Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 274 of 378
Found at i:82403739 original size:40 final size:40
Alignment explanation
Indices: 82403684--82403847 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
82403674 TGAATGATAC
* * *
82403684 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
82403724 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
82403764 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
82403804 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
82403844 CCGG
1 CCGG
82403848 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:82403817 original size:80 final size:80
Alignment explanation
Indices: 82403684--82403861 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
82403674 TGAATGATAC
* * * * * *
82403684 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
82403748 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
82403764 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
82403829 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
82403844 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
82403862 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:82407390 original size:29 final size:29
Alignment explanation
Indices: 82407348--82407404 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
82407338 CACCAGTGTT
82407348 GTTTGTGAAAAAGAAGGACGGAACCATGA
1 GTTTGTGAAAAAGAAGGACGGAACCATGA
**
82407377 GTTTGTGGTAAAGAAGGACGGAACCATG
1 GTTTGTGAAAAAGAAGGACGGAACCATG
82407405 GGTTCTGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.37, C:0.11, G:0.33, T:0.19
Consensus pattern (29 bp):
GTTTGTGAAAAAGAAGGACGGAACCATGA
Found at i:82411887 original size:40 final size:40
Alignment explanation
Indices: 82411832--82411995 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
82411822 TGAATGATAC
* * *
82411832 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
82411872 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
82411912 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
82411952 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
82411992 CCGG
1 CCGG
82411996 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:82411965 original size:80 final size:80
Alignment explanation
Indices: 82411832--82412009 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
82411822 TGAATGATAC
* * * * * *
82411832 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
82411896 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
82411912 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
82411977 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
82411992 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
82412010 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:82422215 original size:40 final size:40
Alignment explanation
Indices: 82422157--82422233 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
82422147 ACATACCATG
82422157 TGGGGATAAAATCAACCCAGCCAGCCCTACACACCAAATA
1 TGGGGATAAAATCAACCCAGCCAGCCCTACACACCAAATA
* *
82422197 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAA
1 TGGGGATAAAATCAACCCAGCCAGCCCTACACACCAA
82422234 GTGGTATTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.34, G:0.16, T:0.13
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCAGCCAGCCCTACACACCAAATA
Found at i:82432295 original size:30 final size:30
Alignment explanation
Indices: 82432261--82432322 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
82432251 TTAACCGAAT
82432261 ATACATAAACTCATATACATATATTCATGG
1 ATACATAAACTCATATACATATATTCATGG
82432291 ATACATAAACTCATATACATATATTCATGG
1 ATACATAAACTCATATACATATATTCATGG
82432321 AT
1 AT
82432323 CATTTCATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (30 bp):
ATACATAAACTCATATACATATATTCATGG
Found at i:82432296 original size:16 final size:16
Alignment explanation
Indices: 82432275--82432322 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
82432265 ATAAACTCAT
82432275 ATACATATATTCATGG
1 ATACATATATTCATGG
* *
82432291 ATACATAAACTCAT--
1 ATACATATATTCATGG
82432305 ATACATATATTCATGG
1 ATACATATATTCATGG
82432321 AT
1 AT
82432323 CATTTCATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.46
16 14 0.54
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (16 bp):
ATACATATATTCATGG
Found at i:82432318 original size:14 final size:14
Alignment explanation
Indices: 82432259--82432311 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
82432249 ATTTAACCGA
82432259 ATATACATAAACTC
1 ATATACATAAACTC
* *
82432273 ATATACATATATTC
1 ATATACATAAACTC
82432287 ATGGATACATAAACTC
1 AT--ATACATAAACTC
82432303 ATATACATA
1 ATATACATA
82432312 TATTCATGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 21 0.64
16 12 0.36
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (14 bp):
ATATACATAAACTC
Found at i:82432460 original size:18 final size:19
Alignment explanation
Indices: 82432437--82432474 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
82432427 CAGAACGTAC
82432437 TTTTCATATACA-CATATA
1 TTTTCATATACATCATATA
*
82432455 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
82432474 T
1 T
82432475 AATTTGCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTCATATACATCATATA
Found at i:82432745 original size:41 final size:42
Alignment explanation
Indices: 82432663--82432757 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 42
82432653 TCCCAGACGT
* *
82432663 GGTCTTACATGTAATCACATATCGATGCCACTGTCTCAGACAA
1 GGTCTTACACG-AATCAAATATCGATGCCACTGTCTCAGACAA
* *
82432706 GGTCTTGCACGAATCAAATA-CGATGCCGA-TGT-TCTAGACAT
1 GGTCTTACACGAATCAAATATCGATGCC-ACTGTCTC-AGACAA
82432747 GGTCTTACACG
1 GGTCTTACACG
82432758 TAAACACGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 2 0.04
41 25 0.56
42 9 0.20
43 9 0.20
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGAATCAAATATCGATGCCACTGTCTCAGACAA
Found at i:82433278 original size:17 final size:18
Alignment explanation
Indices: 82433246--82433282 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
82433236 CGTACATGAG
*
82433246 AGAAACAAAAACAAAGAA
1 AGAAACAAAAAAAAAGAA
82433264 AGAAA-AAAAAAAAAGAA
1 AGAAACAAAAAAAAAGAA
82433281 AG
1 AG
82433283 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (18 bp):
AGAAACAAAAAAAAAGAA
Found at i:82433290 original size:17 final size:18
Alignment explanation
Indices: 82433246--82433282 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
82433236 CGTACATGAG
*
82433246 AGAAACAAAAACAAAGAA
1 AGAAAAAAAAACAAAGAA
82433264 AGAAAAAAAAA-AAAGAA
1 AGAAAAAAAAACAAAGAA
82433281 AG
1 AG
82433283 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAACAAAGAA
Found at i:82434580 original size:40 final size:40
Alignment explanation
Indices: 82434521--82434627 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
82434511 CAATTGAATG
* * * *
82434521 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
82434561 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
82434601 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
82434628 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:82434647 original size:40 final size:39
Alignment explanation
Indices: 82434562--82434688 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
82434552 CTGGAAATTA
* * *
82434562 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
82434600 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
82434642 TATCCGGGCTAAGACCCGAGGGCATTCGTGCACGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
82434682 TATCCGG
1 TATCCGG
82434689 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:82441315 original size:19 final size:19
Alignment explanation
Indices: 82441287--82441323 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
82441277 TGAGAGAAAC
82441287 AAAAACAAAGAAAGAAAAA
1 AAAAACAAAGAAAGAAAAA
* *
82441306 AAAAAGAAAGGAAGAAAA
1 AAAAACAAAGAAAGAAAA
82441324 GTGTTCATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAACAAAGAAAGAAAAA
Found at i:82442611 original size:40 final size:40
Alignment explanation
Indices: 82442552--82442658 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
82442542 CAATTGAATG
* * * *
82442552 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
82442592 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
82442632 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
82442659 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:82442678 original size:40 final size:40
Alignment explanation
Indices: 82442593--82442719 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
82442583 CTGGAAATTA
* * *
82442593 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-CG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCGTTC
82442631 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
* * * *
82442673 TATCCGGGCTAAGACCCGAGGGCATTCGTGCACGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
82442713 TATCCGG
1 TATCCGG
82442720 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 69 0.90
41 2 0.03
42 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
Found at i:82450988 original size:141 final size:141
Alignment explanation
Indices: 82450734--82451016 Score: 548
Period size: 141 Copynumber: 2.0 Consensus size: 141
82450724 TTTATAAGTG
82450734 AACTATCAAATCTATGGCATGTATAAGCTATCTTTGGAGTTGGTTTATTTTGAAAAGTGTATGTA
1 AACTATCAAATCTATGGCATGTATAAGCTATCTTTGGAGTTGGTTTATTTTGAAAAGTGTATGTA
*
82450799 TAAAGGCCATGCGAAAATGGCTTAACTTCCACGCTTAAATTCGGTTTGTTAGACTATGACTTAAG
66 TAAAGGCCATGCAAAAATGGCTTAACTTCCACGCTTAAATTCGGTTTGTTAGACTATGACTTAAG
82450864 TTCTTTTGGTT
131 TTCTTTTGGTT
*
82450875 AACTATCAAATCTATGGCATGTATAAGCTATCTTTGGAGTTGGTTTATTTTGAAAAGTGTATGTC
1 AACTATCAAATCTATGGCATGTATAAGCTATCTTTGGAGTTGGTTTATTTTGAAAAGTGTATGTA
82450940 TAAAGGCCATGCAAAAATGGCTTAACTTCCACGCTTAAATTCGGTTTGTTAGACTATGACTTAAG
66 TAAAGGCCATGCAAAAATGGCTTAACTTCCACGCTTAAATTCGGTTTGTTAGACTATGACTTAAG
82451005 TTCTTTTGGTT
131 TTCTTTTGGTT
82451016 A
1 A
82451017 TTATGCAATG
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 140 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (141 bp):
AACTATCAAATCTATGGCATGTATAAGCTATCTTTGGAGTTGGTTTATTTTGAAAAGTGTATGTA
TAAAGGCCATGCAAAAATGGCTTAACTTCCACGCTTAAATTCGGTTTGTTAGACTATGACTTAAG
TTCTTTTGGTT
Found at i:82452943 original size:43 final size:43
Alignment explanation
Indices: 82452810--82452944 Score: 155
Period size: 43 Copynumber: 3.1 Consensus size: 43
82452800 AGATGCCACA
* * * *
82452810 AAAAATCATGACTTTTAGCGGCATTTGTGGGGAAAGTGCCGCT
1 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGTGCCGCT
* * * * *
82452853 AAAAGTCACGGCTTTTAGCGGCGTTT-TCTGGAGAAGCGCCGCA
1 AAAAGTCATGGCTTTTAGCGGCGTTTGT-GGGAAAAGTGCCGCT
* *
82452896 AAAAGTCATGGCTTTTAGCGACGTTTGTGGGAAAAGTGCCTCT
1 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGTGCCGCT
82452939 AAAAGT
1 AAAAGT
