Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 145 of 187
Found at i:43729867 original size:16 final size:17
Alignment explanation
Indices: 43729846--43729880 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
43729836 CTTTAATTTA
*
43729846 AATTAATTAA-TTTCTC
1 AATTAAATAATTTTCTC
43729862 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
43729879 AA
1 AA
43729881 CCCAAGTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:43738471 original size:14 final size:14
Alignment explanation
Indices: 43738454--43738481 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43738444 CTCACATTTC
43738454 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
43738468 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
43738482 GATTTCTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:43738568 original size:17 final size:17
Alignment explanation
Indices: 43738542--43738575 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43738532 GTAAAATCAA
43738542 TTTTGATTTTGATTTTG
1 TTTTGATTTTGATTTTG
* *
43738559 TTTTGCTTTTGCTTTTG
1 TTTTGATTTTGATTTTG
43738576 CTTGTGCTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.06, G:0.18, T:0.71
Consensus pattern (17 bp):
TTTTGATTTTGATTTTG
Found at i:43738576 original size:6 final size:6
Alignment explanation
Indices: 43738542--43738583 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
43738532 GTAAAATCAA
* * *
43738542 TTTTGA TTTTGA TTTTG- TTTTGC TTTTGC TTTTGC TTGTGC T
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC T
43738584 CAAATCTGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.05, C:0.10, G:0.19, T:0.67
Consensus pattern (6 bp):
TTTTGC
Found at i:43741141 original size:47 final size:47
Alignment explanation
Indices: 43741078--43741398 Score: 439
Period size: 47 Copynumber: 6.7 Consensus size: 47
43741068 CCCTTCGGGA
* * *
43741078 CTTATCACATTTATACACTTCCATATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTCCACATTCATCACATTGGCCATTCGGC
*
43741125 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTCCACATTCATCACATTGGCCATTCGGC
* * *
43741172 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TCCACATTCATCACATTGGCCATTCGGC
* * *
43741219 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TCCACATTCATCACATTGGCCATTCGGC
*
43741266 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTCCACATTCATCACATTGGCCATTCGGC
* * *
43741315 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTCCACATTCATCACATTGGCCATTCGGC
*
43741362 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCAC--ATATATACACTTCCACATTCATCACAT
43741399 CATGTACAGA
Statistics
Matches: 254, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 182 0.72
49 70 0.28
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTCCACATTCATCACATTGGCCATTCGGC
Found at i:43741311 original size:96 final size:96
Alignment explanation
Indices: 43741078--43741398 Score: 501
Period size: 96 Copynumber: 3.4 Consensus size: 96
43741068 CCCTTCGGGA
* * *
43741078 CTTATCACAT-T-TATACACTTCCATATCCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
43741141 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
43741172 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
43741234 CA-TGTTCACATTCATCACATTGGCCATTCGGC
65 CACT-TTCACATTCATCACATTGGCCATTCGGC
43741266 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
43741331 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
43741362 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATATACACTTTCACATTCATCACAT
43741399 CATGTACAGA
Statistics
Matches: 206, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
93 3 0.01
94 87 0.42
96 114 0.55
97 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:43741338 original size:143 final size:142
Alignment explanation
Indices: 43741105--43741398 Score: 468
Period size: 143 Copynumber: 2.1 Consensus size: 142
43741095 CTTCCATATC
43741105 CATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCG
* * * *
43741170 GCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ACATACA
66 GCCTTATCACATATATACATGTTCACATTCATCACATCGGCCATTAGGCCTTATCACAACATACA
43741234 CA-TGTTCACATT
131 CACT-TTCACATT
43741246 CATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATT
1 CATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATT
*
43741311 CGGCCTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
64 CGGCCTTATCACATATATACA-TGTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ACA
*
43741375 TATACACTTTCACATT
127 TACACACTTTCACATT
43741391 CATCACAT
1 CATCACAT
43741399 CATGTACAGA
Statistics
Matches: 141, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
141 28 0.20
143 88 0.62
144 1 0.01
145 23 0.16
146 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (142 bp):
CATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCG
GCCTTATCACATATATACATGTTCACATTCATCACATCGGCCATTAGGCCTTATCACAACATACA
CACTTTCACATT
Found at i:43746292 original size:18 final size:17
Alignment explanation
Indices: 43746271--43746308 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
43746261 ATATTAAGAA
*
43746271 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
43746289 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
43746306 TTT
1 TTT
43746309 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Found at i:43746414 original size:18 final size:18
Alignment explanation
Indices: 43746393--43746546 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
43746383 ATATTAAGAA
43746393 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
43746411 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
43746426 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * *
43746441 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
43746460 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
43746475 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
43746494 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
43746513 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
43746531 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
43746547 TTAATAATAA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 38 0.38
19 11 0.11
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:43746485 original size:120 final size:120
Alignment explanation
Indices: 43746172--43746936 Score: 1214
Period size: 120 Copynumber: 6.3 Consensus size: 120
43746162 ATATTAAGAA
*
43746172 TTTTATTAAATTATATTTGAA-AATAATTAATTTAAATTATATTTTATAGTATTATATATTATGA
1 TTTTATTAAATTATATTT-AATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
*
43746236 TTTTAGTAAATTC---TAAGAATCTTTAATATTAAGAATTTTATTAAATTATATAT
65 TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
43746289 TTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATG
1 TTTTATTAAATTATA--TTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATG
*
43746354 ATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
64 ATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
43746411 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
*
43746476 TTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
43746531 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
* *
43746596 TTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAACTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* *
43746651 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATATTATA
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA-T-TATATATTATG
* * *
43746716 ATTTTAGAAAAGTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATGT
64 ATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* *
43746773 TTTTATTAAAGTATTAAATTATATTCAATAATAATTGTGTTAAATTATATTTTATAGTATTATAT
1 TTTTATT-AA--ATT--A-TAT-TT-AATAATAATTATTTTAAATTATATTTTATAGTATTATAT
* *
43746838 ATTTTGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
58 ATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
43746901 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAA
43746937 ATATGATTAA
Statistics
Matches: 610, Mismatches: 22, Indels: 29
0.92 0.03 0.04
Matches are distributed among these distances:
117 14 0.02
118 2 0.00
119 58 0.10
120 287 0.47
121 3 0.00
122 125 0.20
123 3 0.00
125 6 0.01
127 3 0.00
128 74 0.12
129 3 0.00
130 32 0.05
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (120 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:43747162 original size:45 final size:44
Alignment explanation
Indices: 43747076--43747171 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
43747066 ATTACAACAT
*
43747076 CATTCCATTCAACCAAACACAAGAATACTATTACGCATCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACGCATCTATTC
* *
43747120 CATTACATTCAACCAAACA-ATTGAATTACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACGCATCTATTC
43747165 CATTACA
1 CATTACA
43747172 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.45
45 25 0.53
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.30
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCATCTATTC
Found at i:43754588 original size:13 final size:13
Alignment explanation
Indices: 43754570--43754595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43754560 AAAAAAGAAG
