTTAGGTTAAGGGTTT
*
9841335 AGGGTTTTTAGGTTGAGGG-TT
1 AGGGTTTTTAGGTTAAGGGTTT
9841356 AGGGTTTTTAGGTTAAGGGTTT
1 AGGGTTTTTAGGTTAAGGGTTT
* *
9841378 AAGGTTTTTAGGTTTAGGG-TT
1 AGGGTTTTTAGGTTAAGGGTTT
* * * *
9841399 AAGG--TTAAGGTTTTTATGTTGAGGGTT
1 AGGGTTTTTAGG---TTA---AG-GGTTT
*
9841426 AGGGTTTTTAGGTTAAAGGTTT
1 AGGGTTTTTAGGTTAAGGGTTT
9841448 AGGGTTTTTAGGTTAAGGG-TT
1 AGGGTTTTTAGGTTAAGGGTTT
* *
9841469 AGGGTTTTTAGGTTTATGGTTT
1 AGGGTTTTTAGGTTAAGGGTTT
* *
9841491 ATGG--TTTAGGGTTTAGGG-TT
1 AGGGTTTTTA-GGTTAAGGGTTT
*
9841511 AGGG-TTTTAGGTTGAGGG-TT
1 AGGGTTTTTAGGTTAAGGGTTT
9841531 AGGGTTTTTAGGTTAAGGGTTT
1 AGGGTTTTTAGGTTAAGGGTTT
****
9841553 CTAATTTTTAGGTTAAGGGTTT
1 AGGGTTTTTAGGTTAAGGGTTT
* *
9841575 AGAGTTTTGAGGTTAAGGG-TT
1 AGGGTTTTTAGGTTAAGGGTTT
* * *
9841596 AGTGCTTTTAGGTTAAGAGTTT
1 AGGGTTTTTAGGTTAAGGGTTT
9841618 AGGG-TTTTAGGTTAAGGG-TT
1 AGGGTTTTTAGGTTAAGGGTTT
* *
9841638 AAGGTTTTTAGGTTTAGGGTTT
1 AGGGTTTTTAGGTTAAGGGTTT
*
9841660 AGGG-TTTTAGGTTAAGAG-TT
1 AGGGTTTTTAGGTTAAGGGTTT
*
9841680 AGGG--TTTAGGGTTTAGGGTTT
1 AGGGTTTTTA-GGTTAAGGGTTT
* * *
9841701 AAGATTTTTAGGTTTAAGGTTTT
1 AGGGTTTTTAGG-TTAAGGGTTT
9841724 AGGGTTTTTAGGTTAAGGGTTT
1 AGGGTTTTTAGGTTAAGGGTTT
* * **
9841746 AAGGTTTTTAAGTTTGGGGTTT
1 AGGGTTTTTAGGTTAAGGGTTT
9841768 AGGGTT
1 AGGGTT
9841774 AGGGTTTTTA
Statistics
Matches: 362, Mismatches: 53, Indels: 48
0.78 0.11 0.10
Matches are distributed among these distances:
19 9 0.02
20 41 0.11
21 129 0.36
22 145 0.40
23 22 0.06
25 1 0.00
26 5 0.01
27 5 0.01
29 5 0.01
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (22 bp):
AGGGTTTTTAGGTTAAGGGTTT
Found at i:9841412 original size:27 final size:27
Alignment explanation
Indices: 9841362--9841431 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
9841352 GGTTAGGGTT
9841362 TTTA-GGTTAAGGGTTTAAGGTTTTTAGG
1 TTTAGGGTTAA-GG-TTAAGGTTTTTAGG
*
9841390 TTTAGGGTTAAGGTTAAGGTTTTTATG
1 TTTAGGGTTAAGGTTAAGGTTTTTAGG
* *
9841417 TTGAGGGTTAGGGTT
1 TTTAGGGTTAAGGTT
9841432 TTTAGGTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 26 0.68
28 6 0.16
29 6 0.16
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (27 bp):
TTTAGGGTTAAGGTTAAGGTTTTTAGG
Found at i:9841425 original size:70 final size:70
Alignment explanation
Indices: 9841319--9841474 Score: 233
Period size: 70 Copynumber: 2.2 Consensus size: 70
9841309 GTTAAGGGTT
* *
9841319 TTTA-GGTTAAGGGTTTAGGGTTTTTAGGTTGAGGGTTAGGGTTTTTAGGTTAAGGGTTTAAGGT
1 TTTAGGGTTAA-GG-TTAAGGTTTTTAGGTTGAGGGTTAGGGTTTTTAGGTTAAAGGTTTAAGGT
9841383 TTTTAGG
64 TTTTAGG
* *
9841390 TTTAGGGTTAAGGTTAAGGTTTTTATGTTGAGGGTTAGGGTTTTTAGGTTAAAGGTTTAGGGTTT
1 TTTAGGGTTAAGGTTAAGGTTTTTAGGTTGAGGGTTAGGGTTTTTAGGTTAAAGGTTTAAGGTTT
9841455 TTAGG
66 TTAGG
* *
9841460 TTAAGGGTTAGGGTT
1 TTTAGGGTTAAGGTT
9841475 TTTAGGTTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
70 66 0.85
71 6 0.08
72 6 0.08
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (70 bp):