82452945 TACGACTTTT
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 1 0.01
43 72 0.97
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (43 bp):
AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGTGCCGCT
Found at i:82453124 original size:33 final size:31
Alignment explanation
Indices: 82453033--82453124 Score: 103
Period size: 31 Copynumber: 2.9 Consensus size: 31
82453023 AACCCTTCCT
* *
82453033 GCATTAAATCCAACCAAAAATAGCAAATATA
1 GCATAAAATCCAACCAAAAATAGTAAATATA
* * *
82453064 GCATGAAATCCAACCAAAAACAGTAAATGTA
1 GCATAAAATCCAACCAAAAATAGTAAATATA
* *
82453095 GCATAAAAAATACAACCAAAAATATTAAAT
1 GCAT--AAAATCCAACCAAAAATAGTAAAT
82453125 CTAAAATGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 31 0.61
33 20 0.39
ACGTcount: A:0.57, C:0.17, G:0.08, T:0.18
Consensus pattern (31 bp):
GCATAAAATCCAACCAAAAATAGTAAATATA
Found at i:82453845 original size:13 final size:14
Alignment explanation
Indices: 82453819--82453847 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
82453809 ACCAATAGCG
82453819 AATTAAACCATTAT
1 AATTAAACCATTAT
82453833 AATTAAA-CATTAT
1 AATTAAACCATTAT
82453846 AA
1 AA
82453848 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:82458935 original size:9 final size:9
Alignment explanation
Indices: 82458921--82459053 Score: 94
Period size: 9 Copynumber: 15.0 Consensus size: 9
82458911 TATGTATTAC
*
82458921 GTAAGTTAA
1 GTAAGTTAT
*
82458930 GTAAGTTTT
1 GTAAGTTAT
82458939 GTAAGTTAT
1 GTAAGTTAT
82458948 GTAAGTTAT
1 GTAAGTTAT
* *
82458957 GCTATGATAT
1 G-TAAGTTAT
* *
82458967 -AAATTTAT
1 GTAAGTTAT
*
82458975 GTAAGGTAT
1 GTAAGTTAT
*
82458984 GTAAGGTAT
1 GTAAGTTAT
82458993 GTAAGTTAT
1 GTAAGTTAT
*
82459002 GTAAATTAT
1 GTAAGTTAT
* **
82459011 GATATGAAAT
1 G-TAAGTTAT
* *
82459021 AT-ATTTAT
1 GTAAGTTAT
82459029 GT-A-TTAT
1 GTAAGTTAT
82459036 GTAAGTTAT
1 GTAAGTTAT
82459045 GTAAGTTAT
1 GTAAGTTAT
82459054 TATATGATAT
Statistics
Matches: 95, Mismatches: 24, Indels: 10
0.74 0.19 0.08
Matches are distributed among these distances:
7 6 0.06
8 9 0.09
9 70 0.74
10 10 0.11
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.44
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:82458974 original size:27 final size:26
Alignment explanation
Indices: 82458944--82459097 Score: 85
Period size: 27 Copynumber: 6.1 Consensus size: 26
82458934 GTTTTGTAAG
82458944 TTATGTAAGTTATGCTATGATATAAAT
1 TTATGTAAGTTATG-TATGATATAAAT
* * * * *
82458971 TTATGTAAGGTATGTAAGGTATGTAAG
1 TTATGTAAGTTATGTATGATAT-AAAT
82458998 TTATGTAA---AT-TATGATATGAAAT
1 TTATGTAAGTTATGTATGATAT-AAAT
* * * *
82459021 ATATTTATG-TAT-TATG-T---AAG
1 TTATGTAAGTTATGTATGATATAAAT
* *
82459041 TTATGTAAGTTATTATATGATATATAT
1 TTATGTAAGTTA-TGTATGATATAAAT
*
82459068 TTATGTAAGTTATTGTATGATATATAT
1 TTATGTAAGTTA-TGTATGATATAAAT
82459095 TTA
1 TTA
82459098 ACATTAAGGT
Statistics
Matches: 98, Mismatches: 19, Indels: 20
0.72 0.14 0.15
Matches are distributed among these distances:
20 8 0.08
21 2 0.02
22 1 0.01
23 18 0.18
24 4 0.04
25 6 0.06
26 6 0.06
27 53 0.54
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (26 bp):
TTATGTAAGTTATGTATGATATAAAT
Found at i:82458988 original size:54 final size:54
Alignment explanation
Indices: 82458921--82459053 Score: 180
Period size: 54 Copynumber: 2.5 Consensus size: 54
82458911 TATGTATTAC
* * * * *
82458921 GTAAGTTAAGTAAGTTTTGTAAGTTATGTAAGTTATGCTATGATATAAATTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAATTATGATATGAAATAAATTTAT
* * *
82458975 GTAAGGTATGTAAGGTATGTAAGTTATGTAAATTATGATATGAAATATATTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATGTAAATTATGATATGAAATAAATTTAT
82459029 GT-A-TTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTAAGTTAT
82459054 TATATGATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
52 20 0.29
53 1 0.01
54 48 0.70
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.44
Consensus pattern (54 bp):
GTAAGTTATGTAAGTTATGTAAGTTATGTAAATTATGATATGAAATAAATTTAT
Found at i:82459047 original size:43 final size:43
Alignment explanation
Indices: 82458990--82459074 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
82458980 GTATGTAAGG
82458990 TATGTAAGTTATGTAAATTATGATATGAAATATATTTATGTAT
1 TATGTAAGTTATGTAAATTATGATATGAAATATATTTATGTAT
* * *
82459033 TATGTAAGTTATGTAAGTTATTATATGATATATATTTATGTA
1 TATGTAAGTTATGTAAATTATGATATGAAATATATTTATGTA
82459075 AGTTATTGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (43 bp):
TATGTAAGTTATGTAAATTATGATATGAAATATATTTATGTAT
Found at i:82459105 original size:29 final size:27
Alignment explanation
Indices: 82459041--82459097 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
82459031 ATTATGTAAG
82459041 TTATGTAAGTTATTATATGATATATAT
1 TTATGTAAGTTATTATATGATATATAT
*
82459068 TTATGTAAGTTATTGTATGATATATAT
1 TTATGTAAGTTATTATATGATATATAT
82459095 TTA
1 TTA
82459098 ACATTAAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (27 bp):
TTATGTAAGTTATTATATGATATATAT
Found at i:82461962 original size:40 final size:40
Alignment explanation
Indices: 82461877--82462027 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
82461867 AATTGAATGA
* * *
82461877 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
82461917 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
82461958 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
82461997 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
82462028 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:82462041 original size:40 final size:40
Alignment explanation
Indices: 82461913--82462043 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
82461903 TATGCTGGAA
* * *
82461913 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
82461953 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
82461993 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
82462033 ATTATATCCGG
1 ATTATATCCGG
82462044 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:82472908 original size:7 final size:7
Alignment explanation
Indices: 82472876--82472984 Score: 62
Period size: 7 Copynumber: 15.7 Consensus size: 7
82472866 TACCTAATAT
82472876 CCTAAAC
1 CCTAAAC
*
82472883 CCAAAAC
1 CCTAAAC
* *
82472890 CCTAGAG
1 CCTAAAC
*
82472897 ACTAAAC
1 CCTAAAC
82472904 CCTAAAC
1 CCTAAAC
82472911 CCTATAA-
1 CCTA-AAC
*
82472918 ACTAAAC
1 CCTAAAC
*
82472925 CGTAAAC
1 CCTAAAC
82472932 CC-AACAC
1 CCTAA-AC
82472939 CCTAAAC
1 CCTAAAC
* *
82472946 CTTAAAA
1 CCTAAAC
*
82472953 CTTAAA-
1 CCTAAAC
*
82472959 CCTAAAT
1 CCTAAAC
**
82472966 TTTAAAC
1 CCTAAAC
82472973 CCTAAAC
1 CCTAAAC
*
82472980 ACTAA
1 CCTAA
82472985 TTCCATGAAC
Statistics
Matches: 76, Mismatches: 21, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
6 9 0.12
7 63 0.83
8 4 0.05
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.18
Consensus pattern (7 bp):
CCTAAAC
Found at i:82472930 original size:21 final size:21
Alignment explanation
Indices: 82472877--82472933 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
82472867 ACCTAATATC
* *
82472877 CTAAACCCAAAACCCTAGAGA
1 CTAAACCCTAAACCCTAGAAA
*
82472898 CTAAACCCTAAACCCTATAAA
1 CTAAACCCTAAACCCTAGAAA
*
82472919 CTAAACCGTAAACCC
1 CTAAACCCTAAACCC
82472934 AACACCCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.46, C:0.35, G:0.05, T:0.14
Consensus pattern (21 bp):
CTAAACCCTAAACCCTAGAAA
Found at i:82473787 original size:41 final size:40
Alignment explanation
Indices: 82473740--82473927 Score: 136
Period size: 41 Copynumber: 4.7 Consensus size: 40
82473730 CAACTTCTTA
*
82473740 TGGCGTTTGGATAAAAAACGCCGCTATAGATCAACTTTTT-G
1 TGGCGTTTGGATAAAAAACGCCGCTAT-GATC-AGTTTTTAG
* * * *
82473781 TAGCGTTTGTA-ACAAAAATGCCGCTAT-TTCTTAGTTTTTAG
1 TGGCGTTTGGATA-AAAAACGCCGCTATGATC--AGTTTTTAG
** *
82473822 TGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAG
1 TGGCGTTTGGATAAAAAACGCCGCTA-TGATCAGTTTTTAG
* * *
82473863 TGGCGATTTGAAT-AAAAACGCCGCTATTACTCATTTTTTA-
1 TGGCG-TTTGGATAAAAAACGCCGCTATGA-TCAGTTTTTAG
* * *
82473903 TGGCGTTT-TATTACAAACGCCGCTA
1 TGGCGTTTGGATAAAAAACGCCGCTA
82473928 ATGCATAATC
Statistics
Matches: 120, Mismatches: 18, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
38 2 0.02
39 17 0.14
40 13 0.11
41 80 0.67
42 6 0.05
43 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (40 bp):
TGGCGTTTGGATAAAAAACGCCGCTATGATCAGTTTTTAG
Found at i:82473842 original size:82 final size:81
Alignment explanation
Indices: 82473737--82473910 Score: 208
Period size: 82 Copynumber: 2.1 Consensus size: 81
82473727 GTTCAACTTC
* *
82473737 TTATGGCGTTTGGATAAAAAACGCCGCTATAGATCAACTTTTT-GTAGCG-TTTGTAACAAAAAT
1 TTATGGCGTTTGGACAAAAAACGCCGCTATAGATC-ACTTTTTAGTAGCGATTTG-AACAAAAAC
* *
82473800 GCCGCTATTTCTTAGTTT
64 GCCGCTATTACTCAGTTT
* * * * * *
82473818 TTAGTGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAGTGGCGATTTGAATAAAAACG
1 TTA-TGGCGTTTGGACAAAAAACGCCGCTATAGATCACTTTTTAGTAGCGATTTGAACAAAAACG
*
82473883 CCGCTATTACTCATTTT
65 CCGCTATTACTCAGTTT
82473900 TTATGGCGTTT
1 TTATGGCGTTT
82473911 TATTACAAAC
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
81 17 0.22
82 58 0.73
83 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (81 bp):
TTATGGCGTTTGGACAAAAAACGCCGCTATAGATCACTTTTTAGTAGCGATTTGAACAAAAACGC
CGCTATTACTCAGTTT
Found at i:82479059 original size:41 final size:43
Alignment explanation
Indices: 82478980--82479103 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 43
82478970 TCCCAGACGT
* *
82478980 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGATAG
1 GGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGATAG
* * *
82479023 GGTCTTACACG-AATCAAATA-CGATGTCGA-TGTCCCAGACAT
1 GGTCTTACACGTAATCAAATATCGATG-CCACTGTCCCAGATAG
* * *
82479064 GGTATTATACGTAATCACATATATTGATGCCAAC-GTCCCA
1 GGTCTTACACGTAATCA-A-ATATCGATGCC-ACTGTCCCA
82479104 AACGTGGTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
41 24 0.37
42 15 0.23
43 11 0.17
44 4 0.06
45 11 0.17
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGATAG
Found at i:82482304 original size:48 final size:46
Alignment explanation
Indices: 82482142--82482308 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 46
82482132 TGATATGTGT
* *
82482142 GCTAGTGTAAGACATGTCTGGGACATGCATC-G-ATC-ACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA--A-GAAA
* * * *
82482188 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAAGAAA
* * *
82482234 GCTAGTCTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA-AGA-AA
* *
82482282 GCTAGTGTAAGACCTGTTTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
82482309 GCGTCAGCTT
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
46 71 0.70
47 2 0.02
48 27 0.26
49 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAAGAAA
Found at i:82494275 original size:28 final size:28
Alignment explanation
Indices: 82494243--82494341 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