43754570 AATGGTTTGTAAC
1 AATGGTTTGTAAC
43754583 AATGGTTTGTAAC
1 AATGGTTTGTAAC
43754596 TAAAAAGGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
AATGGTTTGTAAC
Found at i:43757662 original size:18 final size:18
Alignment explanation
Indices: 43757639--43757676 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
43757629 AAGTGTTTGC
43757639 CATGTAGGTGATACCTTT
1 CATGTAGGTGATACCTTT
43757657 CATGTAGGTGATACCTTT
1 CATGTAGGTGATACCTTT
43757675 CA
1 CA
43757677 CCATAAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (18 bp):
CATGTAGGTGATACCTTT
Found at i:43761698 original size:12 final size:10
Alignment explanation
Indices: 43761658--43761704 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
43761648 TAGTTTTAGG
43761658 TTTAGTTTTC
1 TTTAGTTTTC
*
43761668 TCTAGGTTTTC
1 TTTA-GTTTTC
43761679 TTTAGTTTTC
1 TTTAGTTTTC
43761689 TTTGTAGTTTT-
1 -TT-TAGTTTTC
43761700 TTTAG
1 TTTAG
43761705 GGTTTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 3 0.09
10 11 0.34
11 11 0.34
12 7 0.22
ACGTcount: A:0.11, C:0.09, G:0.15, T:0.66
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:43763574 original size:35 final size:34
Alignment explanation
Indices: 43763534--43763615 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 34
43763524 AATCTTATCG
43763534 ATATAAACTTCATT-GGAAATCAAATCTATTCAAA
1 ATATAAACTTCATTCGG-AATCAAATCTATTCAAA
* *
43763568 CATATAAACTTCCTTCGGAATCAAATGTATTCAAA
1 -ATATAAACTTCATTCGGAATCAAATCTATTCAAA
*
43763603 TTAATAAACTTCA
1 AT-ATAAACTTCA
43763616 ATCTCATTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 1 0.02
35 38 0.93
36 2 0.05
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (34 bp):
ATATAAACTTCATTCGGAATCAAATCTATTCAAA
Found at i:43765694 original size:21 final size:21
Alignment explanation
Indices: 43765648--43765702 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
43765638 ACCACTAATT
* *
43765648 TTAAGCTCACCACTATAATAC
1 TTAATCTCACCACTATAATAA
* *
43765669 CTAATCTCACCACTATAGTAA
1 TTAATCTCACCACTATAATAA
*
43765690 TTAATCACACCAC
1 TTAATCTCACCAC
43765703 CGCCATTGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.27
Consensus pattern (21 bp):
TTAATCTCACCACTATAATAA
Found at i:43771201 original size:41 final size:41
Alignment explanation
Indices: 43771145--43771253 Score: 157
Period size: 41 Copynumber: 2.7 Consensus size: 41
43771135 CTTTTGGGGC
* *
43771145 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAACGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
*
43771186 TTTAACGGTATTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAACGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
* * *
43771227 TTTAGCGGCGTTTTT-ATAAAGCGCCGC
1 TTTAACGGCATTTTTGAAAAAGCGCCGC
43771254 AAAAACATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
40 11 0.18
41 50 0.82
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (41 bp):
TTTAACGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
Found at i:43771682 original size:14 final size:15
Alignment explanation
Indices: 43771654--43771686 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
43771644 AAGGTTTATA
43771654 GATTATGGAATTAGG
1 GATTATGGAATTAGG
43771669 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
43771683 GATT
1 GATT
43771687 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:43771827 original size:120 final size:121
Alignment explanation
Indices: 43771696--43771922 Score: 307
Period size: 120 Copynumber: 1.9 Consensus size: 121
43771686 TCTGGTTTAA
* * *
43771696 GGGTTAGGGGTTAGAGATTAAGAGTTAAG-GATTTAGGGTTTATAGATTC-GATATCAAGTTAGA
1 GGGTTAGGGGTTAGAGATTAAGAG-TAAGTGACTTAGGGTTTAGAGATTCAG-GATCAAGTTAGA
*
43771759 GTTTAGGGTTTAGATTAATTAGT-GTTTTTAATTTATATATTAAATGTTAGTAGTTAG
64 GTTTAAGGTTTAGATTAATTAGTAGTTTTTAATTTATATATTAAATGTTAGTAGTTAG
* * * * ** *
43771816 GGGTTTGGGGTTAGAGGTTAAGAGTGAGTGACTTAGGGTTTAGAGATTCAGGGTCGGGTTAGGGT
1 GGGTTAGGGGTTAGAGATTAAGAGTAAGTGACTTAGGGTTTAGAGATTCAGGATCAAGTTAGAGT
*
43771881 TTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAA
66 TTAAGGTTTAGATTAATTAGTAGTTTTTAATTTATATATTAA
43771923 TTAAGTTCAT
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
119 3 0.03
120 69 0.75
121 20 0.22
ACGTcount: A:0.29, C:0.02, G:0.28, T:0.41
Consensus pattern (121 bp):
GGGTTAGGGGTTAGAGATTAAGAGTAAGTGACTTAGGGTTTAGAGATTCAGGATCAAGTTAGAGT
TTAAGGTTTAGATTAATTAGTAGTTTTTAATTTATATATTAAATGTTAGTAGTTAG
Found at i:43774211 original size:17 final size:17
Alignment explanation
Indices: 43774189--43774222 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
43774179 GGTGATTTTG
43774189 CTGACTGGTATGTAGAA
1 CTGACTGGTATGTAGAA
43774206 CTGACTGGTATGTAGAA
1 CTGACTGGTATGTAGAA
43774223 TGTTCTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (17 bp):
CTGACTGGTATGTAGAA
Found at i:43776512 original size:42 final size:42
Alignment explanation
Indices: 43776449--43776548 Score: 166
Period size: 42 Copynumber: 2.4 Consensus size: 42
43776439 TATTTTAGTT
*
43776449 TTGA-TTCTAAATTTTTATTTTTACTTTAATATTTATGACAAC
1 TTGAGTTCT-AATTTTTATTTTTACTTTAATATTTACGACAAC
43776491 TTGAGTTCTAATTTTTATTTTTACTTTAATATTTACGACAAC
1 TTGAGTTCTAATTTTTATTTTTACTTTAATATTTACGACAAC
*
43776533 TTGAGTTCTAACTTTT
1 TTGAGTTCTAATTTTT
43776549 GGATTTTAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
42 51 0.93
43 4 0.07
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (42 bp):
TTGAGTTCTAATTTTTATTTTTACTTTAATATTTACGACAAC
Found at i:43789472 original size:19 final size:19
Alignment explanation
Indices: 43789448--43789484 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
43789438 ATGGCCACAA
*
43789448 AAATCATTTTTTCACTTTC
1 AAATCAATTTTTCACTTTC
43789467 AAATCAATTTTTCACTTT
1 AAATCAATTTTTCACTTT
43789485 GACATGTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATCAATTTTTCACTTTC
Found at i:43790895 original size:15 final size:15
Alignment explanation
Indices: 43790877--43790909 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
43790867 GTATATCATC
*
43790877 TCATAATCTAAGGTT
1 TCATAATCTAAAGTT
43790892 TCATAATCTAAAGTT
1 TCATAATCTAAAGTT
43790907 TCA
1 TCA
43790910 AGTATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (15 bp):
TCATAATCTAAAGTT
Found at i:43792063 original size:19 final size:19
Alignment explanation
Indices: 43792039--43792075 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
43792029 ATAGCCACAA
*
43792039 AAATCACTTTTTCACTTTC
1 AAATCAATTTTTCACTTTC
43792058 AAATCAATTTTTCACTTT
1 AAATCAATTTTTCACTTT
43792076 GGCATGTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATCAATTTTTCACTTTC
Found at i:43801649 original size:19 final size:20
Alignment explanation
Indices: 43801613--43801656 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
43801603 TGCATGACTA
*
43801613 TTTTTCTGATTTTCTTTTCT
1 TTTTTATGATTTTCTTTTCT
43801633 TTTTTATGATTTT-TTTTCT
1 TTTTTATGATTTTCTTTTCT
43801652 TTTTT
1 TTTTT
43801657 CATTTTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTTTATGATTTTCTTTTCT
Found at i:43801894 original size:20 final size:20
Alignment explanation
Indices: 43801855--43801894 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
43801845 CATTTTAGGA
43801855 TTTTTTATAATTTTACATTT
1 TTTTTTATAATTTTACATTT
*
43801875 TTTTTCTATATTTTTA-ATTT
1 TTTTT-TATAATTTTACATTT
43801895 ATTTAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTATAATTTTACATTT
Found at i:43802867 original size:16 final size:16
Alignment explanation
Indices: 43802848--43802878 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43802838 TATATACGTG
43802848 TATATATATGTGAAAC
1 TATATATATGTGAAAC
*
43802864 TATATATATTTGAAA
1 TATATATATGTGAAA
43802879 ACTCTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (16 bp):
TATATATATGTGAAAC
Found at i:43807301 original size:13 final size:12
Alignment explanation
Indices: 43807277--43807313 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
43807267 ATCTTCTTAA
43807277 TAAAATATTATT
1 TAAAATATTATT
43807289 TAAAATCATTATT
1 TAAAAT-ATTATT
43807302 T-AAATATT-TT
1 TAAAATATTATT
43807312 TA
1 TA
43807314 TTTCCTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 3 0.13
11 3 0.13
12 10 0.43
13 7 0.30
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:43807316 original size:14 final size:13
Alignment explanation
Indices: 43807277--43807305 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
43807267 ATCTTCTTAA
43807277 TAAAAT-ATTATT
1 TAAAATCATTATT
43807289 TAAAATCATTATT
1 TAAAATCATTATT
43807302 TAAA
1 TAAA
43807306 TATTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAAATCATTATT
Found at i:43808588 original size:14 final size:15
Alignment explanation
Indices: 43808569--43808597 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43808559 TAGTTTGAGA
43808569 TGAAAAAG-TAAAAG
1 TGAAAAAGTTAAAAG
43808583 TGAAAAAGTTAAAAG
1 TGAAAAAGTTAAAAG
43808598 CAAAATAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (15 bp):
TGAAAAAGTTAAAAG
Found at i:43814379 original size:30 final size:30
Alignment explanation
Indices: 43814343--43814400 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
43814333 ATAAGAACAC
43814343 TGACTCATGTACATAAATGTGTCAAATTCA