TTTAGGGTTAAGGTTAAGGTTTTTAGGTTGAGGGTTAGGGTTTTTAGGTTAAAGGTTTAAGGTTT
TTAGG
Found at i:9841699 original size:27 final size:28
Alignment explanation
Indices: 9841651--9841753 Score: 88
Period size: 30 Copynumber: 3.6 Consensus size: 28
9841641 GTTTTTAGGT
9841651 TTAGGGTTTAGGGTTTTAGG-TTAAGAG
1 TTAGGGTTTAGGGTTTTAGGTTTAAGAG
*
9841678 TTAGGGTTTAGGG-TTTAGGGTTTAAGATTT
1 TTAGGGTTTAGGGTTTTA-GGTTTAAGA--G
* *
9841708 TTA-GGTTTAAGGTTTTAGGGTTTTTAG-G
1 TTAGGGTTTAGGGTTTTA-GG-TTTAAGAG
*
9841736 TTAAGGGTTTAAGGTTTT
1 TT-AGGGTTTAGGGTTTT
9841754 TAAGTTTGGG
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
26 4 0.06
27 15 0.23
28 8 0.12
29 9 0.14
30 23 0.36
31 5 0.08
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (28 bp):
TTAGGGTTTAGGGTTTTAGGTTTAAGAG
Found at i:9841712 original size:23 final size:22
Alignment explanation
Indices: 9841310--9841773 Score: 304
Period size: 21 Copynumber: 21.4 Consensus size: 22
9841300 TATATTTAAG
*
9841310 TTAAGGGTTTTTAGGTTAAGGGT
1 TTAA-GGTTTTTAGGTTTAGGGT
* *
9841333 TTAGGGTTTTTAGGTTGAGGG-
1 TTAAGGTTTTTAGGTTTAGGGT
* *
9841354 TTAGGGTTTTTAGGTTAAGGGT
1 TTAAGGTTTTTAGGTTTAGGGT
9841376 TTAAGGTTTTTAGGTTTAGGG-
1 TTAAGGTTTTTAGGTTTAGGGT
* *
9841397 TTAAGG--TTAAGGTTTTTATGTTGAGGG
1 TTAAGGTTTTTAGG--TTTA----G-GGT
* * *
9841424 TTAGGGTTTTTAGGTTAAAGGT
1 TTAAGGTTTTTAGGTTTAGGGT
* *
9841446 TTAGGGTTTTTAGGTTAAGGG-
1 TTAAGGTTTTTAGGTTTAGGGT
* *
9841467 TTAGGGTTTTTAGGTTTATGGT
1 TTAAGGTTTTTAGGTTTAGGGT
*
9841489 TTATGG--TTTAGGGTTTAGGG-
1 TTAAGGTTTTTA-GGTTTAGGGT
* *
9841509 TT-AGGGTTTTAGGTTGAGGG-
1 TTAAGGTTTTTAGGTTTAGGGT
* *
9841529 TTAGGGTTTTTAGGTTAAGGGTT
1 TTAAGGTTTTTAGGTTTAGGG-T
*
9841552 TCTAA--TTTTTAGGTTAAGGGT
1 T-TAAGGTTTTTAGGTTTAGGGT
* *
9841573 TT-AGAGTTTTGAGGTTAAGGG-
1 TTAAG-GTTTTTAGGTTTAGGGT
* * *
9841594 TT-AGTGCTTTTAGGTTAAGAGT
1 TTAAG-GTTTTTAGGTTTAGGGT
* *
9841616 TT-AGGGTTTTAGGTTAAGGG-
1 TTAAGGTTTTTAGGTTTAGGGT
9841636 TTAAGGTTTTTAGGTTTAGGGT
1 TTAAGGTTTTTAGGTTTAGGGT
* * *
9841658 TT-AGGGTTTTAGGTTAAGAG-
1 TTAAGGTTTTTAGGTTTAGGGT
*
9841678 TT-AGG-GTTTAGGGTTTAGGGT
1 TTAAGGTTTTTA-GGTTTAGGGT
* *
9841699 TTAAGATTTTTAGGTTTAAGGTT
1 TTAAGGTTTTTAGGTTT-AGGGT
* *
9841722 TTAGGGTTTTTAGGTTAAGGGT
1 TTAAGGTTTTTAGGTTTAGGGT
* *
9841744 TTAAGGTTTTTAAGTTTGGGGT
1 TTAAGGTTTTTAGGTTTAGGGT
*
9841766 TTAGGGTT
1 TTAAGGTT
9841774 AGGGTTTTTA
Statistics
Matches: 362, Mismatches: 49, Indels: 61
0.77 0.10 0.13
Matches are distributed among these distances:
19 12 0.03
20 31 0.09
21 142 0.39
22 133 0.37
23 26 0.07
24 2 0.01
25 1 0.00
26 2 0.01
27 8 0.02
29 5 0.01
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (22 bp):
TTAAGGTTTTTAGGTTTAGGGT
Found at i:9841814 original size:22 final size:22
Alignment explanation
Indices: 9841764--9841819 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
9841754 TAAGTTTGGG
*
9841764 GTTTAGGG-TTAGGGTTTTTAC
1 GTTTAGGGTTTAGGGTTTTTAA
* * *
9841785 CTTAAGGGTTTATGGTTTTTAA
1 GTTTAGGGTTTAGGGTTTTTAA