82494233 ACAATAAGCC
*
82494243 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
82494271 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
82494299 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
82494328 CGCACACTTAGTGC
1 CGCACACTTAGTGC
82494342 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:82501954 original size:28 final size:28
Alignment explanation
Indices: 82501922--82502020 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
82501912 GCAATAAGCC
*
82501922 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
82501950 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
82501978 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
82502007 CGCACACTTAGTGC
1 CGCACACTTAGTGC
82502021 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:82505221 original size:22 final size:21
Alignment explanation
Indices: 82505171--82505221 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
82505161 TTGTTTTTTG
* *
82505171 AAAATTCATTAAAACTCAATA
1 AAAATTTAATAAAACTCAATA
*
82505192 AATATTTAATAAAACTTCAA-A
1 AAAATTTAATAAAAC-TCAATA
82505213 AAAAGTTTA
1 AAAA-TTTA
82505222 GAAACCTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATTTAATAAAACTCAATA
Found at i:82514841 original size:2 final size:2
Alignment explanation
Indices: 82514792--82514825 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
82514782 TTGTGAATTG
*
82514792 TA TA AA TA TCA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA T
82514826 GAAATTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:82514869 original size:17 final size:17
Alignment explanation
Indices: 82514847--82514882 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
82514837 TATATCTGAC
*
82514847 AATGCCCGATCAATAAT
1 AATGCCCGATAAATAAT
82514864 AATGCCCGATAAATAAT
1 AATGCCCGATAAATAAT
82514881 AA
1 AA
82514883 ATGATAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.22
Consensus pattern (17 bp):
AATGCCCGATAAATAAT
Found at i:82524087 original size:16 final size:16
Alignment explanation
Indices: 82524066--82524097 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
82524056 GTTTTGAAGG
82524066 AAAAACTTTTATAGCC
1 AAAAACTTTTATAGCC
82524082 AAAAACTTTTATAGCC
1 AAAAACTTTTATAGCC
82524098 CGGTTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAAACTTTTATAGCC
Found at i:82530172 original size:14 final size:14
Alignment explanation
Indices: 82530153--82530208 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
82530143 TTTACTTTAT
*
82530153 TCTTTCTTTTTTTC
1 TCTTTCTCTTTTTC
82530167 TCTTTCT-TCTTTTC
1 TCTTTCTCT-TTTTC
82530181 T-TTT-TCTTTTT-
1 TCTTTCTCTTTTTC
82530192 TCTTTCTCTTTTTC
1 TCTTTCTCTTTTTC
82530206 TCT
1 TCT
82530209 AGACTTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.03
12 8 0.22
13 12 0.32
14 16 0.43
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTCTCTTTTTC
Found at i:82530176 original size:21 final size:20
Alignment explanation
Indices: 82530147--82530208 Score: 83
Period size: 19 Copynumber: 3.1 Consensus size: 20
82530137 TTATATTTTA
*
82530147 CTTTATTCTTTCTTTTTTTCT
1 CTTT-TTCTTTCTCTTTTTCT
82530168 CTTTCTTCTTT-TCTTTTTCT
1 CTTT-TTCTTTCTCTTTTTCT
82530188 -TTTTTCTTTCTCTTTTTCT
1 CTTTTTCTTTCTCTTTTTCT
82530207 CT
1 CT
82530209 AGACTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.16
19 12 0.32
20 9 0.24
21 10 0.27
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.76
Consensus pattern (20 bp):
CTTTTTCTTTCTCTTTTTCT
Found at i:82530204 original size:25 final size:26
Alignment explanation
Indices: 82530147--82530206 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
82530137 TTATATTTTA
82530147 CTTTATTCTTTCTTTTTTTCTCTTTCT
1 CTTT-TTCTTTCTTTTTTTCTCTTTCT
82530174 -TCTTTTCTTT-TTCTTTTT-TCTTTCT
1 CT-TTTTCTTTCTT-TTTTTCTCTTTCT
82530199 CTTTTTCT
1 CTTTTTCT
82530207 CTAGACTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
25 15 0.50
26 13 0.43
27 2 0.07
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (26 bp):
CTTTTTCTTTCTTTTTTTCTCTTTCT
Found at i:82530221 original size:41 final size:39
Alignment explanation
Indices: 82530142--82530223 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
82530132 AACCATTATA
* ** *
82530142 TTTTACTTTATTCTTTCTTTTTTTCTCTTTCTTCTTTTC
1 TTTTACTTTATTCTTTCTCTTTTTCTCTGACTTATTTTC
* *
82530181 TTTTTCTTTTTTCTTTCTCTTTTTCTCTAGACTTTATTTTC
1 TTTTACTTTATTCTTTCTCTTTTTCTCT-GAC-TTATTTTC
82530222 TT
1 TT
82530224 CCTCTTCTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 25 0.71
40 1 0.03
41 9 0.26
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.73
Consensus pattern (39 bp):
TTTTACTTTATTCTTTCTCTTTTTCTCTGACTTATTTTC
Found at i:82533296 original size:10 final size:9
Alignment explanation
Indices: 82533251--82533301 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
82533241 TCTCAGCTCC
82533251 TTATTTATA
1 TTATTTATA
82533260 TGT-TTTATAA
1 T-TATTTAT-A
*
82533270 TTTTTTATA
1 TTATTTATA
*
82533279 ATATTTATA
1 TTATTTATA
82533288 TTATGTTATA
1 TTAT-TTATA
82533298 TTAT
1 TTAT
82533302 AATTTTGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
9 18 0.51
10 17 0.49
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (9 bp):
TTATTTATA
Found at i:82538700 original size:18 final size:19
Alignment explanation
Indices: 82538677--82538728 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
82538667 TTTTGGAGAG
82538677 TCACACGCCCGTGTGG-TC
1 TCACACGCCCGTGTGGCTC
*
82538695 TCACACACCCGTGTGGCTC
1 TCACACGCCCGTGTGGCTC
*
82538714 TGGACACGCCCGTGT
1 T-CACACGCCCGTGT
82538729 CCTCAGCCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 15 0.52
19 3 0.10
20 11 0.38
ACGTcount: A:0.13, C:0.38, G:0.27, T:0.21
Consensus pattern (19 bp):
TCACACGCCCGTGTGGCTC
Found at i:82543008 original size:40 final size:39
Alignment explanation
Indices: 82542963--82543072 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 39
82542953 CTGGAAATTA
* *
82542963 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT--CATAC
*
82543004 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCATAC
82543043 TATCCGGGCTAAGACCCGAAGGCATTGTGC
1 TATCCGGGCTAAGACCCGAAGGCATTGTGC
82543073 ACGTGTTATA
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
38 1 0.02
39 9 0.14
40 53 0.84
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCATAC
Found at i:82552511 original size:40 final size:40
Alignment explanation
Indices: 82552426--82552513 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
82552416 GGGCTATGCT
* * *
82552426 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATG
* * *
82552466 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATG
82552506 ATATCCGG
1 ATATCCGG
82552514 TTAAGTCCCG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATG
Found at i:82554252 original size:124 final size:124
Alignment explanation
Indices: 82554030--82554254 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
82554020 GAATTATGTG
* * * ** * * *
82554030 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
82554095 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
82554154 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
82554219 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
82554255 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:82554376 original size:40 final size:40
Alignment explanation
Indices: 82554249--82554378 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
82554239 ATGCTGGAAA
* *
82554249 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
82554289 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
82554329 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
82554369 TTATATCCGG
1 TTATATCCGG
82554379 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:82554377 original size:80 final size:80
Alignment explanation
Indices: 82554211--82554378 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
82554201 CAATTGAATG
* * *
82554211 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
82554276 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
82554291 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
82554355 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
82554371 ATATCCGG
1 ATATCCGG
82554379 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:82565733 original size:39 final size:39
Alignment explanation
Indices: 82565649--82565801 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
82565639 TATGGTAACC
** * *
82565649 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
82565689 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
82565728 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
82565767 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
82565802 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:82565775 original size:78 final size:79
Alignment explanation
Indices: 82565618--82565800 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
82565608 TCGTTCAAAC
* * **
82565618 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
82565683 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
82565698 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
82565762 CAATTTGCACAATT
66 CAATTTGCACAATT
82565776 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
82565801 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:82573798 original size:38 final size:39
Alignment explanation
Indices: 82573685--82573827 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
82573675 CCGCACAAAG
*
82573685 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
82573725 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
82573764 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
82573802 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
82573828 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:82573806 original size:77 final size:79
Alignment explanation
Indices: 82573645--82573826 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
82573635 TCGTTCAAAC
* * **
82573645 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
82573710 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
82573725 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
82573788 CAATTTGCACAATT
66 CAATTTGCACAATT
82573802 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
82573827 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:82575601 original size:42 final size:41
Alignment explanation
Indices: 82575470--82575605 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 41
82575460 ACACACATAG
* * *
82575470 TGCATCATCAGATAAACCGAAACAATCATACTGGCATGCAAA
1 TGCATCATCAGATATACC-AAACAATTATACTGGCATGTAAA
* * * * *** *
82575512 GTGCATCATCAGATGTACTAAAAAAAATATACAAACATGTAAT
1 -TGCATCATCAGATATAC-CAAACAATTATACTGGCATGTAAA
* *
82575555 TGCATCATCAAATATACCAAAGCAATTATACTGGCACGTAAA