1 TGACTCATGTACATAAATGTGTCAAATTCA
43814373 TGACTCATGTACATAAATGTGTCAAATT
1 TGACTCATGTACATAAATGTGTCAAATT
43814401 TTACATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (30 bp):
TGACTCATGTACATAAATGTGTCAAATTCA
Found at i:43832663 original size:10 final size:10
Alignment explanation
Indices: 43832648--43832672 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43832638 TAATGAAAGT
43832648 TTAAACAAAA
1 TTAAACAAAA
43832658 TTAAACAAAA
1 TTAAACAAAA
43832668 TTAAA
1 TTAAA
43832673 GAATGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (10 bp):
TTAAACAAAA
Found at i:43833652 original size:39 final size:40
Alignment explanation
Indices: 43833609--43833726 Score: 148
Period size: 40 Copynumber: 3.0 Consensus size: 40
43833599 TACTTTCTTT
* * **
43833609 TTGGCTTGTTTCGGGTGGATCAGCAATTATGAGCTTCT-A
1 TTGGCATGTTTCGGGTGGACCAGCTCTTATGAGCTTCTGA
* * *
43833648 TTGGCGTGTTTCGGGTGGACCAGCTCTTATGAGCTTTTGT
1 TTGGCATGTTTCGGGTGGACCAGCTCTTATGAGCTTCTGA
* *
43833688 TTGGCATATTTCGGGTGGACCAACTCTTATGAGCTTCTG
1 TTGGCATGTTTCGGGTGGACCAGCTCTTATGAGCTTCTG
43833727 TCTGGTGTGT
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 33 0.49
40 35 0.51
ACGTcount: A:0.15, C:0.18, G:0.29, T:0.38
Consensus pattern (40 bp):
TTGGCATGTTTCGGGTGGACCAGCTCTTATGAGCTTCTGA
Found at i:43833703 original size:40 final size:39
Alignment explanation
Indices: 43833607--43833725 Score: 148
Period size: 39 Copynumber: 3.0 Consensus size: 39
43833597 TATACTTTCT
* * **
43833607 TTTTGGCTTGTTTCGGGTGGATCAGCAATTATGAGCTTC
1 TTTTGGCATGTTTCGGGTGGACCAGCTCTTATGAGCTTC
* * *
43833646 TATTGGCGTGTTTCGGGTGGACCAGCTCTTATGAGCTTT
1 TTTTGGCATGTTTCGGGTGGACCAGCTCTTATGAGCTTC
* *
43833685 TGTTTGGCATATTTCGGGTGGACCAACTCTTATGAGCTTC
1 T-TTTGGCATGTTTCGGGTGGACCAGCTCTTATGAGCTTC
43833725 T
1 T
43833726 GTCTGGTGTG
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 34 0.50
40 34 0.50
ACGTcount: A:0.15, C:0.18, G:0.28, T:0.39
Consensus pattern (39 bp):
TTTTGGCATGTTTCGGGTGGACCAGCTCTTATGAGCTTC
Found at i:43837406 original size:50 final size:51
Alignment explanation
Indices: 43837336--43837523 Score: 182
Period size: 50 Copynumber: 3.7 Consensus size: 51
43837326 TATCATTCAA
* * * * *
43837336 TACATGTAGTAGCCTTCACATAGTATTACACACGTGCTC-AAACTTTTCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTTTCCGG
* * *
43837386 TTCACGTAGTATCCTGCACATAGTACTACACACGTGATCGAAGCTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTTTCCGG
* * * * * **** * *
43837437 TACGCATAGTAGCCTGCGCATAGTACTACACATGCGA-CCTTTCATTCCAG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTTTCCGG
*
43837487 TACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGA
43837524 CCATCACTTT
Statistics
Matches: 110, Mismatches: 27, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
50 71 0.65
51 39 0.35
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTTTCCGG
Found at i:43845331 original size:31 final size:31
Alignment explanation
Indices: 43845294--43845355 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
43845284 AGATAATTTT
43845294 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
43845325 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
43845356 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:43846009 original size:12 final size:12
Alignment explanation
Indices: 43845992--43846019 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43845982 CTTCTTTTCC
43845992 TATTATTATTTT
1 TATTATTATTTT
43846004 TATTATTATTTT
1 TATTATTATTTT
43846016 TATT
1 TATT
43846020 TTTCCCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTATTATTTT
Found at i:43852308 original size:12 final size:12
Alignment explanation
Indices: 43852291--43852315 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43852281 TAGCCATACC
43852291 CCGATACAACAG
1 CCGATACAACAG
43852303 CCGATACAACAG
1 CCGATACAACAG
43852315 C
1 C
43852316 AAAACGTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.16, T:0.08
Consensus pattern (12 bp):
CCGATACAACAG
Found at i:43859493 original size:12 final size:13
Alignment explanation
Indices: 43859470--43859502 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
43859460 TGCCGGTGTT
43859470 CCAACATTCTATG
1 CCAACATTCTATG
43859483 CCAAC-TTCTATG
1 CCAACATTCTATG
43859495 CCAACATT
1 CCAACATT
43859503 TTTAAATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.30, C:0.33, G:0.06, T:0.30
Consensus pattern (13 bp):
CCAACATTCTATG
Found at i:43859647 original size:30 final size:30
Alignment explanation
Indices: 43859613--43859672 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
43859603 TATTTTATTA
43859613 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
*
43859643 TTAATTTTGTTATTATTTTAGAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
43859673 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:43866592 original size:51 final size:51
Alignment explanation
Indices: 43866504--43866737 Score: 240
Period size: 51 Copynumber: 4.6 Consensus size: 51
43866494 ATCTTCCAAA
* * * *
43866504 GCAAAGTATATGCTTACT-ATTATATAAA-TTTCTATGTGTGAATTGTGAAT
1 GCAAAGTATATGCGTACTAATTATGTAAAGTTT-TATGTGTGAACTATGAAT
* * *
43866554 GTAAAGCATATGTGTACTAATTATGTAAAGTTTTATGTGTGAACTATGAAT
1 GCAAAGTATATGCGTACTAATTATGTAAAGTTTTATGTGTGAACTATGAAT
* * * * * *
43866605 GCAAAGTATATACGTACTAATTATGAAAAGTTCTATATGTCAACTATTAAT
1 GCAAAGTATATGCGTACTAATTATGTAAAGTTTTATGTGTGAACTATGAAT
* * * * * *
43866656 GTAAAGTGTGTGCGTGC-AGATTATGTAAAGTTATATGTGTGAACTGTGAAT
1 GCAAAGTATATGCGTACTA-ATTATGTAAAGTTTTATGTGTGAACTATGAAT
* *
43866707 GCAAATTATATGCATACTAATTATGTAAAGT
1 GCAAAGTATATGCGTACTAATTATGTAAAGT
43866738 ACTATATACG
Statistics
Matches: 147, Mismatches: 33, Indels: 7
0.79 0.18 0.04
Matches are distributed among these distances:
50 15 0.10
51 128 0.87
52 4 0.03
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (51 bp):
GCAAAGTATATGCGTACTAATTATGTAAAGTTTTATGTGTGAACTATGAAT
Found at i:43866640 original size:102 final size:102
Alignment explanation
Indices: 43866504--43866744 Score: 272
Period size: 102 Copynumber: 2.4 Consensus size: 102
43866494 ATCTTCCAAA
* * * * * * *
43866504 GCAAAGTATATGCTTACT-ATTAT-ATAAATTTCTATGTGTGAATTGTGAATGTAAAGCATATGT
1 GCAAAGTATATGCATACTAATTATGA-AAAGTTCTATATGTCAACTATGAATGTAAAGCATATGC
*
43866567 GTACTA-ATTATGTAAAGTTTTATGTGTGAACTATGAAT
65 GTAC-AGATTATGTAAAGTTATATGTGTGAACTATGAAT
* * * ** *
43866605 GCAAAGTATATACGTACTAATTATGAAAAGTTCTATATGTCAACTATTAATGTAAAGTGTGTGCG
1 GCAAAGTATATGCATACTAATTATGAAAAGTTCTATATGTCAACTATGAATGTAAAGCATATGCG
* *
43866670 TGCAGATTATGTAAAGTTATATGTGTGAACTGTGAAT
66 TACAGATTATGTAAAGTTATATGTGTGAACTATGAAT
* * *
43866707 GCAAATTATATGCATACTAATTATGTAAAGTACTATAT
1 GCAAAGTATATGCATACTAATTATGAAAAGTTCTATAT
43866745 ACGACCTAGC
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
101 17 0.15
102 99 0.85
103 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (102 bp):
GCAAAGTATATGCATACTAATTATGAAAAGTTCTATATGTCAACTATGAATGTAAAGCATATGCG
TACAGATTATGTAAAGTTATATGTGTGAACTATGAAT
Found at i:43866661 original size:27 final size:26
Alignment explanation
Indices: 43866551--43866662 Score: 65
Period size: 27 Copynumber: 4.4 Consensus size: 26
43866541 GTGAATTGTG
* *
43866551 AATGTAAAG-CATATGTGT-ACTAATT
1 AATGTAAAGTTATATATGTAACT-ATT
* * *
43866576 -ATGTAAAGTTTTATGTGTGAACTATG
1 AATGTAAAGTTATATATGT-AACTATT
* *
43866602 AATGCAAAG-TATATACGT-ACTAATT
1 AATGTAAAGTTATATATGTAACT-ATT
* *
43866627 -ATGAAAAGTTCTATATGTCAACTATT
1 AATGTAAAGTTATATATGT-AACTATT
43866653 AATGTAAAGT
1 AATGTAAAGT
43866663 GTGTGCGTGC
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
24 18 0.27
25 16 0.24
26 11 0.17
27 21 0.32
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (26 bp):
AATGTAAAGTTATATATGTAACTATT
Found at i:43871937 original size:202 final size:202
Alignment explanation
Indices: 43871591--43871964 Score: 703
Period size: 202 Copynumber: 1.9 Consensus size: 202
43871581 TTTGAATGAA
* *
43871591 TATGGTGTGGTTATTTCTAAAAGTAAGAACGAGTCTGATAGGAAGTGCATGTGTGTCTAGTAGGC
1 TATGGTGTGGTTATGTCTAAAAGTAAGAACGAGTCTGATAGGAAGTGCATGTGTGCCTAGTAGGC
* *
43871656 ATAAGAATGTCTGTCATGAGTGAGTTGATACATGATGAGTCCGTGTCTGTCTTCGAAGTGGTCAA
66 ATAAGAATGTCTGTCATGAGTGAGTCGATACATGATGAGTCCGTGTCTGTCTTCGAAGTCGTCAA
*
43871721 AAGGGTCTGTCAAGACTAAAAACACTAATCTTTGAAAGGACAAGTCTGATAGGAAGAACGAGTCT
131 AAGGGTCCGTCAAGACTAAAAACACTAATCTTTGAAAGGACAAGTCTGATAGGAAGAACGAGTCT
43871786 GAACGAC
196 GAACGAC
43871793 TATGGTGTGGTTATGTCTAAAAGTAAGAACGAGTCTGATAGGAAGTGCATGTGTGCCTAGTAGGC
1 TATGGTGTGGTTATGTCTAAAAGTAAGAACGAGTCTGATAGGAAGTGCATGTGTGCCTAGTAGGC
43871858 ATAAGAATGTCTGTCATGAGTGAGTCGATACATGATGAGTCCGTGTCTGTCTTCGAAGTCGTCAA
66 ATAAGAATGTCTGTCATGAGTGAGTCGATACATGATGAGTCCGTGTCTGTCTTCGAAGTCGTCAA
43871923 AAGGGTCCGTCAAGACTAAAAACACTAATCTTTGAAAGGACA
131 AAGGGTCCGTCAAGACTAAAAACACTAATCTTTGAAAGGACA
43871965 GGTCCATGGC
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
202 167 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (202 bp):
TATGGTGTGGTTATGTCTAAAAGTAAGAACGAGTCTGATAGGAAGTGCATGTGTGCCTAGTAGGC
ATAAGAATGTCTGTCATGAGTGAGTCGATACATGATGAGTCCGTGTCTGTCTTCGAAGTCGTCAA
AAGGGTCCGTCAAGACTAAAAACACTAATCTTTGAAAGGACAAGTCTGATAGGAAGAACGAGTCT