9841807 GTTTAGGGTTTAG
1 GTTTAGGGTTTAG
9841820 TAGTTTTAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.18, C:0.04, G:0.30, T:0.48
Consensus pattern (22 bp):
GTTTAGGGTTTAGGGTTTTTAA
Found at i:9842444 original size:18 final size:18
Alignment explanation
Indices: 9842421--9842460 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9842411 GACTCGGAAA
* *
9842421 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
9842439 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
9842457 AGGA
1 AGGA
9842461 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:9844377 original size:22 final size:23
Alignment explanation
Indices: 9844352--9844394 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
9844342 GAGATTAAAT
*
9844352 ATGAATTTGAGA-GAAATTTGGA
1 ATGAAATTGAGAGGAAATTTGGA
9844374 ATGAAATTGAGAGGAAATTTG
1 ATGAAATTGAGAGGAAATTTG
9844395 AGAGAGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (23 bp):
ATGAAATTGAGAGGAAATTTGGA
Found at i:9845958 original size:58 final size:59
Alignment explanation
Indices: 9845874--9845996 Score: 187
Period size: 58 Copynumber: 2.1 Consensus size: 59
9845864 TTAGGCCCCC
* *
9845874 CACACGGTCTTGTCTTCCCTGCAGGTTGATTTTGCAA-TTTTCACACGGTCAAAGTCTCT
1 CACACGGTCCTGTCTTCCCTGCAGGTTGATTTTGCAATTTTTC-CACGGCCAAAGTCTCT
* *
9845933 CACACGG-CCTGTCTTCCCTGTAGGTTGATTTTGCAATTTTTCCACGGCCACAGTCTCT
1 CACACGGTCCTGTCTTCCCTGCAGGTTGATTTTGCAATTTTTCCACGGCCAAAGTCTCT
9845991 CACACG
1 CACACG
9845997 ACCTAGCCAC
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
58 47 0.80
59 12 0.20
ACGTcount: A:0.18, C:0.30, G:0.19, T:0.33
Consensus pattern (59 bp):
CACACGGTCCTGTCTTCCCTGCAGGTTGATTTTGCAATTTTTCCACGGCCAAAGTCTCT
Found at i:9850430 original size:44 final size:44
Alignment explanation
Indices: 9850319--9850443 Score: 126
Period size: 44 Copynumber: 2.8 Consensus size: 44
9850309 GATTATCGAA
* * * *
9850319 TTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTC
1 TTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGCTTC
* * * * *
9850363 TTCAGTCTACCCCACTGTGACTTCAGGGTGATAAGACTTG-TTT
1 TTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGCTTC
* * *
9850406 TCTCAGTCTGCTCCGCTGTAACTTCAAGGAGGTAAGAC
1 T-TCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGAC
9850444 CCGATGTGAT
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 3 0.05
44 61 0.95
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (44 bp):
TTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGCTTC
Found at i:9850754 original size:85 final size:86
Alignment explanation
Indices: 9850536--9850832 Score: 452
Period size: 85 Copynumber: 3.5 Consensus size: 86
9850526 ACTTGTAATC
* * * * *
9850536 TTCGATCTGCTTCACTGTCGACGCAGGAGGGCAAGATCTGCTATCTTCAACCAGCTCCACTGTAA
1 TTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAA
9850601 CCGATGGAGGCAAGGCTTTGTT
65 CCGATGGAGGCAAGGCTTTGTT
* * * * *