1 TGCATCATCAGATATACCAAA-CAATTATACTGGCATGTAAA
82575597 TGCATCATC
1 TGCATCATC
82575606 GGCTGAACTG
Statistics
Matches: 70, Mismatches: 21, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
41 3 0.04
42 37 0.53
43 30 0.43
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (41 bp):
TGCATCATCAGATATACCAAACAATTATACTGGCATGTAAA
Found at i:82577419 original size:28 final size:28
Alignment explanation
Indices: 82577379--82577436 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
82577369 TATAGAACTT
82577379 ACAATTCTGCAAATACCCAGATTATAAA
1 ACAATTCTGCAAATACCCAGATTATAAA
82577407 ACAATTCTGCAAATACCCAGATTATAAA
1 ACAATTCTGCAAATACCCAGATTATAAA
82577435 AC
1 AC
82577437 TCAAAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.24
Consensus pattern (28 bp):
ACAATTCTGCAAATACCCAGATTATAAA
Found at i:82580224 original size:7 final size:7
Alignment explanation
Indices: 82580212--82580245 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
82580202 AATCTGAGTA
82580212 TAACATT
1 TAACATT
82580219 TAACATT
1 TAACATT
82580226 TAACATT
1 TAACATT
82580233 TAACATT
1 TAACATT
82580240 TAACAT
1 TAACAT
82580246 GTTTTGTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TAACATT
Found at i:82581007 original size:32 final size:32
Alignment explanation
Indices: 82580966--82581093 Score: 229
Period size: 32 Copynumber: 4.0 Consensus size: 32
82580956 TATAACTATA
82580966 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
82580998 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
82581030 CAACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
82581062 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
82581094 ATTTTTATGT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 90 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:82587122 original size:20 final size:21
Alignment explanation
Indices: 82587079--82587124 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
82587069 ACTATTTTGT
82587079 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
82587099 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
82587118 TATGGGC
1 TATGGGC
82587125 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:82587191 original size:60 final size:59
Alignment explanation
Indices: 82587117--82587252 Score: 157
Period size: 60 Copynumber: 2.3 Consensus size: 59
82587107 AACTGTGTTA
* * * *
82587117 ATATGGGCAAGGCCCAATATATCTCA-ACTTGTAATAAGGCTATGGCCAAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACCTCATAC-TGTAA-AAGGCTATGGCCAAGATTAATAATG
* * ** *
82587177 ATATGGGCTAGGCCCAGTATACCTGATACTGTAAGGGGCTATGGCCCAGATTAATAATG
1 ATATGGGCTAGGCCCAATATACCTCATACTGTAAAAGGCTATGGCCAAGATTAATAATG
82587236 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
82587253 GTTAACTCTG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 29 0.45
60 34 0.52
61 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACCTCATACTGTAAAAGGCTATGGCCAAGATTAATAATG
Found at i:82587245 original size:28 final size:28
Alignment explanation
Indices: 82587154--82587257 Score: 88
Period size: 28 Copynumber: 3.6 Consensus size: 28
82587144 CTTGTAATAA
* *
82587154 GGCTATGGCCAAGATTGATACTGATATG
1 GGCTATGGCCCAGATTAATACTGATATG
* *
82587182 GGCTA-GGCCCAGTATACCTGATACTG-TAAGG
1 GGCTATGGCCCAG-AT---TAATACTGAT-ATG
*
82587213 GGCTATGGCCCAGATTAATAATGATATG
1 GGCTATGGCCCAGATTAATACTGATATG
*
82587241 GGCTAAGGCCCAG-TTAA
1 GGCTATGGCCCAGATTAA
82587258 CTCTGATTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
27 10 0.16
28 27 0.43
29 1 0.02
30 1 0.02
31 17 0.27
32 7 0.11
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (28 bp):
GGCTATGGCCCAGATTAATACTGATATG
Found at i:82589269 original size:21 final size:21
Alignment explanation
Indices: 82589245--82589297 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
82589235 CATTGTTTCT
*
82589245 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
82589266 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
*
82589287 AATCTTACCGC
1 AATCTCACCGC
82589298 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:82590029 original size:44 final size:44
Alignment explanation
Indices: 82589966--82590053 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
82589956 GACCTAATTG
82589966 AACTCACAAATTTAATGGCTAAAAGCTTACGGTTTTTGGAGTTT
1 AACTCACAAATTTAATGGCTAAAAGCTTACGGTTTTTGGAGTTT
82590010 AACTCACAAATTTAATGGCTAAAAGCTTACGGTTTTTGGAGTTT
1 AACTCACAAATTTAATGGCTAAAAGCTTACGGTTTTTGGAGTTT
82590054 TCCCGTAGGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (44 bp):
AACTCACAAATTTAATGGCTAAAAGCTTACGGTTTTTGGAGTTT
Found at i:82592115 original size:245 final size:244
Alignment explanation
Indices: 82591557--82592689 Score: 1007
Period size: 245 Copynumber: 4.7 Consensus size: 244
82591547 CTCTAAATCT
* * *
82591557 CTATATTTTTCCTACATTTGAAAGTTTGCTCTCCTACTATATTATATAAT-GTTATATCATATCA
1 CTATACTTTTCGTACATTTGAAAGTTAGCTCTCCTACTATATTATATAATAG-TATATCATAT-A
* * **
82591621 TATAGTATAAAATATATTAATAGTTTATATATATGCATATGCATTAATGATTAAATGTTATAATA
64 TATAGTATATAATATATTAATAG-TT-TATATA-G--TATGCATCAATGATTAAACATTATAATA
*
82591686 TCATGTAATA-TA-ATACCTTTTATGT-TATTCTATAATATAATAGTAGTT-CATCAT-ATA-TA
124 TCATGTAATACTATATA--TTTTAT-TATAATCTATAATATAATA-TAGTTACA-CATAATAGTA
* * * *
82591745 TTA-ATTAT-TA-TAC-TATATTATTGTTTATTATTATACCAGTTG-AATATGCTCTATGCC
184 GTACATTATATATTACATATA-TATTATTTATTATTATACTAGTTGAAATATGCTCTAAGCC
* * *
82591802 CTTATACTTTTCGTATATTTGAAAATTAG-TCT--TACTATATTATATAATATTATATCATATCA
1 C-TATACTTTTCGTACATTTGAAAGTTAGCTCTCCTACTATATTATATAATAGTATATCATAT-A
* *
82591864 TATAGTATATAATATATTAATAGTTTATATAGT-TGCATCAATTATTAAGCGA-TATAATATCAT
64 TATAGTATATAATATATTAATAGTTTATATAGTATGCATCAATGATTAAAC-ATTATAATATCAT
*
82591927 GTAATACTATATATTTTATTATAATATATAATATAATGATAGTTACACATAATAGTAGTACATTA
128 GTAATACTATATATTTTATTATAATCTATAATATAAT-ATAGTTACACATAATAGTAGTACATTA
* *
82591992 TATATTACATAT-TATTATTTATTATTATACTGGATGAAATATGC-CTTAAGTCC
192 TATATTACATATATATTATTTATTATTATACTAGTTGAAATATGCTC-TAAG-CC
* * *
82592045 CTATACTTTTCGTACATTTGAAAGTTATCTCTCCTATTATATTATATAATGGTATATCATATAGT
1 CTATACTTTTCGTACATTTGAAAGTTAGCTCTCCTACTATATTATATAATAGTATATCATATA-T
* * * *
82592110 ATAGTATATAAAATATTAATAGTTTATACA-TATGCATAAATGATTAAACATTATAATATCATAT
65 ATAGTATATAATATATTAATAGTTTATATAGTATGCATCAATGATTAAACATTATAATATCATGT
* * * *
82592174 AATATTATATTTTTTATTATAATCTATAATATAATGATAGTTATATATAATAGTAGTACATTATA
130 AATACTATATATTTTATTATAATCTATAATATAAT-ATAGTTACACATAATAGTAGTACATTATA
*
82592239 TACTACATATTATTATATATTATTGTTTATTATTATACTAGTTGAAATATGCTCTAAGCC
194 TA-T---TA-CA-TATATATTA---TTTATTATTATACTAGTTGAAATATGCTCTAAGCC
* * **
82592299 CTATACTTTTCGTTCATTTGAAA-TTAGC-CTCTTACTATATCGTATAAT-G----T--TATAT-
1 CTATACTTTTCGTACATTTGAAAGTTAGCTCTCCTACTATATTATATAATAGTATATCATATATA
* * * * *
82592354 TA-TAT-CAA-ATATTAATAGTTTGTATA-TATGCATCTACGATTAAACATTATAATATCATATA
66 TAGTATATAATATATTAATAGTTTATATAGTATGCATCAATGATTAAACATTATAATATCATGTA
* * * * * * *
82592415 ATACTATATCTTTTATTATAATCTATATTACAATAATAGTTATATATAATAGGAGTACATTAGAT
131 ATACTATATATTTTATTATAATCTATAATATAAT-ATAGTTACACATAATAGTAGTACATTATAT
* * * *
82592480 ATT--AT-TGT-TTA-TTATTA--A-ACTAGTTGAAATATTCTTTAAGTCT
195 ATTACATATATATTATTTATTATTATACTAGTTGAAATATGCTCTAAG-CC
* * * * * *
82592523 CTATAATTTTTGTACATTTAAAAGTTAGCCCTCCTGCTATATTATATAATA--ATAT-AT-CATA
1 CTATACTTTTCGTACATTTGAAAGTTAGCTCTCCTACTATATTATATAATAGTATATCATATATA
* * ** *
82592584 TCGTATA-AA-ATATTAATAGTGTGTATATATATATG--TTGATGATTAAACATTATAATATTAT
66 TAGTATATAATATATTAATAGT-T-TATATA-GTATGCATCAATGATTAAACATTATAATATCAT
* *
82592645 GTAATACTATATCTTTTATTATAATCTATATTATAATAGTAGTTA
128 GTAATACTATATATTTTATTATAATCTATAATATAATA-TAGTTA
82592690 TATGTATATT
Statistics
Matches: 758, Mismatches: 80, Indels: 112
0.80 0.08 0.12
Matches are distributed among these distances:
223 20 0.03
224 21 0.03
225 5 0.01
226 22 0.03
229 3 0.00
230 5 0.01
231 18 0.02
232 3 0.00
233 69 0.09
235 4 0.01
236 2 0.00
237 58 0.08
238 9 0.01
239 8 0.01
240 113 0.15
241 31 0.04
242 42 0.06
243 61 0.08
244 4 0.01
245 150 0.20
246 23 0.03
247 1 0.00
249 2 0.00
250 1 0.00
251 4 0.01
252 21 0.03
253 4 0.01
254 24 0.03
255 29 0.04
256 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (244 bp):
CTATACTTTTCGTACATTTGAAAGTTAGCTCTCCTACTATATTATATAATAGTATATCATATATA
TAGTATATAATATATTAATAGTTTATATAGTATGCATCAATGATTAAACATTATAATATCATGTA
ATACTATATATTTTATTATAATCTATAATATAATATAGTTACACATAATAGTAGTACATTATATA
TTACATATATATTATTTATTATTATACTAGTTGAAATATGCTCTAAGCC
Found at i:82592657 original size:233 final size:223
Alignment explanation
Indices: 82592250--82592692 Score: 571
Period size: 233 Copynumber: 1.9 Consensus size: 223
82592240 ACTACATATT
* * * *
82592250 ATTATATATTATTGTTTATTATTATACTAGTTGAAATATGCTCTAAGCCCTATACTTTTCGTTCA
1 ATTAGATATTATTGTTTATTATTAAACTAGTTGAAATATGCTCTAAGCCCTATAATTTTCGTACA
* * * * * *
82592315 TTTGAAATTAGCCTCTTACTATATCGTATAATGTTATATTATATCAAATATTAATAGTTTGTATA
66 TTTAAAATTAGCCTCCTACTATATCATATAATATTATATTATATAAAATATTAATAGTGTGTATA
*
82592380 TATGCATCTACGATTAAACATTATAATATCATATAATACTATATCTTTTATTATAATCTATATTA
131 TATACATCTACGATTAAACATTATAATATCATATAATACTATATCTTTTATTATAATCTATATTA
82592445 CAATAATAGTTATATATAATAGGAGTAC
196 CAATAATAGTTATATATAATAGGAGTAC
* * * *
82592473 ATTAGATATTATTGTTTATTATTAAACTAGTTGAAATATTCTTTAAGTCTCTATAATTTTTGTAC
1 ATTAGATATTATTGTTTATTATTAAACTAGTTGAAATATGCTCTAAG-CCCTATAATTTTCGTAC
* * *
82592538 ATTTAAAAGTTAGCCCTCCTGCTATATTATATAATAATATATCATATCGTATAAAATATTAATAG
65 ATTTAAAA-TTAG-CCTCCTACTATATCATATAAT-AT-TAT-AT-T-ATATAAAATATTAATAG
* * * * *
82592603 TGTGTATATATATATGTTGATGATTAAACATTATAATATTATGTAATACTATATCTTTTATTATA
123 TGTGTATATATACAT-CT-ACGATTAAACATTATAATATCATATAATACTATATCTTTTATTATA
* *
82592668 ATCTATATTATAATAGTAGTTATAT
186 ATCTATATTACAATAATAGTTATAT
82592693 GTATATTAAT
Statistics
Matches: 185, Mismatches: 25, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
223 43 0.23
224 20 0.11
225 4 0.02
226 17 0.09
227 1 0.01
228 3 0.02
229 2 0.01
230 1 0.01
231 27 0.15
232 1 0.01
233 66 0.36
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.45
Consensus pattern (223 bp):
ATTAGATATTATTGTTTATTATTAAACTAGTTGAAATATGCTCTAAGCCCTATAATTTTCGTACA
TTTAAAATTAGCCTCCTACTATATCATATAATATTATATTATATAAAATATTAATAGTGTGTATA
TATACATCTACGATTAAACATTATAATATCATATAATACTATATCTTTTATTATAATCTATATTA
CAATAATAGTTATATATAATAGGAGTAC
Found at i:82592667 original size:485 final size:491
Alignment explanation
Indices: 82591720--82592692 Score: 1093
Period size: 485 Copynumber: 2.0 Consensus size: 491
82591710 TTATTCTATA
* *
82591720 ATATAATAGTAGTTCATCATATATATTAATTATTATACTATATTATTGTTTATTATTATACCAGT
1 ATATAATAGTAGTACAT-ATATATACTAATTATTATACTATATTATTGTTTATTATTATACCAGT
* *
82591785 TGAATATGCTCTATGCCCTTATACTTTTCGTATATTTGAAAATTAGTCTTACTATATTATATAAT
65 TGAATATGCTCTAAGCCCTTATACTTTTCGTATATTTGAAAATTAGTCTTACTATATCATATAAT