GAACGAC
Found at i:43872047 original size:53 final size:53
Alignment explanation
Indices: 43871984--43872089 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 53
43871974 CCATGGCACT
* *
43871984 GAAGACCATATTGTGTAAGACCATAACTGGTGGGTTATGGCATCATATGGAAA
1 GAAGACCATATCGTGTAAGACCATAACTGGTGGGTTATGACATCATATGGAAA
***
43872037 GAAGACCATATCGTGTAAGATTGTAACTGGTGGGTTATGACATCATATGGAAA
1 GAAGACCATATCGTGTAAGACCATAACTGGTGGGTTATGACATCATATGGAAA
43872090 AAGTTAAGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.27
Consensus pattern (53 bp):
GAAGACCATATCGTGTAAGACCATAACTGGTGGGTTATGACATCATATGGAAA
Found at i:43872331 original size:32 final size:32
Alignment explanation
Indices: 43872294--43872363 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
43872284 AGATAAGAAA
* *
43872294 GCCTTTATGGCAAGTACTGAATGTTAAGGAAC
1 GCCTTTATAGCAAGTACTAAATGTTAAGGAAC
* **
43872326 GCCTTTGTAGTGAGTACTAAATGTTAAGGAAC
1 GCCTTTATAGCAAGTACTAAATGTTAAGGAAC
43872358 GCCTTT
1 GCCTTT
43872364 GTGGAAAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (32 bp):
GCCTTTATAGCAAGTACTAAATGTTAAGGAAC
Found at i:43880070 original size:10 final size:10
Alignment explanation
Indices: 43880057--43880243 Score: 110
Period size: 9 Copynumber: 19.1 Consensus size: 10
43880047 TTAAAATAAA
43880057 TAAAAATTAT
1 TAAAAATTAT
*
43880067 TAAAATTTAT
1 TAAAAATTAT
43880077 TAAAAATTTAT
1 TAAAAA-TTAT
*
43880088 TAAAATTTA-
1 TAAAAATTAT
*
43880097 TAAAAAATAT
1 TAAAAATTAT
* *
43880107 T-AAAATAAC
1 TAAAAATTAT
43880116 TAAAAA--AT
1 TAAAAATTAT
43880124 TAATAAA--AT
1 TAA-AAATTAT
**
43880133 TGAAAAAAAAT
1 T-AAAAATTAT
**
43880144 TACTAATTA-
1 TAAAAATTAT
*
43880153 TAGAAAAATAT
1 TA-AAAATTAT
*
43880164 T-AAAATT-G
1 TAAAAATTAT
43880172 TAAAAATTATT
1 TAAAAATTA-T
43880183 TAAAAATT-T
1 TAAAAATTAT
43880192 TAAAAATATAT
1 TAAAAAT-TAT
*
43880203 TAAAATTTA-
1 TAAAAATTAT
43880212 TAAAACATTATT
1 TAAAA-ATTA-T
43880224 TAAAAATT-T
1 TAAAAATTAT
43880233 TAAAAATTAT
1 TAAAAATTAT
43880243 T
1 T
43880244 TGAAATTGCG
Statistics
Matches: 138, Mismatches: 21, Indels: 36
0.71 0.11 0.18
Matches are distributed among these distances:
8 5 0.04
9 57 0.41
10 40 0.29
11 31 0.22
12 5 0.04
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:43880071 original size:19 final size:19
Alignment explanation
Indices: 43880047--43880243 Score: 120
Period size: 20 Copynumber: 10.1 Consensus size: 19
43880037 AAAAATATTT
*
43880047 TTAAAATAAATAAAAATTA
1 TTAAAATATATAAAAATTA
*
43880066 TTAAAATTTATTAAAAATTTA
1 TTAAAATATA-TAAAAA-TTA
* *
43880087 TTAAAATTTATAAAAAATA
1 TTAAAATATATAAAAATTA
43880106 TTAAAATA-ACTAAAAAATTA
1 TTAAAATATA-T-AAAAATTA
* *
43880126 ATAAAAT-TGAAAAAAAATTA
1 TTAAAATAT--ATAAAAATTA
* * *
43880146 CT-AATTATAGAAAAA-TA
1 TTAAAATATATAAAAATTA
*
43880163 TTAAAAT-TGTAAAAATTA
1 TTAAAATATATAAAAATTA
*
43880181 TTTAAAA-ATTTTAAAAATATA
1 -TTAAAATA-TATAAAAAT-TA
*
43880202 TTAAAATTTATAAAACATTA
1 TTAAAATATATAAAA-ATTA
*
43880222 TTTAAAA-ATTTTAAAAATTA
1 -TTAAAATA-TATAAAAATTA
43880242 TT
1 TT
43880244 TGAAATTGCG
Statistics
Matches: 141, Mismatches: 19, Indels: 36
0.72 0.10 0.18
Matches are distributed among these distances:
17 9 0.06
18 12 0.09
19 29 0.21
20 61 0.43
21 29 0.21
22 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
TTAAAATATATAAAAATTA
Found at i:43880083 original size:30 final size:29
Alignment explanation
Indices: 43880043--43880133 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 29
43880033 TTGAAAAAAT
43880043 ATTT-TTAAAATAAATAAAAATTATTAAA
1 ATTTATTAAAATAAATAAAAATTATTAAA
** *
43880071 ATTTATTAAAAATTTATTAAAATT-TATAAA
1 ATTTATT-AAAATAAATAAAAATTAT-TAAA
** * *
43880101 AAATATTAAAATAACTAAAAAATTAATAAA
1 ATTTATTAAAATAAAT-AAAAATTATTAAA
43880131 ATT
1 ATT
43880134 GAAAAAAAAT
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
28 4 0.09
29 9 0.20
30 33 0.72
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (29 bp):
ATTTATTAAAATAAATAAAAATTATTAAA
Found at i:43880084 original size:11 final size:11
Alignment explanation
Indices: 43880057--43880104 Score: 66
Period size: 10 Copynumber: 4.6 Consensus size: 11
43880047 TTAAAATAAA
43880057 TAAAAA-TTAT
1 TAAAAATTTAT
43880067 T-AAAATTTAT
1 TAAAAATTTAT
43880077 TAAAAATTTAT
1 TAAAAATTTAT
43880088 T-AAAATTTAT
1 TAAAAATTTAT
*
43880098 AAAAAAT
1 TAAAAAT
43880105 ATTAAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 4 0.12
10 15 0.44
11 15 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAAAATTTAT
Found at i:43880190 original size:20 final size:20
Alignment explanation
Indices: 43880165--43880262 Score: 101
Period size: 20 Copynumber: 4.9 Consensus size: 20
43880155 GAAAAATATT
43880165 AAAATTGTAAAAATTATTTA
1 AAAATTGTAAAAATTATTTA
*
43880185 AAAATTTTAAAAA-TATATTA
1 AAAATTGTAAAAATTAT-TTA
* *
43880205 AAATTTATAAAACATTATTTA
1 AAAATTGTAAAA-ATTATTTA
*
43880226 AAAATTTTAAAAATTATTT-
1 AAAATTGTAAAAATTATTTA
* **
43880245 GAAATTGCGAAAATTATT
1 AAAATTGTAAAAATTATT
43880263 GTGGCATTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 17 0.26
20 32 0.48
21 14 0.21
22 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (20 bp):
AAAATTGTAAAAATTATTTA
Found at i:43880250 original size:41 final size:40
Alignment explanation
Indices: 43880028--43880243 Score: 162
Period size: 40 Copynumber: 5.5 Consensus size: 40
43880018 AAACATTTTA
** * **
43880028 AAAAATTGAAAAAATATTTTTAAAATAAATAAAAATTA-TT
1 AAAAATTTTAAAAATA-TATTAAAATTTATAAAAATTATTT
* * *
43880068 AAAATTTATTAAAAATTTATTAAAATTTATAAAAAATA-TT
1 AAAAATT-TTAAAAATATATTAAAATTTATAAAAATTATTT
** * * * *
43880108 AAAATAACTAAAAAAT-TAATAAAATTGA-AAAAA--AATT
1 AAAA-ATTTTAAAAATATATTAAAATTTATAAAAATTATTT
** * *
43880145 ACTAATTATAGAAAA-ATATTAAAA-TTGTAAAAATTATTT
1 AAAAATTTTA-AAAATATATTAAAATTTATAAAAATTATTT
43880184 AAAAATTTTAAAAATATATTAAAATTTATAAAACATTATTT
1 AAAAATTTTAAAAATATATTAAAATTTATAAAA-ATTATTT
43880225 AAAAATTTTAAAAAT-TATT
1 AAAAATTTTAAAAATATATT
43880244 TGAAATTGCG
Statistics
Matches: 137, Mismatches: 28, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
36 4 0.03
37 20 0.15
38 9 0.07
39 29 0.21
40 47 0.34
41 28 0.20
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (40 bp):
AAAAATTTTAAAAATATATTAAAATTTATAAAAATTATTT
Found at i:43880607 original size:43 final size:43
Alignment explanation
Indices: 43880538--43880759 Score: 192
Period size: 43 Copynumber: 4.9 Consensus size: 43
43880528 AGTAGTTACA
*
43880538 TAGGAATCAAATTGTTAAAAGATAATATCTTATAATATCTCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTTATAATATCTCAT
* * * * * *
43880581 TAGAAATGAAATTGCTAAGAGATAATATCCTATAATACCCCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTTATAATATCTCAT
* *
43880624 TAGGAATCAAAATGCTAAAAGATAATATATCATAATAATATCTTATAATATCTTAT
1 TAGGAATCAAATTGCTAAAAGAT-A-ATATC---------T-T-ATAATATCTCAT
* * * *
43880680 TAGGAATCAAATTACTAAGAGATAATGTCCTATAATATCTCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTTATAATATCTCAT
* *
43880723 TAGGAATCAAAATGCTAAAAGATAATATCTCATAATA
1 TAGGAATCAAATTGCTAAAAGATAATATCTTATAATA
43880760 ATATCCTAAC
Statistics
Matches: 139, Mismatches: 27, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
43 97 0.70
44 2 0.01
45 5 0.04
54 4 0.03
55 2 0.01
56 29 0.21
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (43 bp):
TAGGAATCAAATTGCTAAAAGATAATATCTTATAATATCTCAT
Found at i:43880730 original size:99 final size:99
Alignment explanation
Indices: 43880559--43880764 Score: 340
Period size: 99 Copynumber: 2.1 Consensus size: 99
43880549 TTGTTAAAAG
* *
43880559 ATAATATCTTATAATATCTCATTAGAAATGAAATTGCTAAGAGATAATATCCTATAATACCCCAT
1 ATAATATCTTATAATATCTCATTAGAAATCAAATTACTAAGAGATAATATCCTATAATACCCCAT
43880624 TAGGAATCAAAATGCTAAAAGATAATATATCATA
66 TAGGAATCAAAATGCTAAAAGATAATATATCATA
* * * * *
43880658 ATAATATCTTATAATATCTTATTAGGAATCAAATTACTAAGAGATAATGTCCTATAATATCTCAT
1 ATAATATCTTATAATATCTCATTAGAAATCAAATTACTAAGAGATAATATCCTATAATACCCCAT
*
43880723 TAGGAATCAAAATGCTAAAAGATAATATCTCATA
66 TAGGAATCAAAATGCTAAAAGATAATATATCATA
43880757 ATAATATC
1 ATAATATC
43880765 CTAACACCCC
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (99 bp):
ATAATATCTTATAATATCTCATTAGAAATCAAATTACTAAGAGATAATATCCTATAATACCCCAT
TAGGAATCAAAATGCTAAAAGATAATATATCATA
Found at i:43883108 original size:42 final size:42
Alignment explanation
Indices: 43883014--43883108 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
43883004 GCTAGGCACA
* *
43883014 AGCCTGATAAAAATTCACCAGCACTACGCCTGCTAGGCTTTT
1 AGCCTGATATAAATTCACCAGCAATACGCCTGCTAGGCTTTT
* * *
43883056 AGCTTAATATAAATTCACCGGCAATACGCCTGCTAGGCTTTT
1 AGCCTGATATAAATTCACCAGCAATACGCCTGCTAGGCTTTT
43883098 AGCCTGATATA
1 AGCCTGATATA
43883109 TCACACCAGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
AGCCTGATATAAATTCACCAGCAATACGCCTGCTAGGCTTTT
Found at i:43883972 original size:11 final size:11
Alignment explanation
Indices: 43883949--43883977 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
43883939 CTTGTTGTTC
43883949 TCTTTTC-TTT
1 TCTTTTCTTTT
43883959 TCTTTTCTTTT
1 TCTTTTCTTTT
43883970 TCTTTTCT
1 TCTTTTCT
43883978 ATATTCGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TCTTTTCTTTT
Found at i:43883972 original size:16 final size:17