9850623 TTCGATCTGCTCCGCTGTTAATACAGGGAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
1 TTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
9850688 CGATGGAGGCAAGGCTTT-TT
66 CGATGGAGGCAAGGCTTTGTT
* * *
9850708 TTCGATTTGCTTCACTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCTACTGCAAC
1 TTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
9850773 CGATGGAGGCAAGGCTTTGTT
66 CGATGGAGGCAAGGCTTTGTT
*
9850794 TTCGATCTACTTCACTGTCAATGCAGGAAGGCAAGATCT
1 TTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCT
9850833 ACTATCTTCA
Statistics
Matches: 190, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
85 79 0.42
86 77 0.41
87 34 0.18
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.29
Consensus pattern (86 bp):
TTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAAC
CGATGGAGGCAAGGCTTTGTT
Found at i:9852507 original size:21 final size:19
Alignment explanation
Indices: 9852476--9852524 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
9852466 TCATGTTTTA
9852476 TTTTGACTTTGATTGATTTCTC
1 TTTTG-CTTTGATT--TTTCTC
9852498 TTTTGCTTTGATTTTTCTC
1 TTTTGCTTTGATTTTTCTC
9852517 TTTT-CTTT
1 TTTTGCTTT
9852525 CTTTGTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.15
19 10 0.37
21 8 0.30
22 5 0.19
ACGTcount: A:0.08, C:0.14, G:0.10, T:0.67
Consensus pattern (19 bp):
TTTTGCTTTGATTTTTCTC
Found at i:9852549 original size:6 final size:6
Alignment explanation
Indices: 9852526--9852568 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
9852516 CTTTTCTTTC
*
9852526 TTTG-T TTT-AT TTTGAT TTTAAT TTTGAT TTTGAT TTTGAT TTT
1 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTT
9852569 TTTTTGAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
5 7 0.21
6 27 0.79
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (6 bp):
TTTGAT
Found at i:9852551 original size:12 final size:11
Alignment explanation
Indices: 9852526--9852575 Score: 66
Period size: 12 Copynumber: 4.5 Consensus size: 11
9852516 CTTTTCTTTC
9852526 TTTG-TTTTAT
1 TTTGATTTTAT
9852536 TTTGATTTTAAT
1 TTTGATTTT-AT
9852548 TTTGATTTTGAT
1 TTTGATTTT-AT
*
9852560 TTTGATTTTTT
1 TTTGATTTTAT
9852571 TTTGA
1 TTTGA
9852576 ATCTGAACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
10 4 0.11
11 10 0.28
12 22 0.61
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (11 bp):
TTTGATTTTAT
Found at i:9852555 original size:18 final size:17
Alignment explanation
Indices: 9852530--9852575 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
9852520 TCTTTCTTTG
9852530 TTTTATTTTGATTTTAA
1 TTTTATTTTGATTTTAA
*
9852547 TTTTGATTTTGATTTTGA
1 TTTT-ATTTTGATTTTAA
*
9852565 TTTTTTTTTGA
1 TTTTATTTTGA
9852576 ATCTGAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.72
Consensus pattern (17 bp):
TTTTATTTTGATTTTAA
Found at i:9857625 original size:16 final size:16
Alignment explanation
Indices: 9857588--9857630 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
9857578 ATACACGGGA
*