** *
82591850 ATTATATCATATCATATAGTATATAATATATTAATAGTTTATATAGTTGCATCAATTATTAAGCG
130 ATTATATCATATCATATAGTATATAATATATT-ATAG-TTATATAG-TGCATCAACGATTAAACG
* * *
82591915 ATATAATATCATGTAATACTATATATTTTATTATAATATATAATATAATGATAGTTACACATAAT
192 ATATAATATCATATAATACTATATATTTTATTATAATATATAATACAATAATAGTTACACATAAT
* * *
82591980 AGTAGTACATTATATATTACATATTATTATTTATTATTATACTGGATGAAATATGCCTTAAGTCC
257 AGGAGTACATTAGATATTA-ATATTATTATTTATTA-TATACTAGATGAAATATGCCTTAAGTCC
* * * * * **
82592045 CTATACTTTTCGTACATTTGAAAGTTATCTCTCCTATTATATTATATAATGGTATATCATATAGT
320 CTATAATTTTCGTACATTTAAAAGTTAGCCCTCCTACTATATTATATAATAATATATCATATAGT
** * * *
82592110 ATAGTATATAAAATATTAATAGTTTATACATATGCATAAATGATTAAACATTATAATATCATATA
385 ATAAAATATAAAATAGTAATAGTATATACATATG-ATAAATGATTAAACATTATAATATAATATA
* * *
82592175 ATATTATATTTTTTATTATAATCTATAATATAATGATAGTTAT
449 ATATTATAATCTATATTATAATCTATAATATAATGATAGTTAT
*
82592218 ATATAATAGTAGTACAT-TATATACTACA-TATTATTA-TATATTATTGTTTATTATTATACTAG
1 ATATAATAGTAGTACATATATATACTA-ATTATTA-TACTATATTATTGTTTATTATTATACCAG
*
82592280 TTGAAATATGCTCTAAGCCC-TATACTTTTCGT-TCATTTG-AAATTAGCCTCTTACTATATCGT
64 TTG-AATATGCTCTAAGCCCTTATACTTTTCGTAT-ATTTGAAAATTAG--TCTTACTATATCAT
* * * *
82592342 ATAATGTTATATTATATCA-A-A-TAT-TAATA-GTT-T-G-TATATA-TGCATCTACGATTAAA
125 ATAATATTATATCATATCATATAGTATATAATATATTATAGTTATATAGTGCATCAACGATTAAA
* * * * *
82592398 C-ATTATAATATCATATAATACTATATCTTTTATTATAATCTATATTACAATAATAGTTATATAT
190 CGA-TATAATATCATATAATACTATATATTTTATTATAATATATAATACAATAATAGTTACACAT
* * *
82592462 AATAGGAGTACATTAGATATT-AT-TGT-TTA-TTATTA-A-ACTAGTTGAAATATTCTTTAAGT
254 AATAGGAGTACATTAGATATTAATAT-TATTATTTATTATATACTAGATGAAATATGCCTTAAGT
* * * *
82592521 CTCTATAATTTTTGTACATTTAAAAGTTAGCCCTCCTGCTATATTATATAATAATATATCATATC
318 CCCTATAATTTTCGTACATTTAAAAGTTAGCCCTCCTACTATATTATATAATAATATATCATATA
* * * ** * *
82592586 GTATAAAATAT-TAATAGT-GT-GTATATATATATG-TTGATGATTAAACATTATAATATTATGT
383 GTATAAAATATAAAATAGTAATAGTATATACATATGATAAATGATTAAACATTATAATATAATAT
* * *
82592647 AATACTAT-ATCTTTTATTATAATCTATATTATAAT-AGTAGTTAT
448 AATATTATAATC-TATATTATAATCTATAATATAATGA-TAGTTAT
82592691 AT
1 AT
82592693 GTATATTAAT
Statistics
Matches: 412, Mismatches: 53, Indels: 45
0.81 0.10 0.09
Matches are distributed among these distances:
472 2 0.00
473 62 0.15
475 11 0.03
476 1 0.00
477 5 0.01
478 82 0.20
479 1 0.00
481 6 0.01
482 4 0.01
483 3 0.01
484 1 0.00
485 85 0.21
487 6 0.01
489 1 0.00
490 1 0.00
492 2 0.00
493 5 0.01
494 3 0.01
495 9 0.02
496 59 0.14
497 47 0.11
498 16 0.04
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (491 bp):
ATATAATAGTAGTACATATATATACTAATTATTATACTATATTATTGTTTATTATTATACCAGTT
GAATATGCTCTAAGCCCTTATACTTTTCGTATATTTGAAAATTAGTCTTACTATATCATATAATA
TTATATCATATCATATAGTATATAATATATTATAGTTATATAGTGCATCAACGATTAAACGATAT
AATATCATATAATACTATATATTTTATTATAATATATAATACAATAATAGTTACACATAATAGGA
GTACATTAGATATTAATATTATTATTTATTATATACTAGATGAAATATGCCTTAAGTCCCTATAA
TTTTCGTACATTTAAAAGTTAGCCCTCCTACTATATTATATAATAATATATCATATAGTATAAAA
TATAAAATAGTAATAGTATATACATATGATAAATGATTAAACATTATAATATAATATAATATTAT
AATCTATATTATAATCTATAATATAATGATAGTTAT
Found at i:82599933 original size:40 final size:40
Alignment explanation
Indices: 82599852--82600067 Score: 323
Period size: 40 Copynumber: 5.5 Consensus size: 40
82599842 AAACCAAGTA
* * * *
82599852 CCTTCGGGATTTAG-CCGGATATAGCT-GCTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
82599891 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
82599931 CCTTC--GACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
82599969 CCTTCGGGACTTAGCCCGGATATAGAAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
82600009 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
82600049 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
82600068 TTATCATCCG
Statistics
Matches: 161, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
38 37 0.23
39 14 0.09
40 110 0.68
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:82599999 original size:78 final size:80
Alignment explanation
Indices: 82599862--82600067 Score: 330
Period size: 78 Copynumber: 2.6 Consensus size: 80
82599852 CCTTCGGGAT
* * * *
82599862 TTAG-CCGGATATAGCT-GCTCGCTCAACTGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTCACA
82599925 CAAATGCC-TT-CGAC
65 CAAATGCCTTTGCGAC
82599939 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTCACAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTCACAC
*
82600004 AAATGCCTTTGGGAC
66 AAATGCCTTTGCGAC
82600019 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
82600068 TTATCATCCG
Statistics
Matches: 120, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
77 5 0.04
78 61 0.51
79 2 0.02
80 52 0.43
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGAAACTCACAC
AAATGCCTTTGCGAC
Found at i:82605504 original size:9 final size:9
Alignment explanation
Indices: 82605490--82605523 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
82605480 AAACCTTTTT
82605490 GAGAGTTGA
1 GAGAGTTGA
82605499 GAGAGTTTGA
1 GAGAG-TTGA
*
82605509 GAGAGTTGG
1 GAGAGTTGA
82605518 GAGAGT
1 GAGAGT
82605524 GTAACACCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.47, T:0.24
Consensus pattern (9 bp):
GAGAGTTGA
Found at i:82605623 original size:28 final size:28
Alignment explanation
Indices: 82605583--82605644 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
82605573 ATTAACGTTA
*
82605583 TTAAGAAAACCAACTTTTATAAGTAAAG
1 TTAAAAAAACCAACTTTTATAAGTAAAG
82605611 TTAAAAAAACCAACTTTTATAAGTAAAG
1 TTAAAAAAACCAACTTTTATAAGTAAAG
82605639 TTAAAA
1 TTAAAA
82605645 TCATTTGACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (28 bp):
TTAAAAAAACCAACTTTTATAAGTAAAG
Found at i:82608405 original size:40 final size:40
Alignment explanation
Indices: 82608350--82608517 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
82608340 TGAATGATAC
* *
82608350 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
82608390 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
82608430 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * * *
82608470 CCAGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
82608510 CC-GGCTAA
1 CCGGGCTAA
82608518 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:82611579 original size:13 final size:13
Alignment explanation
Indices: 82611563--82611589 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
82611553 TATATTAGTA
82611563 TTTTCTATTCTAT
1 TTTTCTATTCTAT
82611576 TTTTCTATTCTAT
1 TTTTCTATTCTAT
82611589 T
1 T
82611590 AGTTTAGATT
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:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCTATTCTAT
Found at i:82611607 original size:26 final size:27
Alignment explanation
Indices: 82611578--82611632 Score: 103
Period size: 26 Copynumber: 2.1 Consensus size: 27
82611568 TATTCTATTT
82611578 TTCTATTCTATTAGT-TTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAGTA
82611604 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATTAGTATTAGATTAGTA
82611631 TT
1 TT
82611633 AGTTAGTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (27 bp):
TTCTATTCTATTAGTATTAGATTAGTA
Found at i:82615310 original size:15 final size:15
Alignment explanation
Indices: 82615290--82615319 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82615280 GGAAATCACT
82615290 CATTCTTAAAACCAA
1 CATTCTTAAAACCAA
*
82615305 CATTCTTAAGACCAA
1 CATTCTTAAAACCAA
82615320 AGAGTCAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (15 bp):
CATTCTTAAAACCAA
Found at i:82623892 original size:20 final size:21
Alignment explanation
Indices: 82623867--82623915 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
82623857 CATTATAACA
82623867 AAAAAAAAGA-AATCGAA-TAC
1 AAAAAAAAGACAA-CGAAGTAC
*
82623887 AAAAAAAA-ACAACGAAGTTC
1 AAAAAAAAGACAACGAAGTAC
82623907 AAAAAAAAG
1 AAAAAAAAG
82623916 TAGTTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.08
Consensus pattern (21 bp):
AAAAAAAAGACAACGAAGTAC
Found at i:82624806 original size:8 final size:8
Alignment explanation
Indices: 82624795--82624823 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
82624785 TTTTACCTAC
82624795 TTATTTTT
1 TTATTTTT
82624803 TTA-TTTT
1 TTATTTTT
82624810 TTATTTTT
1 TTATTTTT
82624818 TTATTT
1 TTATTT
82624824 CTGGCACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTATTTTT
Found at i:82624813 original size:15 final size:15
Alignment explanation
Indices: 82624795--82624823 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
82624785 TTTTACCTAC
82624795 TTATTTTTTTATTTT
1 TTATTTTTTTATTTT
82624810 TTATTTTTTTATTT
1 TTATTTTTTTATTT
82624824 CTGGCACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
TTATTTTTTTATTTT
Found at i:82625013 original size:11 final size:11
Alignment explanation
Indices: 82624997--82625022 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
82624987 TACAATAATT
82624997 TTATTCTTTTA
1 TTATTCTTTTA
82625008 TTATTCTTTTA
1 TTATTCTTTTA
82625019 TTAT
1 TTAT
82625023 AATATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTCTTTTA
Found at i:82630736 original size:94 final size:94
Alignment explanation
Indices: 82630568--82632186 Score: 1526
Period size: 94 Copynumber: 17.3 Consensus size: 94
82630558 TGGGTCAGAT
* ** * * * ** * * *
82630568 TGAAGCTACAAGTCCTATACATCTGAAGTTGCAGTGAGTTGGAA-TGAAACTACAATGGTGAATC
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGT-AGGTCGAATTGAAGTTACCATAGCGAATC
* * * *
82630632 TTATCTCCCTGAAGGTGCACTAGAGCAAGA
65 TTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * * * *
82630662 TGAAGCTACAAATCCTATACCTCTAAAGTTGTAGTAGGTCGAATTAAAGTCACCATAACGAATTT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTCGAATTGAAGTTACCATAGCGAATCT
* *
82630727 TATCTCCCTGAAGTTGCAGTGGAGTAAGA
66 TATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * * * * **
82630756 TTAAGCTACAAATCCTATACTCCTGAAGTTGCAATGGGTC-AGATTGAAATTACCATAGAAAATC
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTCGA-ATTGAAGTTACCATAGCGAATC
** *
82630820 TTATCTCCCTAAAGTTATAGTGGAGTAAGA
65 TTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * *
82630850 TAAAGCTACAAATCCTATACCCCTGAAGTTGCAGTAGGTCGAATTGAAGTTACCATAGCAAAACT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTCGAATTGAAGTTACCATAGCGAATCT
* *
82630915 TACCTCCCTGAAATTATG--GTGGAGCAAGA
66 TATCTCCCT-AAAGT-TGCAGTGGAGCAAGA
* * * * * * * *
82630944 TGAAGCTACAAAACCTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGTTACCACAGTGAATCT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTCGAATTGAAGTTACCATAGCGAATCT
* * * * *
82631009 TATCTTCTTGAAGTTACAGTGGAACAAGA
66 TATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * * * *
82631038 CGAAGCTATAAAACCTATACCCCTAAAGTTGTAATAGGTC-AGATTGAAGTTACCATAGTGAATC
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTCGA-ATTGAAGTTACCATAGCGAATC
* *
82631102 TTATCTCCCTGAAGTTGCTGTGGAGCAAGA