Alignment explanation
Indices: 43883946--43883977 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
43883936 AACCTTGTTG
43883946 TTCTCTTTTCTTTTCTT
1 TTCTCTTTTCTTTTCTT
43883963 TTCT-TTTTCTTTTCT
1 TTCTCTTTTCTTTTCT
43883978 ATATTCGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTCTTTTCTTTTCTT
Found at i:43889619 original size:18 final size:17
Alignment explanation
Indices: 43889571--43889622 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
43889561 CCATTTTTAA
*
43889571 TATTCTTTTACAATTTT
1 TATTATTTTACAATTTT
*
43889588 TATTAACTTT-CAATTGTT
1 TATT-ATTTTACAATT-TT
*
43889606 TATTTTTTTACAATTTT
1 TATTATTTTACAATTTT
43889623 AAATATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (17 bp):
TATTATTTTACAATTTT
Found at i:43889632 original size:10 final size:10
Alignment explanation
Indices: 43889619--43889674 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
43889609 TTTTTTACAA
43889619 TTTTAAATAT
1 TTTTAAATAT
43889629 TTTTAAATATT
1 TTTTAAATA-T
*
43889640 TTCTTACA-AT
1 TT-TTAAATAT
43889650 TTTT-AATAAT
1 TTTTAAAT-AT
43889660 TTTTACAATAT
1 TTTTA-AATAT
43889671 TTTT
1 TTTT
43889675 GTTTTGGTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
8 1 0.03
9 2 0.05
10 18 0.47
11 10 0.26
12 7 0.18
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:43889640 original size:30 final size:32
Alignment explanation
Indices: 43889606--43889674 Score: 106
Period size: 30 Copynumber: 2.2 Consensus size: 32
43889596 TTCAATTGTT
43889606 TATTTTTTTACAATTTTAAAT-ATTTTTA-AA
1 TATTTTTTTACAATTTTAAATAATTTTTACAA
* *
43889636 TATTTTCTTACAATTTTTAATAATTTTTACAA
1 TATTTTTTTACAATTTTAAATAATTTTTACAA
43889668 TATTTTT
1 TATTTTT
43889675 GTTTTGGTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 19 0.56
31 7 0.21
32 8 0.24
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (32 bp):
TATTTTTTTACAATTTTAAATAATTTTTACAA
Found at i:43889651 original size:21 final size:19
Alignment explanation
Indices: 43889470--43889673 Score: 112
Period size: 20 Copynumber: 10.9 Consensus size: 19
43889460 TTTGATTTGT
*
43889470 TAATTATTTACTATTTTTAA
1 TAATT-TTTACAATTTTTAA
* *
43889490 TAATTCTTACAAATTTTATA
1 TAATTTTTACAATTTTTA-A
*
43889510 TAATGTTTTATAATTTTTAA
1 TAAT-TTTTACAATTTTTAA
43889530 TAATTTATTTTAC-ATTTTTAAA
1 TAA--T-TTTTACAATTTTT-AA
* *
43889552 TACTTTTTACCATTTTTAA
1 TAATTTTTACAATTTTTAA
* *
43889571 TATTCTTTTACAATTTTTAT
1 TAAT-TTTTACAATTTTTAA
*
43889591 TAA-CTTT-CAATTGTTT-A
1 TAATTTTTACAATT-TTTAA
* *
43889608 T-TTTTTTACAATTTTAAA
1 TAATTTTTACAATTTTTAA
43889626 T-ATTTTTA-AA----T-A
1 TAATTTTTACAATTTTTAA
43889638 T--TTTCTTACAATTTTTAA
1 TAATTT-TTACAATTTTTAA
43889656 TAATTTTTACAATATTTT
1 TAATTTTTACAAT-TTTT
43889674 TGTTTTGGTC
Statistics
Matches: 143, Mismatches: 20, Indels: 42
0.70 0.10 0.20
Matches are distributed among these distances:
11 3 0.02
12 5 0.03
13 2 0.01
17 14 0.10
18 21 0.15
19 28 0.20
20 43 0.30
21 17 0.12
22 10 0.07
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (19 bp):
TAATTTTTACAATTTTTAA
Found at i:43889674 original size:21 final size:22
Alignment explanation
Indices: 43889619--43889674 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
43889609 TTTTTTACAA
*
43889619 TTTTA-AATATTTTTAAATATT
1 TTTTACAATATTTTTAAATAAT
43889640 TTCTTAC-A-ATTTTT-AATAAT
1 TT-TTACAATATTTTTAAATAAT
43889660 TTTTACAATATTTTT
1 TTTTACAATATTTTT
43889675 GTTTTGGTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
19 4 0.13
20 8 0.27
21 14 0.47
22 4 0.13
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTACAATATTTTTAAATAAT
Found at i:43889882 original size:93 final size:94
Alignment explanation
Indices: 43889738--43889909 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 94
43889728 CGGTCACATC
* * * *
43889738 AACAGTCAATAAGGACACGTGGTGTGCTCTGATTGGTTGTTGATTTTTTTTAACCTTATTAATGG
1 AACAGTCAATAAGGACACATGGTATGCTCTGATTGGTTATTGATTTTTTTTAACCATATTAATGG
43889803 CAGGGGGC-AAAAAGTCATCGATGATATT
66 CAGGGGGCTAAAAAGTCATCGATGATATT
* * * *
43889831 AACAGTCAATAGGGACACATGGTATGTTCTGATTGGTTATTGATTTTTTTTAATCATGTTAATGG
1 AACAGTCAATAAGGACACATGGTATGCTCTGATTGGTTATTGATTTTTTTTAACCATATTAATGG
*
43889896 CATGGGGCTAAAAA
66 CAGGGGGCTAAAAA
43889910 ATATAACACA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
93 64 0.93
94 5 0.07
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (94 bp):
AACAGTCAATAAGGACACATGGTATGCTCTGATTGGTTATTGATTTTTTTTAACCATATTAATGG
CAGGGGGCTAAAAAGTCATCGATGATATT
Found at i:43894007 original size:31 final size:31
Alignment explanation
Indices: 43893950--43894041 Score: 105
Period size: 31 Copynumber: 3.0 Consensus size: 31
43893940 ATGATCATTA
**
43893950 AACTATTCAAAAATTTTCATCCAAGTC-CTTG
1 AACTATTCAAAAATTTTCATTTAAGTCAC-TG
*
43893981 AACTATTCTAAAATTTTCATTTAAGTCACTG
1 AACTATTCAAAAATTTTCATTTAAGTCACTG
* * * *
43894012 AATTATTGAAAAGTTTTTATTTAAGTCACT
1 AACTATTCAAAAATTTTCATTTAAGTCACT
43894042 AGGATGTTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 51 0.98
32 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (31 bp):
AACTATTCAAAAATTTTCATTTAAGTCACTG
Found at i:43909218 original size:50 final size:50
Alignment explanation
Indices: 43909089--43909280 Score: 208
Period size: 50 Copynumber: 3.8 Consensus size: 50
43909079 TGCCTATAAA
* * * * * *
43909089 CACGTGTGAAGTACTAAGTGCAGGCTACAACGTGTATCG-ATAGATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAAG-T-TTGGT
* * * * *
43909140 CACATGTGTAGTACTATGTACAGGCTACTATGTGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAAG-TTTGGT
* *
43909191 CACGTGTGT-GTACTATGTGCAGGCTACTACGTGAACCGAAAAGTTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAAGTTTGGT
* *
43909240 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
43909281 TGATAATAAT
Statistics
Matches: 118, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 14 0.12
50 57 0.48
51 44 0.37
52 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAAGTTTGGT
Found at i:43917041 original size:15 final size:15
Alignment explanation
Indices: 43916998--43917043 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
43916988 TCTTCATAAA
*
43916998 TTTAG-AATTTAATG
1 TTTAGTAATTTAATT
* *
43917012 TTT-GTATTTTTATT
1 TTTAGTAATTTAATT
43917026 TTTAGTAATTTAATT
1 TTTAGTAATTTAATT
43917041 TTT
1 TTT
43917044 TTATTTTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
13 1 0.04
14 12 0.48
15 12 0.48
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (15 bp):
TTTAGTAATTTAATT
Found at i:43919493 original size:40 final size:39
Alignment explanation
Indices: 43919462--43919671 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
43919452 GGACTAAGAT
* *
43919462 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
43919502 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
43919542 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
43919582 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
43919622 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
43919661 CCGAAGGCATT
1 CCGAAGGCATT
43919672 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:43919625 original size:120 final size:120
Alignment explanation
Indices: 43919409--43919671 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
43919399 TTGAATGCTG
* *
43919409 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
43919473 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
43919529 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
43919592 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
43919648 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
43919672 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:43919691 original size:79 final size:80
Alignment explanation
Indices: 43919410--43919706 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
43919400 TGAATGCTGT
* ** * * * **
43919410 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
43919473 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
43919490 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
43919554 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
43919570 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
43919634 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
43919649 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
43919707 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:43926341 original size:39 final size:39
Alignment explanation
Indices: 43926177--43926359 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
43926167 TTGAATGCTG
* * * * * * *
43926177 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
43926217 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
43926257 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
43926297 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
43926336 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
43926360 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:43926379 original size:79 final size:80
Alignment explanation
Indices: 43926213--43926394 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
43926203 GCTAAGTGAA
* * * *
43926213 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