9857588 AATTTT-AAATAAATT
1 AATTTTAAAATAAACT
*
9857603 AA-ATTAAAATAAACT
1 AATTTTAAAATAAACT
9857618 AATTTTAAAATAA
1 AATTTTAAAATAA
9857631 CATATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTTTAAAATAAACT
Found at i:9864845 original size:22 final size:24
Alignment explanation
Indices: 9864820--9864863 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
9864810 ATTATTTTTT
*
9864820 AGAA-TTTATTTTTA-AATTTTAA
1 AGAATTTTATTTTCATAATTTTAA
9864842 AGAATTTTATTTTCATAATTTT
1 AGAATTTTATTTTCATAATTTT
9864864 TTTATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 9 0.47
24 6 0.32
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (24 bp):
AGAATTTTATTTTCATAATTTTAA
Found at i:9864875 original size:15 final size:16
Alignment explanation
Indices: 9864846--9864881 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 16
9864836 TTTTAAAGAA
9864846 TTTTATTTTCATAATTT
1 TTTTATTTT-ATAATTT
9864863 TTTTATTTT-TAATTT
1 TTTTATTTTATAATTT
9864878 TTTT
1 TTTT
9864882 TTTACTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
17 9 0.47
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATAATTT
Found at i:9864890 original size:19 final size:19
Alignment explanation
Indices: 9864860--9864910 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
9864850 ATTTTCATAA
9864860 TTTTTTTA-TTTTTAATT-T
1 TTTTTTTACTTTTT-ATTCT
9864878 TTTTTTTACTTTTTATTCT
1 TTTTTTTACTTTTTATTCT
**
9864897 TTTTGATACTTTTT
1 TTTTTTTACTTTTT
9864911 TGGGTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 11 0.38
19 18 0.62
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTTTACTTTTTATTCT
Found at i:9864891 original size:12 final size:13
Alignment explanation
Indices: 9864862--9864894 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9864852 TTTCATAATT
9864862 TTTTTATTTTTAA
1 TTTTTATTTTTAA
*
9864875 TTTTT-TTTTTAC
1 TTTTTATTTTTAA
9864887 TTTTTATT
1 TTTTTATT
9864895 CTTTTTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTATTTTTAA
Found at i:9864899 original size:18 final size:19
Alignment explanation
Indices: 9864860--9864910 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
9864850 ATTTTCATAA
*
9864860 TTTTTTTA-TTTTTAATTT
1 TTTTTTTACTTTTTAATTC
9864878 TTTTTTTACTTTTT-ATTC
1 TTTTTTTACTTTTTAATTC
*
9864896 TTTTTGATACTTTTT
1 TTTTT-TTACTTTTT
9864911 TGGGTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTTTACTTTTTAATTC
Found at i:9865056 original size:30 final size:30
Alignment explanation
Indices: 9865020--9865080 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
9865010 AATTATTTTT
*
9865020 TAAAAAAACTTG-CCAGTCGATTAATTTGTA
1 TAAAAAAACTTGTCC-GTCAATTAATTTGTA
* *
9865050 TAAAAAACCTTGTCCGTTAATTAATTTGTA
1 TAAAAAAACTTGTCCGTCAATTAATTTGTA
9865080 T
1 T
9865081 GCTCGTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (30 bp):
TAAAAAAACTTGTCCGTCAATTAATTTGTA
Found at i:9865453 original size:14 final size:14
Alignment explanation