65 TTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * * * * *
82631132 TGAAGCTATAAATCATATACCACTGAAGTTGCAGTGGGT-TAGATTGATGTTACCATAGCGAATC
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTCGA-ATTGAAGTTACCATAGCGAATC
* ** *
82631196 TTATCTCTCTAAAGTTGCAGCAGAGTAAGA
65 TTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * * * *
82631226 TAAATCTACAAATCTTATTCCCCTGAAGTTGCAGTAGGTTCG-ATTGAAGTTACCATAGTGAATC
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGG-TCGAATTGAAGTTACCATAGCGAATC
* * *
82631290 TTATCTCCCTAAAGTTGTAGTAGAGTAAGA
65 TTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * ** *
82631320 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGAGTTTG-ATTGAAGTTACCATAGTAAATT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGT-AGGTCGAATTGAAGTTACCATAGCGAATC
* *
82631384 TTATCTCCCTAAAGTTGCAATGGAGCAAAA
65 TTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * *
82631414 TGAAGCTACAAATCCTATACCCCTGAAG-TGCAAGTGGGTC-AGATTGAAGTTACCATAGCTAAT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTG-TAGTAGGTCGA-ATTGAAGTTACCATAGCGAAT
* * *
82631477 CTTATCTCTCTAAAATTACAGTGGAGCAAGA
64 CTTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * *
82631508 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCTG-ATTAAAGTTACCATAGTGAATC
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTC-GAATTGAAGTTACCATAGCGAATC
* * **
82631572 TTATCTCCC-GAAGTTGTAGTGGAATAAGA
65 TTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * * * * ** *
82631601 TGAAGCTACAAATCCTACACCTCTAAAGTTGTAGTGGGTTGGATTGAAGTTATTATAGTGAATCT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTCGAATTGAAGTTACCATAGCGAATCT
* * *
82631666 TATCTTCTTAAAGTTGTAGTGGAGCAAGA
66 TATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * * *
82631695 TAAAGGTACAAATCCTATA-CCCTGAAGTTGCAGT-GCGTCGAATTGAAGCTACAATAGCGAATC
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAG-GTCGAATTGAAGTTACCATAGCGAATC
* * *
82631758 TCATCTCTCTAAAGTTGTAGTGGAGCAAGA
65 TTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * * * *
82631788 TAAAGCTAGAAATCCTATACCCCTGAAGTTGTAGTAGGTAGGATTGAAATTA-CAGTAGCGAGTC
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTCGAATTGAAGTTACCA-TAGCGAATC
* * *
82631852 TTATCTCCTTGAAGTTGCAATGGAGCAAGA
65 TTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * * * *
82631882 TAAAGCTACAAATCTTATA-CCCTGGAAGTTGTAGTAGGTCGGATTGAAGCTACAATAGTGAATC
1 TGAAGCTACAAATCCTATACCCCT-GAAGTTGTAGTAGGTCGAATTGAAGTTACCATAGCGAATC
* *
82631946 TTATCACTCTAAAGTTGCAGTGGAGCAAGA
65 TTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * * * *
82631976 TGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTCGGATTAAAGTTACGATAGCGAATCC
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTCGAATTGAAGTTACCATAGCGAATCT
* * *
82632041 TATCTCCCTGAAGTTGTAGTGGAACAAGA
66 TATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * ** ** * * * ** *
82632070 TGAAGCTACAAATCCTATA-CCCTAAACTTACAAAAGGTTGGATTAAAGTTATTATAGTGAATCT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTCGAATTGAAGTTACCATAGCGAATCT
* * *
82632134 TATATCCCTAAAGTTGTAGTGAAGCAAGA
66 TATCTCCCTAAAGTTGCAGTGGAGCAAGA
*
82632163 TAAAGCTACAAATCCTATACCCCT
1 TGAAGCTACAAATCCTATACCCCT
82632187 TGTAATGGCC
Statistics
Matches: 1268, Mismatches: 229, Indels: 56
0.82 0.15 0.04
Matches are distributed among these distances:
92 3 0.00
93 248 0.20
94 1000 0.79
95 16 0.01
96 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (94 bp):
TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTCGAATTGAAGTTACCATAGCGAATCT
TATCTCCCTAAAGTTGCAGTGGAGCAAGA
Found at i:82631312 original size:50 final size:50
Alignment explanation
Indices: 82631058--82631400 Score: 164
Period size: 50 Copynumber: 7.2 Consensus size: 50
82631048 AAACCTATAC
* *
82631058 CCCTAAAGTTGTAATAG-GTCAGATTGAAGTTACCATAGTGAATCTTATCT
1 CCCTAAAGTTGTAGTAGAGTTAGATTGAAGTTACCATAGT-AATCTTATCT
* * ** * *
82631108 CCCTGAAGTTGCT-GTGGAGCAAGA-TGAAG---CTATA--AATCATATAC-
1 CCCTAAAGTTG-TAGTAGAGTTAGATTGAAGTTACCATAGTAATCTTAT-CT
* * * * * *
82631152 CACTGAAGTTGCAGT-GGGTTAGATTGATGTTACCATAGCGAATCTTATCT
1 CCCTAAAGTTGTAGTAGAGTTAGATTGAAGTTACCATAG-TAATCTTATCT
* * * * *
82631202 CTCTAAAGTTGCAGCAGAGTAAGA-T-AAATCTA-C--A--AATCTTAT-T
1 CCCTAAAGTTGTAGTAGAGTTAGATTGAAGT-TACCATAGTAATCTTATCT
* * *
82631245 CCCCTGAAGTTGCAGTAG-GTTCGATTGAAGTTACCATAGTGAATCTTATCT
1 -CCCTAAAGTTGTAGTAGAGTTAGATTGAAGTTACCATAGT-AATCTTATCT
* * *
82631296 CCCTAAAGTTGTAGTAGAGTAAGA-TGAAGCTA-C--A--AATCCTATAC-
1 CCCTAAAGTTGTAGTAGAGTTAGATTGAAGTTACCATAGTAATCTTAT-CT
* * *
82631340 CCCTGAAGTTGTAGT-GAGTTTGATTGAAGTTACCATAGTAAATTTTATCT
1 CCCTAAAGTTGTAGTAGAGTTAGATTGAAGTTACCATAGT-AATCTTATCT
82631390 CCCTAAAGTTG
1 CCCTAAAGTTG
82631401 CAATGGAGCA
Statistics
Matches: 218, Mismatches: 41, Indels: 68
0.67 0.13 0.21
Matches are distributed among these distances:
43 16 0.07
44 76 0.35
45 7 0.03
47 12 0.06
49 6 0.03
50 85 0.39
51 16 0.07
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (50 bp):
CCCTAAAGTTGTAGTAGAGTTAGATTGAAGTTACCATAGTAATCTTATCT
Found at i:82635218 original size:50 final size:48
Alignment explanation
Indices: 82635162--82635314 Score: 140
Period size: 50 Copynumber: 3.2 Consensus size: 48
82635152 GGTCAGATTG
* *
82635162 AAGCTACAATTGCGAATCTTATCTCTTTAAAGTTGCAATGGAGCAAGATA
1 AAGCTACAA-T-CGAATCTTATCTCTCTAAAGTTGCAGTGGAGCAAGATA
* * *
82635212 AAGCTAC-A---AATCCTATAC-CTCTAAAGTTGTAGTGG-GTCAA-ATTG
1 AAGCTACAATCGAATCTTAT-CTCTCTAAAGTTGCAGTGGAG-CAAGA-TA
*
82635256 AAGCTACAATAACGAATCTTATCTCTCTAAAGTTGCAGTGGAACAAGATA
1 AAGCTACAAT--CGAATCTTATCTCTCTAAAGTTGCAGTGGAGCAAGATA
82635306 AAGCTACAA
1 AAGCTACAA
82635315 ATTTTACAAC
Statistics
Matches: 82, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
43 2 0.02
44 32 0.39
45 2 0.02
49 2 0.02
50 43 0.52
51 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (48 bp):
AAGCTACAATCGAATCTTATCTCTCTAAAGTTGCAGTGGAGCAAGATA
Found at i:82635260 original size:44 final size:44
Alignment explanation
Indices: 82635212--82635358 Score: 111
Period size: 44 Copynumber: 3.2 Consensus size: 44
82635202 GAGCAAGATA
82635212 AAGCTACAAATCCTATACCTCTAAAGTTGTAGTGGGTCAAATTG
1 AAGCTACAAATCCTATACCTCTAAAGTTGTAGTGGGTCAAATTG
* * ** *
82635256 AAGCTACAATAACGAATCT-TATCTCTCTAAAGTTGCAGTGGAACAAGA-TA
1 AAGCTACAA-ATC----CTATA-C-CTCTAAAGTTGTAGTGGGTCAA-ATTG
** * *
82635306 AAGCTACAAATTTTACAACC-CTAAAGTTGTAGTAGGTCAAATTG
1 AAGCTACAAATCCTA-TACCTCTAAAGTTGTAGTGGGTCAAATTG
82635350 AAGCTACAA
1 AAGCTACAA
82635359 TAGTGAATCT
Statistics
Matches: 78, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
43 1 0.01
44 35 0.45
45 4 0.05
46 1 0.01
47 1 0.01
48 2 0.03
49 4 0.05
50 29 0.37
51 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (44 bp):
AAGCTACAAATCCTATACCTCTAAAGTTGTAGTGGGTCAAATTG
Found at i:82635303 original size:94 final size:94
Alignment explanation
Indices: 82635134--82636338 Score: 1234
Period size: 94 Copynumber: 12.8 Consensus size: 94
82635124 GGGGTATTAC
* * * *
82635134 ACCCCTAAAGTTGTAGTGGGTCAGATTGAAGCTACAATTGCGAATCTTATCTCTTTAAAGTTGCA
1 ACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCTCTGAAGTTGCA
*
82635199 ATGGAGCAAGATAAAGCTACAAATCCTAT
66 GTGGAGCAAGATAAAGCTACAAATCCTAT
* * * * *
82635228 ACCTCTAAAGTTGTAGTGGGTCAAATTGAAGCTACAATAACGAATCTTATCTCTCTAAAGTTGCA
1 ACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCTCTGAAGTTGCA
* ** *
82635293 GTGGAACAAGATAAAGCTACAAATTTTAC
66 GTGGAGCAAGATAAAGCTACAAATCCTAT
* * * * * * *
82635322 AACCCTAAAGTTGTAGTAGGTCAAATTGAAGCTACAATAGTGAATCTTATCTCCCTGAAGTTCCA
1 ACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCTCTGAAGTTGCA
* * * *
82635387 ATGGAGTAAGATGAAGCTATAAATCCTAT
66 GTGGAGCAAGATAAAGCTACAAATCCTAT
* * * * * *
82635416 ACCCCTGAAGTTGCAGTGGGTCAGATTAAAGTTACCATAGCAAATCTTATCTCTCTGAAGTTGTA
1 ACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCTCTGAAGTTGCA
* * * * * *
82635481 GTGAAGTAAGATGATGTTACAAATCCTGT
66 GTGGAGCAAGATAAAGCTACAAATCCTAT
* * ** * * * * * * *
82635510 ACCCCTGAAGTTGCAATGGGTTGGATTAAAGTTACCATAGCAAATCTTATCTCCCCGAAGTTACA
1 ACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCTCTGAAGTTGCA
* * * *
82635575 GTAGAGTAAGAAAAAGCTACAAATCTTAT
66 GTGGAGCAAGATAAAGCTACAAATCCTAT
** * *
82635604 ACCCCTGAAGTTGTAGTACGTCAAATTGAAGCTACAATAGCGAATCTTATCTCTCTGAAATTGCA
1 ACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCTCTGAAGTTGCA
82635669 GTGGAGCAAGATAAAGCTACAAATCCTAT
66 GTGGAGCAAGATAAAGCTACAAATCCTAT
* ** * * *
82635698 ACCCCTGAAGTTGCAGTGGGT-AGGATTGAAATTATAGTAGC-AAGTCTTATCTTTCTGAAGTTG
1 ACCCCTGAAGTTGTAGTGGGTCA-GATTGAAGCTACAATAGCGAA-TCTTATCTCTCTGAAGTTG
* *
82635761 CAGTGGAGCAAGATAAAGCTACAATTCTTAT
64 CAGTGGAGCAAGATAAAGCTACAAATCCTAT
* * * * * *
82635792 ACCACTGAAGTTGTAATGGGTC-GAACTGAAGCTACAATAGCAAATCTTATCTCCCTGAAGTTGT
1 ACCCCTGAAGTTGTAGTGGGTCAG-ATTGAAGCTACAATAGCGAATCTTATCTCTCTGAAGTTGC
* *
82635856 AATGGAGCAAGATAAAGCTATAAATCCTAT
65 AGTGGAGCAAGATAAAGCTACAAATCCTAT
* * * * * *
82635886 ACCCCTGAAGTTGTAGTGGGTCGGATTAAAGTTACCATAGTGAATCTTATCTCTCTGAAATTGCA
1 ACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCTCTGAAGTTGCA
* *
82635951 ATGGAGCAAGATAAAGCTACAAATCCTAC
66 GTGGAGCAAGATAAAGCTACAAATCCTAT
* * * * * ** *
82635980 ACCCCTAAAGTTGCAATAGGTCAGATTGAAACTACAATAATGAATCTTATCTCCCTGAAGTTGCA
1 ACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCTCTGAAGTTGCA
82636045 GTGGTA-CAAGATAAAGCTACAAATCCTAT
66 GTGG-AGCAAGATAAAGCTACAAATCCTAT
* * * * * *
82636074 ATCCCTGAAGTTGTAGTGGATCGGATTGAAGCTACAATAGCGAATCTTAACTCCCTGAAATTGCA
1 ACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCTCTGAAGTTGCA
* * *
82636139 GTGGAGCAAGATGAAGCTAGAAATCCTAA
66 GTGGAGCAAGATAAAGCTACAAATCCTAT
* * * * ** * * *
82636168 ATCCCTGAATTTGTAGTGGGTTAGAATGAAATTACAATGGTGAATCTTATCTC-CATGAAGTTGT
1 ACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCTC-TGAAGTTGC
* * * *
82636232 AGTGAAGCAAGATGAAGCTACAAATCTTGT
65 AGTGGAGCAAGATAAAGCTACAAATCCTAT
* * ** * * * *
82636262 ACCCCTGAAGTTGCAGTAGGTTGGAATGAAACTACAACAGCAAATCTTATCTC-CTTGAAGTTGC
1 ACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCTC-TGAAGTTGC
* *
82636326 AATGGAGTAAGAT
65 AGTGGAGCAAGAT
82636339 GAAACTGTGA
Statistics
Matches: 922, Mismatches: 180, Indels: 18
0.82 0.16 0.02
Matches are distributed among these distances:
93 6 0.01
94 912 0.99
95 4 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (94 bp):
ACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCTCTGAAGTTGCA
GTGGAGCAAGATAAAGCTACAAATCCTAT
Found at i:82637870 original size:8 final size:8
Alignment explanation
Indices: 82637850--82637886 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
82637840 CTTTGCCTAC
82637850 TTATTTT-
1 TTATTTTA
82637857 TTATTTTA
1 TTATTTTA
82637865 TTATTTTA
1 TTATTTTA
82637873 TTATTTTA
1 TTATTTTA
82637881 TTATTT
1 TTATTT
82637887 CCAACACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTATTTTA
Found at i:82640660 original size:29 final size:29
Alignment explanation
Indices: 82640616--82640766 Score: 205
Period size: 29 Copynumber: 5.2 Consensus size: 29
82640606 ATATCGACGC
*
82640616 CCATCGAATATGAAAAGGGATGGTTACGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* * *
82640645 CCATCGAATATAAAAAAGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
*
82640674 CCATCGATTATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* **
82640703 CCATCGAATAT-AGAAAGAGATGGTGACGA
1 CCATCGAATATGA-AAAGGGATGGTTTCGA
*
82640732 CCATCAAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
82640761 CCATCG
1 CCATCG
82640767 TTTAGCACTC
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
28 1 0.01
29 101 0.98
30 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTTCGA
Found at i:82650717 original size:57 final size:56
Alignment explanation
Indices: 82650586--82650792 Score: 220
Period size: 57 Copynumber: 3.6 Consensus size: 56
82650576 ATTGACCTCA
*
82650586 TTACAGATAGGATTTAGCCTGAACTGGTAATCCTGATATAATTGCTC-TCGAGCATATG
1 TTACAGATAGGATTTAGCCTGAACTGGTAATCCTAAT-TAA--GCTCTTCGAGCATATG
* * * *
82650644 TTACA-ATTAGGGTTTAGCCTGGACTGGTAGTCTTAATTAAGCTCTTCAGAGCATATG
1 TTACAGA-TAGGATTTAGCCTGAACTGGTAATCCTAATTAAGCTCTTC-GAGCATATG
* * * *
82650701 TTACAGAAAGGATTTAGCCTAAACTGGTAATCCTAATTAAGCTTTTGTGAGCATATG
1 TTACAGATAGGATTTAGCCTGAACTGGTAATCCTAATTAAGCTCTT-CGAGCATATG
** * * *
82650758 TTGGAGACAGGATTTAGCCTGGACTAGTAATCCTA
1 TTACAGATAGGATTTAGCCTGAACTGGTAATCCTA
82650793 TAATATGATA
Statistics
Matches: 125, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
55 4 0.03
56 2 0.02
57 88 0.70
58 31 0.25
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (56 bp):
TTACAGATAGGATTTAGCCTGAACTGGTAATCCTAATTAAGCTCTTCGAGCATATG
Found at i:82651469 original size:95 final size:95
Alignment explanation
Indices: 82651350--82651539 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
82651340 AATATGATTT
*
82651350 AGGGCTTGGAACCGAATGTTTGATTGTGATTTACGTGTTTATCTTTAATATGAATAGTTGGTAAG
1 AGGGCTTGGAACCGAATGTTTGATTGTGATTTACATGTTTATCTTTAATATGAATAGTTGGTAAG
82651415 TTAATTACCAAGTTATACGGACTTACTAAG
66 TTAATTACCAAGTTATACGGACTTACTAAG
82651445 AGGGCTTGGAACCGAATGTTTGATTGTGATTTACATGTTTATCTTTAATATGAATAGTTGGTAAG
1 AGGGCTTGGAACCGAATGTTTGATTGTGATTTACATGTTTATCTTTAATATGAATAGTTGGTAAG
82651510 TTAATTACCAAGTTATACGGACTTACTAAG
66 TTAATTACCAAGTTATACGGACTTACTAAG
82651540 CATTATATAC
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (95 bp):
AGGGCTTGGAACCGAATGTTTGATTGTGATTTACATGTTTATCTTTAATATGAATAGTTGGTAAG
TTAATTACCAAGTTATACGGACTTACTAAG
Found at i:82652500 original size:18 final size:18
Alignment explanation
Indices: 82652477--82652517 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
82652467 AATAAGTATA
* *
82652477 AATTAACCTAATTACCTG
1 AATTAACCGAATTAACTG
82652495 AATTAACCGAATTAACTG
1 AATTAACCGAATTAACTG
82652513 AATTA
1 AATTA
82652518 TTTGTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (18 bp):
AATTAACCGAATTAACTG
Found at i:82652553 original size:5 final size:6
Alignment explanation
Indices: 82652538--82652578 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
82652528 ATTATATGTT
*
82652538 TTTTTA TTTTTA TTTTTA TTTTTAGA ATTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
82652579 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:82652619 original size:13 final size:13
Alignment explanation
Indices: 82652603--82652627 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82652593 AATTTTTATT
82652603 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
82652616 ATTGGGTTGGGT
1 ATTGGGTTGGGT
82652628 TAGGTACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:82652627 original size:18 final size:18
Alignment explanation
Indices: 82652604--82652641 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
82652594 ATTTTTATTA
*
82652604 TTGGGTTGGGTAATTGGG
1 TTGGGTTAGGTAATTGGG
*
82652622 TTGGGTTAGGTACTTGGG
1 TTGGGTTAGGTAATTGGG
82652640 TT
1 TT
82652642 AATATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.03, G:0.45, T:0.42
Consensus pattern (18 bp):
TTGGGTTAGGTAATTGGG
Found at i:82654658 original size:2 final size:2
Alignment explanation
Indices: 82654651--82654679 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
82654641 AAATAAAAGA
82654651 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
82654680 ACATAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:82656941 original size:19 final size:20
Alignment explanation
Indices: 82656885--82656941 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 20
82656875 AAAAAAAAAC
82656885 AAACTTAATAATTATATAATT
1 AAACTTAA-AATTATATAATT
**
82656906 AAAAAATAAAA-TA-ATAATT
1 -AAACTTAAAATTATATAATT
82656925 -AACTTAAAATTATATAA
1 AAACTTAAAATTATATAA
82656942 AAAAAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 7 0.24
18 2 0.07
19 10 0.34
20 2 0.07
21 2 0.07
22 6 0.21
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
AAACTTAAAATTATATAATT
Found at i:82659177 original size:27 final size:26
Alignment explanation
Indices: 82659147--82659197 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
82659137 AAATACTGGA
*
82659147 TAAGATATCCAAAAAAATGAAAAAGGG
1 TAAGA-ATACAAAAAAATGAAAAAGGG
**
82659174 TAAGAATAGTAAAAAATGAAAAAG
1 TAAGAATACAAAAAAATGAAAAAG
82659198 AAAGGGTGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.63, C:0.04, G:0.18, T:0.16
Consensus pattern (26 bp):
TAAGAATACAAAAAAATGAAAAAGGG
Found at i:82662935 original size:21 final size:21
Alignment explanation
Indices: 82662909--82662949 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
82662899 ATCTGCTCAA
* *
82662909 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
82662930 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
82662950 TCGCTTGTCT
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:82670281 original size:24 final size:24
Alignment explanation
Indices: 82670204--82670282 Score: 61
Period size: 24 Copynumber: 3.1 Consensus size: 24
82670194 AAATATTTTA
* * *
82670204 TATATCATCTGTTTTAAA-TTGTT
1 TATATTATTTGTTTTAAACTTATT
* *
82670227 GTATATTATTTATTTTTAAAACTACTTTT
1 -TATATTATTT-GTTTT-AAACT--TATT
82670256 TATATTATTTGTTTTAAACTTATT
1 TATATTATTTGTTTTAAACTTATT
82670280 TAT
1 TAT
82670283 TATCAGTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
24 14 0.32
25 4 0.09
26 8 0.18
27 5 0.11
28 10 0.23
29 3 0.07
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.59
Consensus pattern (24 bp):
TATATTATTTGTTTTAAACTTATT
Found at i:82682597 original size:132 final size:132
Alignment explanation
Indices: 82682360--82682604 Score: 327
Period size: 132 Copynumber: 1.9 Consensus size: 132
82682350 TGGATTGAAG
* * *
82682360 AAGATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATAGAAGACGGTGAATCTTATTTTC
1 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGACGGCGAATCTTATTCTC
* * **
82682425 CCGAGGAAATATGGAAGCTGATTTAGGCCATTAGCCTTATCTCCCTGAGTAGCAGTGGAATAGGT
66 CCGAGGAAATATGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGTAGCAGTGGAATAGGT
82682490 TA
131 TA
* *
82682492 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCGAATCTTA-TCTC
1 AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGACGGCGAATCTTATTCTC
* *
82682556 CATGTAGCGGTAAT-T-G-AGCAGATTTAAGCCACCAGCCTTATCTCCCTGA
66 C-CG-A--GGAAATATGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCTGA
82682605 AGTTACAGTG
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
131 4 0.04
132 86 0.88
133 2 0.02
134 1 0.01
135 5 0.05
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (132 bp):
AAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGACGGCGAATCTTATTCTC
CCGAGGAAATATGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGTAGCAGTGGAATAGGT
TA
Found at i:82682688 original size:177 final size:176
Alignment explanation
Indices: 82682460--82682797 Score: 500
Period size: 177 Copynumber: 1.9 Consensus size: 176
82682450 GGCCATTAGC
* * *
82682460 CTTATCTCCCTGAGTAGCAGTGGAATAGGTTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTGAGTAGCAGTGGAACAGCTGAAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
* * * * *
82682525 GGAGCAGATTGAAGACTG-CGAATCTTATCTCCATGTAGCGGTAATTGAGCAGATTTAAGCCACC
66 AGAGCAGATCGAAGA-TGACGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACA
82682589 AGCCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTCGTGATACAAGT
130 AGCCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTCGTGATACAAGT
* * * *
82682636 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAA-ATTGCAGATTTTATCTCCCTAAGTAGTA
1 CTTATCTCCCTG-AGTAGCAGTGGAACAG-CTGAAAGATTACAGATCTTATCTCCCTAAGCAGTA
*
82682700 GTAGAGCAGATCGAAGATGACGAATCTTATCTCTATGTAGCGGCAATGGAGCAGATTTAAGCCAC
64 GTAGAGCAGATCGAAGATGACGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAC
* *
82682765 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
129 AAGCCTTATCTCCCTGAAGTTACAGTGGAGCAG
82682798 ACTAAAGATA
Statistics
Matches: 144, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
176 14 0.10
177 126 0.88
178 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (176 bp):
CTTATCTCCCTGAGTAGCAGTGGAACAGCTGAAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
AGAGCAGATCGAAGATGACGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACAA
GCCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTCGTGATACAAGT
Found at i:82682794 original size:44 final size:44
Alignment explanation
Indices: 82682571--82682798 Score: 129
Period size: 44 Copynumber: 5.2 Consensus size: 44
82682561 AGCGGTAATT
* * *
82682571 GAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTACAGTG
1 GAGCAGATTTAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTG
* *** **
82682615 GAGCAGGTTCGTGATACAAGTCTTATCTCCCTGAAGTTGCAGTG
1 GAGCAGATTTAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTG
* ** **** * * * *
82682659 GAACAGACTGAAAATTGC-AGATTTTATCTCCCT-AAGTAGTAGTA
1 GAGCAGA-TTTAAGCCACAAG-TCTTATCTCCCTGAAGTTGCAGTG
** ** ** * ** *
82682703 GAGCAGATCGAAGATGACGAA-TCTTATCTCTATGTAGCGGCAATG
1 GAGCAGATTTAAG-CCAC-AAGTCTTATCTCCCTGAAGTTGCAGTG
82682748 GAGCAGATTTAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTG
1 GAGCAGATTTAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTG
82682792 GAGCAGA
1 GAGCAGA
82682799 CTAAAGATAG
Statistics
Matches: 130, Mismatches: 47, Indels: 14
0.68 0.25 0.07
Matches are distributed among these distances:
43 5 0.04
44 94 0.72
45 30 0.23
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
GAGCAGATTTAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTG
Found at i:82683548 original size:31 final size:30
Alignment explanation
Indices: 82683491--82683548 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
82683481 TGGGTTTTAT
**
82683491 TTTGAGTTTTTTTTAAAGTAGGAAATAGTG