43926277 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
43926293 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
43926357 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
43926372 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
43926395 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:43928580 original size:9 final size:9
Alignment explanation
Indices: 43928563--43928599 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
43928553 TGAGTTTTCG
43928563 AATTCGAAT
1 AATTCGAAT
*
43928572 AACTCGAAT
1 AATTCGAAT
43928581 AATTCGAAT
1 AATTCGAAT
43928590 AATTCGAAT
1 AATTCGAAT
43928599 A
1 A
43928600 TAAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:43928817 original size:30 final size:31
Alignment explanation
Indices: 43928782--43928843 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
43928772 AAAACCTTTT
* *
43928782 ATTTTCCCTC-AAAATTTTTACTCCC-TCCC
1 ATTTTTCCTCTAAAACTTTTACTCCCTTCCC
*
43928811 ATTTTTCCTCTAAAACTTTTATTCCCTTCCC
1 ATTTTTCCTCTAAAACTTTTACTCCCTTCCC
43928842 AT
1 AT
43928844 CCCACCTCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 9 0.32
30 13 0.46
31 6 0.21
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (31 bp):
ATTTTTCCTCTAAAACTTTTACTCCCTTCCC
Found at i:43929998 original size:25 final size:25
Alignment explanation
Indices: 43929968--43930027 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
43929958 CTTAAACCAA
43929968 ACTTTTCAAAGTGTTTCTTAAAAGC
1 ACTTTTCAAAGTGTTTCTTAAAAGC
43929993 ACTTTTCAAAGTGTTTCTTAAAAGC
1 ACTTTTCAAAGTGTTTCTTAAAAGC
43930018 ACTTTTCAAA
1 ACTTTTCAAA
43930028 AGTAATGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (25 bp):
ACTTTTCAAAGTGTTTCTTAAAAGC
Found at i:43935094 original size:18 final size:18
Alignment explanation
Indices: 43935061--43935113 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
43935051 ATTCACCTAA
*
43935061 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
43935080 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
43935098 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
43935114 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:43935235 original size:9 final size:9
Alignment explanation
Indices: 43935217--43935256 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
43935207 GTAGTGATTC
43935217 AATTCGGTT
1 AATTCGGTT
*
43935226 AATTCAGTT
1 AATTCGGTT
*
43935235 AATTCGGGT
1 AATTCGGTT
43935244 AATTCGGTT
1 AATTCGGTT
43935253 AATT
1 AATT
43935257 TTTAACTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:43939678 original size:13 final size:13
Alignment explanation
Indices: 43939660--43939687 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43939650 ATCAGTCTAT
43939660 CAACGAGTGGGTA
1 CAACGAGTGGGTA
43939673 CAACGAGTGGGTA
1 CAACGAGTGGGTA
43939686 CA
1 CA
43939688 TGACTGACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.18, G:0.36, T:0.14
Consensus pattern (13 bp):
CAACGAGTGGGTA
Found at i:43941544 original size:51 final size:51
Alignment explanation
Indices: 43941420--43941555 Score: 195
Period size: 50 Copynumber: 2.7 Consensus size: 51
43941410 AGTGAAAGTG
* *
43941420 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGTAGGCTACTACATGTACCAGAATGAT
* * * *
43941471 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACATGTATC-GAATGGT
1 ATGGTCACATGTGTAGTACTATGTGTAGGCTACTACATGTACCAGAATGAT
43941520 AATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
43941556 TGTGAACCAA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 6 0.08
50 37 0.49
51 32 0.43
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGTAGGCTACTACATGTACCAGAATGAT
Found at i:43942065 original size:9 final size:10
Alignment explanation
Indices: 43942044--43942068 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43942034 CTGACTTTAG
43942044 AAAATTGTAA
1 AAAATTGTAA
43942054 AAAATTGTAA
1 AAAATTGTAA
43942064 AAAAT
1 AAAAT
43942069 AATTATGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (10 bp):
AAAATTGTAA
Found at i:43947199 original size:29 final size:29
Alignment explanation
Indices: 43947172--43947395 Score: 335
Period size: 29 Copynumber: 7.8 Consensus size: 29
43947162 TTGCAAAATT
* * *
43947172 TGCCACAAAGGCTTTCATTTTCATAAATA
1 TGCCACAAAGGCTTCCATTTTCTTAGATA
* * *
43947201 CGCCACAAAGGCTTCAATTTTCTTA-ATT
1 TGCCACAAAGGCTTCCATTTTCTTAGATA
*
43947229 TTCCACAAAGGCTTCCATTTTCTTAGATA
1 TGCCACAAAGGCTTCCATTTTCTTAGATA
43947258 TGCCACAAAGGCTTCCATTTTCTTAGATA
1 TGCCACAAAGGCTTCCATTTTCTTAGATA
43947287 TGCCACAAAGGCTTCCATTTTCTTAGATA
1 TGCCACAAAGGCTTCCATTTTCTTAGATA
* *
43947316 TGTCACAAAGGCTTCTATTTTCTTAGAT-
1 TGCCACAAAGGCTTCCATTTTCTTAGATA
*
43947344 TGCCACAAAGTCTTCCATTTTCTTAGATA
1 TGCCACAAAGGCTTCCATTTTCTTAGATA
*
43947373 TGCCACAAAGACTTCCATTTTCT
1 TGCCACAAAGGCTTCCATTTTCT
43947396 GACGTGTTCA
Statistics
Matches: 177, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
28 49 0.28
29 128 0.72
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (29 bp):
TGCCACAAAGGCTTCCATTTTCTTAGATA
Found at i:43947235 original size:57 final size:58
Alignment explanation
Indices: 43947169--43947395 Score: 341
Period size: 57 Copynumber: 3.9 Consensus size: 58
43947159 CTTTTGCAAA
* * * * *
43947169 ATTTGCCACAAAGGCTTTCATTTTCATAAATACGCCACAAAGGCTTCAATTTTCTTA-
1 ATTTGCCACAAAGGCTTCCATTTTCTTAGATATGCCACAAAGGCTTCCATTTTCTTAG
*
43947226 ATTTTCCACAAAGGCTTCCATTTTCTTAGATATGCCACAAAGGCTTCCATTTTCTTAG
1 ATTTGCCACAAAGGCTTCCATTTTCTTAGATATGCCACAAAGGCTTCCATTTTCTTAG
* * *
43947284 ATATGCCACAAAGGCTTCCATTTTCTTAGATATGTCACAAAGGCTTCTATTTTCTTAG
1 ATTTGCCACAAAGGCTTCCATTTTCTTAGATATGCCACAAAGGCTTCCATTTTCTTAG
* *
43947342 A-TTGCCACAAAGTCTTCCATTTTCTTAGATATGCCACAAAGACTTCCATTTTCT
1 ATTTGCCACAAAGGCTTCCATTTTCTTAGATATGCCACAAAGGCTTCCATTTTCT
43947396 GACGTGTTCA
Statistics
Matches: 154, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
57 99 0.64
58 55 0.36
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.37
Consensus pattern (58 bp):
ATTTGCCACAAAGGCTTCCATTTTCTTAGATATGCCACAAAGGCTTCCATTTTCTTAG
Found at i:43947279 original size:86 final size:86
Alignment explanation
Indices: 43947171--43947395 Score: 337
Period size: 86 Copynumber: 2.6 Consensus size: 86
43947161 TTTGCAAAAT
* * * * * *
43947171 TTGCCACAAAGGCTTTCATTTTCATAAATACGCCACAAAGGCTTCAATTTTCTTA-AT-TTTCCA
1 TTGCCACAAAGGCTTCCATTTTCTTAGATATGCCACAAAGGCTTCCATTTTCTTAGATATGT-CA
43947234 CAAAGGCTTCCATTTTCTTAGA
65 CAAAGGCTTCCATTTTCTTAGA
43947256 TATGCCACAAAGGCTTCCATTTTCTTAGATATGCCACAAAGGCTTCCATTTTCTTAGATATGTCA
1 T-TGCCACAAAGGCTTCCATTTTCTTAGATATGCCACAAAGGCTTCCATTTTCTTAGATATGTCA
*
43947321 CAAAGGCTTCTATTTTCTTAGA
65 CAAAGGCTTCCATTTTCTTAGA
* *
43947343 TTGCCACAAAGTCTTCCATTTTCTTAGATATGCCACAAAGACTTCCATTTTCT
1 TTGCCACAAAGGCTTCCATTTTCTTAGATATGCCACAAAGGCTTCCATTTTCT
43947396 GACGTGTTCA
Statistics
Matches: 128, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
85 1 0.01
86 99 0.77
87 26 0.20
88 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (86 bp):
TTGCCACAAAGGCTTCCATTTTCTTAGATATGCCACAAAGGCTTCCATTTTCTTAGATATGTCAC
AAAGGCTTCCATTTTCTTAGA
Found at i:43947323 original size:115 final size:115
Alignment explanation
Indices: 43947172--43947395 Score: 351
Period size: 115 Copynumber: 1.9 Consensus size: 115
43947162 TTGCAAAATT
* *
43947172 TGCCACAAAGGCTTTCATTTTCATAAATACGCCACAAAGGCTTCAATTTTCTTA-ATTTTCCACA
1 TGCCACAAAGGCTTCCATTTTCATAAATACGCCACAAAGGCTTCAATTTTCTTAGA-TTGCCACA
*
43947236 AAGGCTTCCATTTTCTTAGATATGCCACAAAGGCTTCCATTTTCTTAGATA
65 AAGGCTTCCATTTTCTTAGATATGCCACAAAGACTTCCATTTTCTTAGATA
* * * * *
43947287 TGCCACAAAGGCTTCCATTTTCTTAGATATGTCACAAAGGCTTCTATTTTCTTAGATTGCCACAA
1 TGCCACAAAGGCTTCCATTTTCATAAATACGCCACAAAGGCTTCAATTTTCTTAGATTGCCACAA
*
43947352 AGTCTTCCATTTTCTTAGATATGCCACAAAGACTTCCATTTTCT
66 AGGCTTCCATTTTCTTAGATATGCCACAAAGACTTCCATTTTCT
43947396 GACGTGTTCA
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
115 98 0.99
116 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (115 bp):
TGCCACAAAGGCTTCCATTTTCATAAATACGCCACAAAGGCTTCAATTTTCTTAGATTGCCACAA
AGGCTTCCATTTTCTTAGATATGCCACAAAGACTTCCATTTTCTTAGATA
Found at i:43951756 original size:23 final size:22
Alignment explanation
Indices: 43951648--43951755 Score: 132
Period size: 23 Copynumber: 5.0 Consensus size: 22
43951638 CTGATCAGTA
*
43951648 TACGACACAT-AAGTGCCT-AA
1 TACGACACATAAAGTGCCTGAG
* ** *
43951668 AACGACACACGAGGTGCCTGA-
1 TACGACACATAAAGTGCCTGAG
43951689 TACGACACATAAAGTGCCTGAG
1 TACGACACATAAAGTGCCTGAG
43951711 ATACGACACATAAAGTGCCTGATG
1 -TACGACACATAAAGTGCCTGA-G
43951735 TACGACACATAAAGTGCCTGA
1 TACGACACATAAAGTGCCTGA
43951756 TTGGCTCTTC
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.11
21 24 0.32
22 1 0.01
23 42 0.55
24 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (22 bp):
TACGACACATAAAGTGCCTGAG
Found at i:43952832 original size:3 final size:3
Alignment explanation
Indices: 43952824--43952873 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
43952814 ATTCATTAGT
* *
43952824 TAA TAA TAA TAA TAA TAA TAA TAA TATA TTA TAA TAA TCA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
43952869 TAA TA
1 TAA TA
43952874 TTTTATTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:43953067 original size:16 final size:17