Indices: 9865434--9865460 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9865424 AAATAAAATT
9865434 ACAAAATTATATAA
1 ACAAAATTATATAA
9865448 ACAAAATTATATA
1 ACAAAATTATATA
9865461 TATACTTGTT
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:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAAATTATATAA
Found at i:9865527 original size:10 final size:10
Alignment explanation
Indices: 9865512--9865619 Score: 77
Period size: 10 Copynumber: 11.5 Consensus size: 10
9865502 AATATGATAA
9865512 AAAAATTATT
1 AAAAATTATT
9865522 AAAAA-TA-T
1 AAAAATTATT
* *
9865530 AAAAAATAAT
1 AAAAATTATT
*
9865540 AAAAATGATT
1 AAAAATTATT
*
9865550 AGAAATTA-T
1 AAAAATTATT
*
9865559 -AAAA-TATA
1 AAAAATTATT
9865567 AAAAATTATT
1 AAAAATTATT
*
9865577 ATAAATTATT
1 AAAAATTATT
* * *
9865587 ATAAATTGTA
1 AAAAATTATT
*
9865597 AAAAACTATT
1 AAAAATTATT
9865607 -AAAATT-TT
1 AAAAATTATT
9865615 AAAAA
1 AAAAA
9865620 ATAGTCAAAT
Statistics
Matches: 76, Mismatches: 16, Indels: 13
0.72 0.15 0.12
Matches are distributed among these distances:
7 2 0.03
8 11 0.14
9 18 0.24
10 45 0.59
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATTATT
Found at i:9865562 original size:27 final size:27
Alignment explanation
Indices: 9865508--9865585 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
9865498 TTCAAATATG
*
9865508 ATAA-AAAAATTATTAAAAATATAAAAA
1 ATAATAAAAATTATTAAAAAT-TATAAA
* *
9865535 ATAATAAAAATGATTAGAAATTATAAA
1 ATAATAAAAATTATTAAAAATTATAAA
*
9865562 AT-ATAAAAAATTATTATAAATTAT
1 ATAAT-AAAAATTATTAAAAATTAT
9865586 TATAAATTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
26 2 0.05
27 28 0.64
28 14 0.32
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (27 bp):
ATAATAAAAATTATTAAAAATTATAAA
Found at i:9865571 original size:37 final size:36
Alignment explanation
Indices: 9865519--9865599 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 36
9865509 TAAAAAAATT
9865519 ATTA-AAAATATAAAAAATAATAAAAATGATTAGAA
1 ATTATAAAATATAAAAAATAATAAAAATGATTAGAA
* * * *
9865554 ATTATAAAATATAAAAAATTATTATAAATTATTATAA
1 ATTATAAAATATAAAAAA-TAATAAAAATGATTAGAA
*
9865591 ATTGTAAAA
1 ATTATAAAA
9865600 AACTATTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 4 0.10
36 13 0.33
37 22 0.56
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (36 bp):
ATTATAAAATATAAAAAATAATAAAAATGATTAGAA
Found at i:9865593 original size:20 final size:20
Alignment explanation
Indices: 9865511--9865581 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 20
9865501 AAATATGATA
9865511 AAAAAATTATTA-AAAATAT
1 AAAAAATTATTATAAAATAT
*
9865530 AAAAAA-TAATA-AAAATGAT
1 AAAAAATTATTATAAAAT-AT
* *
9865549 -TAGAA--ATTATAAAATAT
1 AAAAAATTATTATAAAATAT
9865566 AAAAAATTATTATAAA
1 AAAAAATTATTATAAA
9865582 TTATTATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
17 5 0.12
18 20 0.49
19 8 0.20
20 8 0.20
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (20 bp):
AAAAAATTATTATAAAATAT
Done.