1 TTTGAGTTTTTTTTAAAGTAAAAAATAGTG
82683521 TTTGAAGTGTTTTTTTAAA-TAAAAAATA
1 TTTG-AGT-TTTTTTTAAAGTAAAAAATA
82683549 AAGAAAGCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.17
31 10 0.42
32 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (30 bp):
TTTGAGTTTTTTTTAAAGTAAAAAATAGTG
Found at i:82684097 original size:16 final size:16
Alignment explanation
Indices: 82684076--82684128 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
82684066 TATTTTAAAT
82684076 TATTATTCACTTTTTA
1 TATTATTCACTTTTTA
*
82684092 TATTATTCATTTATTTA
1 TATTATTCACTT-TTTA
**
82684109 T-TTATTTTCTTTTGTA
1 TATTATTCACTTTT-TA
82684125 TATT
1 TATT
82684129 TTTTAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 2 0.07
16 21 0.70
17 7 0.23
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTATTCACTTTTTA
Found at i:82684612 original size:24 final size:24
Alignment explanation
Indices: 82684535--82684613 Score: 61
Period size: 24 Copynumber: 3.1 Consensus size: 24
82684525 AAATATTTTA
* * *
82684535 TATATCATCTGTTTTAAA-TTGTT
1 TATATTATTTGTTTTAAACTTATT
* *
82684558 GTATATTATTTATTTTTAAAACTACTTTT
1 -TATATTATTT-GTTTT-AAACT--TATT
82684587 TATATTATTTGTTTTAAACTTATT
1 TATATTATTTGTTTTAAACTTATT
82684611 TAT
1 TAT
82684614 TATCAGTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
24 14 0.32
25 4 0.09
26 8 0.18
27 5 0.11
28 10 0.23
29 3 0.07
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.59
Consensus pattern (24 bp):
TATATTATTTGTTTTAAACTTATT
Found at i:82688927 original size:22 final size:22
Alignment explanation
Indices: 82688892--82688933 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
82688882 AAAGTCCAAT
*
82688892 AAATTAGTAGCAATAACACAAC
1 AAATTAGTAACAATAACACAAC
*
82688914 AAATTGGTAACAATAACACA
1 AAATTAGTAACAATAACACA
82688934 TCAGTTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.17, G:0.10, T:0.19
Consensus pattern (22 bp):
AAATTAGTAACAATAACACAAC
Found at i:82691019 original size:3 final size:3
Alignment explanation
Indices: 82691013--82691126 Score: 228
Period size: 3 Copynumber: 38.0 Consensus size: 3
82691003 TGATGATCAT
82691013 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
82691061 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
82691109 GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA
82691127 TTATTCAAAT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 111 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:82691591 original size:21 final size:21
Alignment explanation
Indices: 82691554--82691593 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
82691544 TTTTAAATTG
*
82691554 ATTTCTTTTATAGAATTTATA
1 ATTTCTTTGATAGAATTTATA
82691575 ATTTCTTATGATA-AATTTA
1 ATTTCTT-TGATAGAATTTA
82691594 GTAGCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTCTTTGATAGAATTTATA
Found at i:82691744 original size:60 final size:63
Alignment explanation
Indices: 82691622--82691751 Score: 178
Period size: 60 Copynumber: 2.1 Consensus size: 63
82691612 TTGGTAAACT
* *
82691622 AATACAAAGTAGTATCTACAAAATTAATTTGATAAAAATAAAGTTAAATAATTACAACATCTA
1 AATACAAAGTAGTATCTACAAAATTAATTAGATAAAAATAAACTTAAATAATTACAACATCTA
* * * *
82691685 AATATAAA-TAGTATCTA-AACATTAATTAGATAAAAA-AAACTTAAATAATTATAATATCT-
1 AATACAAAGTAGTATCTACAAAATTAATTAGATAAAAATAAACTTAAATAATTACAACATCTA
82691744 AATACAAA
1 AATACAAA
82691752 TTGAGCATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
59 7 0.12
60 20 0.33
61 17 0.28
62 9 0.15
63 7 0.12
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (63 bp):
AATACAAAGTAGTATCTACAAAATTAATTAGATAAAAATAAACTTAAATAATTACAACATCTA
Found at i:82702659 original size:21 final size:17
Alignment explanation
Indices: 82702619--82702663 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
82702609 AAACTCGAGC
82702619 TTCTCTCTTTGCTTACT
1 TTCTCTCTTTGCTTACT
82702636 TTCTCTCTTTGCTTACT
1 TTCTCTCTTTGCTTACT
*
82702653 TTCTTTCTTTG
1 TTCTCTCTTTG
82702664 TTGAGCTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.04, C:0.27, G:0.07, T:0.62
Consensus pattern (17 bp):
TTCTCTCTTTGCTTACT
Found at i:82708242 original size:23 final size:22
Alignment explanation
Indices: 82708146--82708242 Score: 81
Period size: 23 Copynumber: 4.2 Consensus size: 22
82708136 TCAACTCGTA
* *
82708146 AGAGCTTATTGTTTTCAGCTTATT
1 AGAGCTTACTG-TTTCAGCTCA-T
* *
82708170 GGAGCTTACCGATTT-AGCTCAT
1 AGAGCTTACTG-TTTCAGCTCAT
82708192 ATGAGCTTACTGTTTCAGCTCAAT
1 A-GAGCTTACTGTTTCAGCTC-AT
82708216 AGAGCTTACTGTTTATCAGCTCA-
1 AGAGCTTACTG-TT-TCAGCTCAT
82708239 AGAG
1 AGAG
82708243 GAACTTACCG
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
22 4 0.07
23 33 0.54
24 17 0.28
25 7 0.11
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (22 bp):
AGAGCTTACTGTTTCAGCTCAT
Found at i:82708885 original size:3 final size:3
Alignment explanation
Indices: 82708879--82708968 Score: 121
Period size: 3 Copynumber: 30.7 Consensus size: 3
82708869 ATTATTTAAA
82708879 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
82708927 AAT AAT AAT AAT GAT GAT GAT -AT AAT -AT AAT AGT TAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
82708969 ATAAAAGAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
2 4 0.05
3 76 0.95
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:82711399 original size:28 final size:26
Alignment explanation
Indices: 82711334--82711401 Score: 64
Period size: 28 Copynumber: 2.5 Consensus size: 26
82711324 TTCTTTCCCT
*
82711334 TTTTCTTTCTTTCTTTCCCTATTCTA
1 TTTTATTTCTTTCTTTCCCTATTCTA
* * *
82711360 TTTCATCCTTCTTTCTTTCCTTTTTCTTTA
1 TTTTAT--TTCTTTCTTTCCCTATTC--TA
82711390 TTTTATTTCTTT
1 TTTTATTTCTTT
82711402 ATTCTTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
26 4 0.12
28 22 0.67
30 7 0.21
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTATTTCTTTCTTTCCCTATTCTA
Found at i:82712422 original size:6 final size:6
Alignment explanation
Indices: 82712411--82712454 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
82712401 TCTGTACCTG
* * * *
82712411 ACTGTT ACTGTT ACTATT ATTGTT ACTATT ATTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
82712455 CTTTACGGTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (6 bp):
ACTGTT
Found at i:82712436 original size:12 final size:12
Alignment explanation
Indices: 82712419--82712449 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
82712409 TGACTGTTAC
82712419 TGTTACTATTAT
1 TGTTACTATTAT
82712431 TGTTACTATTAT
1 TGTTACTATTAT
82712443 TGTTACT
1 TGTTACT
82712450 GTTACCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (12 bp):
TGTTACTATTAT
Found at i:82725567 original size:302 final size:300
Alignment explanation
Indices: 82725017--82725564 Score: 777
Period size: 302 Copynumber: 1.8 Consensus size: 300
82725007 CGTGCGACAT
82725017 TTGAAAAGTCAAAATTTTTCTAAGTTTCCAAAATTTTAATATGTTACGATTTAGTCCCGAATGCA
1 TTGAAAAGTCAAAATTTTTCTAAGTTTCCAAAATTTTAATATGTTACGATTTAGTCCCGAATGCA
* * *
82725082 TGATTAATGCTTTGTATGTTTGATCTAAGTATATATTGAATGTGAATGAATGATATTGGCTGTTA
66 TGATTAATGCTTTGTATGTTTGATCTAAGTACATATTGAATATGAATGAATGATATTGACTGTTA
* * **
82725147 TAAGATGTTATTGGATATATGATCGTACTGAATTGAGTTACAAGTCCAGTAATGCCTTTTAACCT
131 TAAGATGTTATTGGATATATGATCGAACTGAATTGAGTTACAAGT-C-GTAATACCTCCTAACCT
* * ** * ****
82725212 ATTCCGGTGACGGTTATGGGTTAGGGGTGTTACAATTTTTTTATAATTTTTTTATATTAGTCAAT
194 ATTCCAGTGACGGATATGGGTTAGAAGTATTACAATTTACGAATAATTTTTTTATATTAGTCAAT
82725277 AGATCGGGTTTCATAATATTTTATTGGTAATATGTCTCAAAA
259 AGATCGGGTTTCATAATATTTTATTGGTAATATGTCTCAAAA
82725319 TTGAAAAGTCAAAATTTTTCTAAGTTTCCAAAATTTTAATATGTTACGATTTAGTCCCGAATGCA
1 TTGAAAAGTCAAAATTTTTCTAAGTTTCCAAAATTTTAATATGTTACGATTTAGTCCCGAATGCA
*
82725384 TGATTAATGCTTTGTATGTTTGATTTAAGTACATATTGAATATGAATGAATGATATTGACTGTTA
66 TGATTAATGCTTTGTATGTTTGATCTAAGTACATATTGAATATGAATGAATGATATTGACTGTTA
*
82725449 TAAGATGTTATTGGATATATGATCGAACTGAATTGAGTTAC-A-T-GTAATACC-CCTACCCGTA
131 TAAGATGTTATTGGATATATGATCGAACTGAATTGAGTTACAAGTCGTAATACCTCCTAACC-TA
* * *
82725510 TT-CATTGTCGGA-ATAGGG-TACGAAGTATTACCGGAGTTTACGAATTAATTTTTTT
195 TTCCAGTGACGGATAT-GGGTTA-GAAGTATTA-C--AATTTACGAA-TAATTTTTTT
82725565 TTAACTTAAT
Statistics
Matches: 218, Mismatches: 21, Indels: 16
0.85 0.08 0.06
Matches are distributed among these distances:
295 4 0.02
296 19 0.09
297 12 0.06
299 5 0.02
300 11 0.05
301 1 0.00
302 166 0.76
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.41
Consensus pattern (300 bp):
TTGAAAAGTCAAAATTTTTCTAAGTTTCCAAAATTTTAATATGTTACGATTTAGTCCCGAATGCA
TGATTAATGCTTTGTATGTTTGATCTAAGTACATATTGAATATGAATGAATGATATTGACTGTTA
TAAGATGTTATTGGATATATGATCGAACTGAATTGAGTTACAAGTCGTAATACCTCCTAACCTAT
TCCAGTGACGGATATGGGTTAGAAGTATTACAATTTACGAATAATTTTTTTATATTAGTCAATAG
ATCGGGTTTCATAATATTTTATTGGTAATATGTCTCAAAA
Found at i:82728930 original size:28 final size:28
Alignment explanation
Indices: 82728891--82728946 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
82728881 TTCCAATTTA
82728891 AAAAACCCTAAACCCTAATTTATTTTTT
1 AAAAACCCTAAACCCTAATTTATTTTTT
*
82728919 AAAAACCCTAAACCCTAATTTTTTTTTT
1 AAAAACCCTAAACCCTAATTTATTTTTT
82728947 TTCAAAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAAACCCTAAACCCTAATTTATTTTTT
Found at i:82729254 original size:29 final size:29
Alignment explanation
Indices: 82729196--82729256 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
82729186 TTGGATTTTT
* **
82729196 TGGCCCATTCCGGTAAATAATCTTTTAAA
1 TGGCCCATTCCGGTAAATAATATTGGAAA
* *
82729225 TGGCCTATTCCTGTAAATAATATTGGAAA
1 TGGCCCATTCCGGTAAATAATATTGGAAA
82729254 TGG
1 TGG
82729257 GCCTTTTTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (29 bp):
TGGCCCATTCCGGTAAATAATATTGGAAA
Found at i:82729953 original size:17 final size:18
Alignment explanation
Indices: 82729915--82729954 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
82729905 AAATGCATTA
*
82729915 TTTTATATTTTTAATAAT
1 TTTTTTATTTTTAATAAT
82729933 TTTTTTATTTTT-ATAAT
1 TTTTTTATTTTTAATAAT
82729950 TTTTT
1 TTTTT
82729955 AAATATATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTATTTTTAATAAT
Found at i:82730886 original size:3 final size:3
Alignment explanation
Indices: 82730878--82730908 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
82730868 TTTTTCTCTC
82730878 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
82730909 CTCTCTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:82744090 original size:39 final size:39
Alignment explanation
Indices: 82744036--82744114 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
82744026 AAGACTTTTG
82744036 AGTTAGTGACCTTAAGACACGTAGCTACGCTTATCCCCC
1 AGTTAGTGACCTTAAGACACGTAGCTACGCTTATCCCCC
*
82744075 AGTTAGTGACCTTAAGACACGTAGCTACGCTTGTCCCCC
1 AGTTAGTGACCTTAAGACACGTAGCTACGCTTATCCCCC
82744114 A
1 A
82744115 CTATAAAAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (39 bp):
AGTTAGTGACCTTAAGACACGTAGCTACGCTTATCCCCC
Done.