Alignment explanation
Indices: 43953031--43953067 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
43953021 TAATATAATT
43953031 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
43953048 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
43953063 TATAA
1 TATAA
43953068 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:43957891 original size:187 final size:188
Alignment explanation
Indices: 43957517--43957896 Score: 708
Period size: 187 Copynumber: 2.0 Consensus size: 188
43957507 TTTCTTCTGG
* *
43957517 AATTCTTTTTGAAATAAGTCCCATGTCACCTGTTCTGTAGGCAGATGTCGTATTACAGATTCCCA
1 AATTCTTTTTGAAATAAGTCCCATGTCACCTATTCTATAGGCAGATGTCGTATTACAGATTCCCA
*
43957582 CCGCAAATATGCTTCTCCTTGCAGTAGAGAAACAACACAGATCAAGCTCTCTCGGGGGGTACATT
66 CCACAAATATGCTTCTCCTTGCAGTAGAGAAACAACACAGATCAAGCTCTCTCGGGGGGTACATT
43957647 CTAATTGCTGCAGAACTCGTTTAGTTGATTCCATCCACTTCTCTGCAGTGGATGGATC
131 CTAATTGCTGCAGAACTCGTTTAGTTGATTCCATCCACTTCTCTGCAGTGGATGGATC
*
43957705 AATTCTTTTTGAAATAAGTCTCATGTCACCTATTCTATAGGCAGATGTCGTATTACAGATTCCCA
1 AATTCTTTTTGAAATAAGTCCCATGTCACCTATTCTATAGGCAGATGTCGTATTACAGATTCCCA
*
43957770 CCACAAATATGCTTCTCCTTGCAGTAGAGAAA-AACACAGATCAAGCTTTCTCGGGGGGTACATT
66 CCACAAATATGCTTCTCCTTGCAGTAGAGAAACAACACAGATCAAGCTCTCTCGGGGGGTACATT
43957834 CTAATTGCTGCAGAACTCGTTTAGTTGATTCCATCCACTTCTCTGCAGTGGATGGATC
131 CTAATTGCTGCAGAACTCGTTTAGTTGATTCCATCCACTTCTCTGCAGTGGATGGATC
43957892 AATTC
1 AATTC
43957897 CCTTCAAAAC
Statistics
Matches: 187, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
187 94 0.50
188 93 0.50
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (188 bp):
AATTCTTTTTGAAATAAGTCCCATGTCACCTATTCTATAGGCAGATGTCGTATTACAGATTCCCA
CCACAAATATGCTTCTCCTTGCAGTAGAGAAACAACACAGATCAAGCTCTCTCGGGGGGTACATT
CTAATTGCTGCAGAACTCGTTTAGTTGATTCCATCCACTTCTCTGCAGTGGATGGATC
Found at i:43959513 original size:23 final size:23
Alignment explanation
Indices: 43959398--43959512 Score: 187
Period size: 23 Copynumber: 5.0 Consensus size: 23
43959388 CGAGGTGAAT
43959398 GATACGACACATAAAGTGCCTGA
1 GATACGACACATAAAGTGCCTGA
43959421 GATACGACACATAAAGTGCCTGA
1 GATACGACACATAAAGTGCCTGA
43959444 GATACGACACATAAAGTGCCTGA
1 GATACGACACATAAAGTGCCTGA
*
43959467 GATACGACATATAAAGTGCCTGA
1 GATACGACACATAAAGTGCCTGA
* *
43959490 TG-TACAACACATAAAGTGTCTGA
1 -GATACGACACATAAAGTGCCTGA
43959513 TCGGCAAAGT
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
23 86 0.99
24 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (23 bp):
GATACGACACATAAAGTGCCTGA
Found at i:43960569 original size:17 final size:17
Alignment explanation
Indices: 43960547--43960581 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
43960537 GAATGGTCTC
*
43960547 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
43960564 TGTTTCTTTTATTCTTT
1 TGTTTCTTTTATTCTTT
43960581 T
1 T
43960582 ATTTTATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.06, T:0.77
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:43960588 original size:13 final size:14
Alignment explanation
Indices: 43960570--43960598 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43960560 CTTTTGTTTC
43960570 TTTTATT-CTTTTA
1 TTTTATTCCTTTTA
43960583 TTTTATTCCTTTTA
1 TTTTATTCCTTTTA
43960597 TT
1 TT
43960599 CATTAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATTCCTTTTA
Found at i:43960838 original size:16 final size:17
Alignment explanation
Indices: 43960802--43960838 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
43960792 TAATATAATT
43960802 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
43960819 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
43960834 TATAA
1 TATAA
43960839 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:43964557 original size:515 final size:523
Alignment explanation
Indices: 43963528--43964568 Score: 1409
Period size: 515 Copynumber: 2.0 Consensus size: 523
43963518 AAATTTCGAG
* * *
43963528 AAAATTCATTCAATATGTCACAACTCAACATGTTCACTATGACCAAATGATTTATTTTCATTTTT
1 AAAATTCATTCAATATGTCAAAACTCAACATATTCACTATGACCAAATGATTTATTTTCATTTTC
* * * * *
43963593 GATCTTTAAAACAGTCCAAAAATATAAACTTATTTTTTCATCATTTTTTAACTAATCCTATATAG
66 GAGCTTCAAAACAGTCCAAAAACATAAACTCATTCTTTCATCATTTTTTAACTAATCCTATATAG
* * * *
43963658 GATTAGGATCACAAGTTTTCCTTTTCCTTTTTATTTCTATTTCCATTTCCATTTTTGGAAACCTA
131 GATTA-G---ACAAGTTTTCCTATT-CTTTATATTTCTATTTCCATTTCAATTTTTAGAAACCTA
* *
43963723 CATTCATTTCCAAATGATTTCATTTTTCCATTTTGAAGAAAACCATAATCATTCCTGAATGTTTC
191 CATTCATTTCCAAATGATTCCATTTTTCCATTTCGAAGAAAACCATAATCATTCCTGAATGTTTC
* * * *
43963788 TCATTTCTCTTTTTCTATTCATTTCGTTCATTTCTATTCAAACACGAAATTCATTTATGCTTTTA
256 CCATTTCTCTTTCTCTATTCATTCCGTTCATTTCTATTCAAACACGAAATTCATTTATGCTTTCA
** * **
43963853 ACGAGCTAGTAGAGGGATTGATTGGACATATGTGGTTGAGGCTCAAATGATTTATAATTAAGTTT
321 ACGAGCTAACAGAGGAACCGATTGGACATATGTGGTTGAGGCTCAAATGATTTATAATTAAGTTT
* * * ***
43963918 TGGCTTTTCGTCTATTAATTAAAAACTCACTTAGTCATGCAGTCATTCCACTATAGTATCGTGAC
386 TGACATTTCGCCTATTAATTAAAAACTCACTTAGTCACAAAGTCATTCCACTATAGTATCGTGAC
* * * ** * * *
43963983 TAAGCTCTTCCCAACAACATACCGTTACTAAAACAACTACTCAGTGCTCATCTAATGACCTTGTT
451 TAAGCTCTCCCCAACAACATACCATTACGAAAACAACTAAACAGTACTCATCCAATGACCTTGTC
43964048 ATAAGTGT
516 ATAAGTGT
43964056 AAAATTCATTCAATATGTCAAAACTCAACATATTCACTATGACCAAATGATTTATTTTCATTTTC
1 AAAATTCATTCAATATGTCAAAACTCAACATATTCACTATGACCAAATGATTTATTTTCATTTTC
** * *
43964121 GAGCTTCAAAACAGTTTAAAAACGTAAACTCATTCTTTCATCA-TTTTTAAGTAATCCTATATAG
66 GAGCTTCAAAACAGTCCAAAAACATAAACTCATTCTTTCATCATTTTTTAACTAATCCTATATAG
* **
43964185 GATT-G-CAAG-TTTCC-ATT-TTTAT-TTTC-ATTTCCATTTTAATTTTTAGAAATGTACATTC
131 GATTAGACAAGTTTTCCTATTCTTTATATTTCTATTTCCATTTCAATTTTTAGAAACCTACATTC
* * *
43964243 ATTTCTAAATGATTCCATTTTTCTATTTCGAAGAAAACCATAA-CTATTCCTGAGTGTTTCCCAT
196 ATTTCCAAATGATTCCATTTTTCCATTTCGAAGAAAACCATAATC-ATTCCTGAATGTTTCCCAT
* * * * *
43964307 TTCTCTTTCTCTATTTATTCCGTTCATTTTTATTCAAACACGCAATTCATTTCTGGTTTCAACGA
260 TTCTCTTTCTCTATTCATTCCGTTCATTTCTATTCAAACACGAAATTCATTTATGCTTTCAACGA
* *
43964372 GCTAACGGAGGAACCGATTGGACATATGTGGTTGAGGCTTAAATGATTTATAATTAAGTTTTGAC
325 GCTAACAGAGGAACCGATTGGACATATGTGGTTGAGGCTCAAATGATTTATAATTAAGTTTTGAC
* *
43964437 ATTTCGCCTCTTAATTAAAAACTCA-TCTAGTCACAAAGTCATTCCACTATAGTATCGTGACTGA
390 ATTTCGCCTATTAATTAAAAACTCACT-TAGTCACAAAGTCATTCCACTATAGTATCGTGACTAA
** * *
43964501 GCTCTCCCCAACGTCATACCATTACGAAAGCAACTAAACAGTACTCGTCCAATGACCTTGTCATA
454 GCTCTCCCCAACAACATACCATTACGAAAACAACTAAACAGTACTCATCCAATGACCTTGTCATA
43964566 AGT
519 AGT
43964569 ATGTTGCCCT
Statistics
Matches: 451, Mismatches: 60, Indels: 17
0.85 0.11 0.03
Matches are distributed among these distances:
514 2 0.00
515 308 0.68
516 4 0.01
517 4 0.01
519 2 0.00
520 5 0.01
521 4 0.01
525 1 0.00
527 24 0.05
528 97 0.22
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (523 bp):
AAAATTCATTCAATATGTCAAAACTCAACATATTCACTATGACCAAATGATTTATTTTCATTTTC
GAGCTTCAAAACAGTCCAAAAACATAAACTCATTCTTTCATCATTTTTTAACTAATCCTATATAG
GATTAGACAAGTTTTCCTATTCTTTATATTTCTATTTCCATTTCAATTTTTAGAAACCTACATTC
ATTTCCAAATGATTCCATTTTTCCATTTCGAAGAAAACCATAATCATTCCTGAATGTTTCCCATT
TCTCTTTCTCTATTCATTCCGTTCATTTCTATTCAAACACGAAATTCATTTATGCTTTCAACGAG
CTAACAGAGGAACCGATTGGACATATGTGGTTGAGGCTCAAATGATTTATAATTAAGTTTTGACA
TTTCGCCTATTAATTAAAAACTCACTTAGTCACAAAGTCATTCCACTATAGTATCGTGACTAAGC
TCTCCCCAACAACATACCATTACGAAAACAACTAAACAGTACTCATCCAATGACCTTGTCATAAG
TGT
Found at i:43966682 original size:39 final size:39
Alignment explanation
Indices: 43966625--43967374 Score: 393
Period size: 39 Copynumber: 19.5 Consensus size: 39
43966615 CACGGTTCGC
* * * *
43966625 TGATTTATGATCATGACCTTTAGCTTTCTTACGATTCGT
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGATCCGT
* * * *
43966664 TGATTCACGATCACGACCTTCGGCTTTCTTA-GGTCCAT
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGATCCGT
* * * *
43966702 TGATTTACGATCATGACCTTTGGATTTCTTACGGTCCGC
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGATCCGT
* * * * *
43966741 TGATTCACGATTACAACCTTTGACTTTCTTAC-AGTTCGT
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGA-TCCGT
* * * * **
43966780 TGATTTATGATCATGACCTTTGGCTTTCTTACGGTTCAC
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGATCCGT
* * * ** **
43966819 TGAATCACGATCATGACCTTTAACTTTCTTAAAATCCGT
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGATCCGT
* **
43966858 TGATTTATGATCACGACCTTTGGCTTTCTTAC-AGTCCAC
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGA-TCCGT
* * * **
43966897 TGATTTATGATCACGACCTTCT-ACTTTCTTACGGTATGT
1 TGATTTACGATCACGACCTT-TGGCTTTCTTACGATCCGT
* * * * * ** **
43966936 TAATTTATGATCATGACCTTCGGCTTTCTTATGGCCCAC
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGATCCGT
* * * * **
43966975 TAATTTACGATCATGATCTTCGGCTTTCTTACGGA-CTAT
1 TGATTTACGATCACGACCTTTGGCTTTCTTAC-GATCCGT
* * * * * *
43967014 TGATTTGA-GATCATGTCCTTCGGGTTTCCTAC-AGTCCAT
1 TGATTT-ACGATCACGACCTTTGGCTTTCTTACGA-TCCGT
* *** *
43967053 TGATTTACAATCACGACCTTCAACTTTCTTACGGTCCGT
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGATCCGT
* *
43967092 TGATTTACGATCACGACCTTCGACTTTCTTAC-AGTCCGT
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGA-TCCGT
* * **** * * *
43967131 TAATTTACGATCATGACCTTCAATTTTCTTATGGTCCAT
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGATCCGT
* * * * * * * * *
43967170 TTATTTATGGTCACGACCTTCGACTTTCTCATGGTCCAT
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGATCCGT
*
43967209 TGATTTACGATCACGGCCTTTGGCCTTT-TT---A--CG-
1 TGATTTACGATCACGACCTTTGG-CTTTCTTACGATCCGT
* * ** * *
43967242 -G-TTTATGATCAAGACCTTCAGCTTTCTTACTG-TCTGC
1 TGATTTACGATCACGACCTTTGGCTTTCTTAC-GATCCGT
* * * *
43967279 TAATTTACGATCACGACCTTTGACTTTCTTACGGTCCAT
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGATCCGT
* * * **
43967318 TGATTTACGATTACGACCTTTGGCTTTTTTACGAACCAC
1 TGATTTACGATCACGACCTTTGGCTTTCTTACGATCCGT
43967357 TGATTTACGATCACGACC
1 TGATTTACGATCACGACC
43967375 ATTAGTTTTT
Statistics
Matches: 546, Mismatches: 138, Indels: 54
0.74 0.19 0.07
Matches are distributed among these distances:
30 4 0.01
31 17 0.03
32 1 0.00
34 1 0.00
36 1 0.00
37 1 0.00
38 34 0.06
39 480 0.88
40 7 0.01
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (39 bp):
TGATTTACGATCACGACCTTTGGCTTTCTTACGATCCGT
Found at i:43966811 original size:78 final size:78
Alignment explanation
Indices: 43966619--43967374 Score: 478
Period size: 78 Copynumber: 9.8 Consensus size: 78
43966609 AAATCTCACG
* * * * **
43966619 GTTCGCTGATTTATGATCATGACCTTTAGCTTTCTTACGATTCGTTGATTCACGATCACGACCTT
1 GTTCGTTGATTTATGATCATGACCTTTGGCTTTCTTACGGTCCACTGATTCACGATCACGACCTT
* * *
43966684 CGGCTTTCTTA-G
66 TGACTTTCTTACA
* * * * * * *
43966696 GTCCATTGATTTACGATCATGACCTTTGGATTTCTTACGGTCCGCTGATTCACGATTACAACCTT
1 GTTCGTTGATTTATGATCATGACCTTTGGCTTTCTTACGGTCCACTGATTCACGATCACGACCTT
43966761 TGACTTTCTTACA
66 TGACTTTCTTACA
* * *
43966774 GTTCGTTGATTTATGATCATGACCTTTGGCTTTCTTACGGTTCACTGAATCACGATCATGACCTT
1 GTTCGTTGATTTATGATCATGACCTTTGGCTTTCTTACGGTCCACTGATTCACGATCACGACCTT
* *
43966839 TAACTTTCTTAAA
66 TGACTTTCTTACA
* * * * * *
43966852 ATCCGTTGATTTATGATCACGACCTTTGGCTTTCTTACAGTCCACTGATTTATGATCACGACCTT
1 GTTCGTTGATTTATGATCATGACCTTTGGCTTTCTTACGGTCCACTGATTCACGATCACGACCTT
*
43966917 CT-ACTTTCTTACG
66 -TGACTTTCTTACA
* * * * * * * *
43966930 GTAT-GTTAATTTATGATCATGACCTTCGGCTTTCTTATGGCCCACTAATTTACGATCATGATCT
1 GT-TCGTTGATTTATGATCATGACCTTTGGCTTTCTTACGGTCCACTGATTCACGATCACGACCT
* *
43966994 TCGGCTTTCTTAC-
65 TTGACTTTCTTACA
** * * * * * * * * *
43967007 GGACTATTGATTTGA-GATCATGTCCTTCGGGTTTCCTACAGTCCATTGATTTACAATCACGACC
1 GTTC-GTTGATTT-ATGATCATGACCTTTGGCTTTCTTACGGTCCACTGATTCACGATCACGACC
** *
43967071 TTCAACTTTCTTACG
64 TTTGACTTTCTTACA
* * * * * * ** * * *
43967086 GTCCGTTGATTTACGATCACGACCTTCGACTTTCTTACAGTCCGTTAATTTACGATCATGACCTT
1 GTTCGTTGATTTATGATCATGACCTTTGGCTTTCTTACGGTCCACTGATTCACGATCACGACCTT
** * **
43967151 CAATTTTCTTATG
66 TGACTTTCTTACA
* * * * * * * * * * * *
43967164 GTCCATTTATTTATGGTCACGACCTTCGACTTTCTCATGGTCCATTGATTTACGATCACGGCCTT
1 GTTCGTTGATTTATGATCATGACCTTTGGCTTTCTTACGGTCCACTGATTCACGATCACGACCTT
*
43967229 TGGCCTTT-TT--A
66 T-GACTTTCTTACA
* ** * ** * *
43967240 ---CG--G-TTTATGATCAAGACCTTCAGCTTTCTTACTGTCTGCTAATTTACGATCACGACCTT
1 GTTCGTTGATTTATGATCATGACCTTTGGCTTTCTTACGGTCCACTGATTCACGATCACGACCTT
*
43967299 TGACTTTCTTACG
66 TGACTTTCTTACA
* * * * * * ** *
43967312 GTCCATTGATTTACGATTACGACCTTTGGCTTTTTTACGAACCACTGATTTACGATCACGACC
1 GTTCGTTGATTTATGATCATGACCTTTGGCTTTCTTACGGTCCACTGATTCACGATCACGACC
43967375 ATTAGTTTTT
Statistics
Matches: 533, Mismatches: 127, Indels: 37
0.76 0.18 0.05
Matches are distributed among these distances:
69 5 0.01
70 47 0.09
73 1 0.00
75 1 0.00
77 66 0.12
78 406 0.76
79 7 0.01
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (78 bp):
GTTCGTTGATTTATGATCATGACCTTTGGCTTTCTTACGGTCCACTGATTCACGATCACGACCTT
TGACTTTCTTACA
Found at i:43966948 original size:117 final size:116
Alignment explanation
Indices: 43966625--43967374 Score: 481
Period size: 117 Copynumber: 6.5 Consensus size: 116
43966615 CACGGTTCGC
* * * * * * *
43966625 TGATTTATGATCATGACCTTTAGCTTTCTTACGATTCGTTGATTCACGATCACGACCTTCGGCTT
1 TGATTTACGATCACGACCTTTGGCTTTCTTACG-TCCATTGATTTACGATCACGACCTTCGACTT
*** * * * **
43966690 TCTTA-GGTCCATTGATTTACGATCATGACCTTTGGA-TTTCTTACGGTCCGC
65 TCTTACGGTATGTTAATTTACGATCACGACC-TTCGACTTTCTTACGGTCCAT
* * * * * * * * * *
43966741 TGATTCACGATTACAACCTTTGACTTTCTTACAGTTCGTTGATTTATGATCATGACCTTTGGCTT
1 TGATTTACGATCACGACCTTTGGCTTTCTTAC-GTCCATTGATTTACGATCACGACCTTCGACTT
* * ** *** *
43966806 TCTTACGGTTCACTG--AA-TCACGATCATGACCTTTAACTTTCTTAAAATCCGT
65 TCTTACGG-T-A-TGTTAATTTACGATCACGACCTTCGACTTTCTTACGGTCCAT
* * * *
43966858 TGATTTATGATCACGACCTTTGGCTTTCTTACAGTCCACTGATTTATGATCACGACCTTCTACTT
1 TGATTTACGATCACGACCTTTGGCTTTCTTAC-GTCCATTGATTTACGATCACGACCTTCGACTT
* * * * * *
43966923 TCTTACGGTATGTTAATTTATGATCATGACCTTCGGCTTTCTTATGGCCCAC
65 TCTTACGGTATGTTAATTTACGATCACGACCTTCGACTTTCTTACGGTCCAT
* * * * * * * * **
43966975 TAATTTACGATCATGATCTTCGGCTTTCTTACGGACTATTGATTTGA-GATCATGTCCTTCGGGT
1 TGATTTACGATCACGACCTTTGGCTTTCTTAC-GTCCATTGATTT-ACGATCACGACCTTCGACT
* * *** * * * *
43967039 TTCCTACAGTCCATTGATTTACAATCACGACCTTCAACTTTCTTACGGTCCGT
64 TTCTTACGGTATGTTAATTTACGATCACGACCTTCGACTTTCTTACGGTCCAT
* * * * * * *
43967092 TGATTTACGATCACGACCTTCGACTTTCTTACAGTCCGTTAATTTACGATCATGACCTTCAATTT
1 TGATTTACGATCACGACCTTTGGCTTTCTTAC-GTCCATTGATTTACGATCACGACCTTCGACTT
* * * * *
43967157 TCTTATGGTCCAT-TT-ATTTATGGTCACGACCTTCGACTTTCTCATGGTCCAT
65 TCTTACGGT--ATGTTAATTTACGATCACGACCTTCGACTTTCTTACGGTCCAT
* * *
43967209 TGATTTACGATCACGGCCTTTGGCCTTT-TTACG------G-TTTATGATCAAGACCTTC-AGCT
1 TGATTTACGATCACGACCTTTGG-CTTTCTTACGTCCATTGATTTACGATCACGACCTTCGA-CT
* * * *
43967265 TTCTTACTGTCTGCTAATTTACGATCACGACCTTTGACTTTCTTACGGTCCAT
64 TTCTTACGGTATGTTAATTTACGATCACGACCTTCGACTTTCTTACGGTCCAT
* * * *
43967318 TGATTTACGATTACGACCTTTGGCTTTTTTACGAACCACTGATTTACGATCACGACC
1 TGATTTACGATCACGACCTTTGGCTTTCTTACG-TCCATTGATTTACGATCACGACC
43967375 ATTAGTTTTT
Statistics
Matches: 489, Mismatches: 119, Indels: 51
0.74 0.18 0.08
Matches are distributed among these distances:
107 1 0.00
108 6 0.01
109 83 0.17
114 2 0.00
115 1 0.00
116 66 0.13
117 321 0.66
118 9 0.02
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (116 bp):
TGATTTACGATCACGACCTTTGGCTTTCTTACGTCCATTGATTTACGATCACGACCTTCGACTTT
CTTACGGTATGTTAATTTACGATCACGACCTTCGACTTTCTTACGGTCCAT
Found at i:43967361 original size:148 final size:148
Alignment explanation
Indices: 43967095--43967371 Score: 340
Period size: 148 Copynumber: 1.9 Consensus size: 148
43967085 GGTCCGTTGA
* * * *
43967095 TTTACGATCACGACCTTCGACTTTCTTACAGTCCGTTAATTTACGATCATGACCTTCAATTTTCT
1 TTTACGATCAAGACCTTCGACTTTCTTACAGTCCGCTAATTTACGATCACGACCTTCAACTTTCT
* * * * * ** *
43967160 TATGGTCCATTTATTTATGGTCACGACCTTCGACTTTCTCATGGTCCATTGATTTACGATCACGG
66 TACGGTCCATTGATTTACGATCACGACCTTCGACTTTCTCACGAACCACTGATTTACGATCACGG
43967225 CCTTTGGCCTTTTTACGG
131 CCTTTGGCCTTTTTACGG
* * * **
43967243 TTTATGATCAAGACCTTC-AGCTTTCTTACTGTCTGCTAATTTACGATCACGACCTTTGACTTTC
1 TTTACGATCAAGACCTTCGA-CTTTCTTACAGTCCGCTAATTTACGATCACGACCTTCAACTTTC
* * * * *
43967307 TTACGGTCCATTGATTTACGATTACGACCTTTGGCTTTTTTACGAACCACTGATTTACGATCACG
65 TTACGGTCCATTGATTTACGATCACGACCTTCGACTTTCTCACGAACCACTGATTTACGATCACG
43967372 ACCATTAGTT
Statistics
Matches: 106, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
147 1 0.01
148 105 0.99
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (148 bp):
TTTACGATCAAGACCTTCGACTTTCTTACAGTCCGCTAATTTACGATCACGACCTTCAACTTTCT
TACGGTCCATTGATTTACGATCACGACCTTCGACTTTCTCACGAACCACTGATTTACGATCACGG
CCTTTGGCCTTTTTACGG
Found at i:43967385 original size:39 final size:38
Alignment explanation
Indices: 43967281--43967386 Score: 115
Period size: 39 Copynumber: 2.7 Consensus size: 38
43967271 CTGTCTGCTA
* * ** *
43967281 ATTTACGATCACGACCTTTGACTTTCTTACGGTCCATTG
1 ATTTACGATCACGACCTTAG-CTTTTTTACGAACCACTG
* *
43967320 ATTTACGATTACGACCTTTGGCTTTTTTACGAACCACTG
1 ATTTACGATCACGACC-TTAGCTTTTTTACGAACCACTG
43967359 ATTTACGATCACGACCATTAG-TTTTTTA
1 ATTTACGATCACGACC-TTAGCTTTTTTA
43967387 AACAGTTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
38 7 0.12
39 47 0.82
40 3 0.05
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.40
Consensus pattern (38 bp):
ATTTACGATCACGACCTTAGCTTTTTTACGAACCACTG
Found at i:43968507 original size:13 final size:13
Alignment explanation
Indices: 43968489--43968513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43968479 TAATGGTATA
43968489 TTGAATCCATGAT
1 TTGAATCCATGAT
43968502 TTGAATCCATGA
1 TTGAATCCATGA
43968514 AAATTTAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:43970215 original size:47 final size:47
Alignment explanation
Indices: 43970103--43970225 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 47
43970093 AGGATTCTAT
* * * * * *
43970103 GTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGAT
1 GTGATGGATGTGAA-AGTGTATATATGTGACAAGGCCGAATGGCCAAC
* * *
43970150 GTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 GTGATGGATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAAC
*
43970197 GTGATGGATGTGAAAGTGTATAAATGTGA
1 GTGATGGATGTGAAAGTGTATATATGTGA
43970226 TAAGTCCCGA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.02
47 63 0.98
ACGTcount: A:0.32, C:0.10, G:0.33, T:0.26
Consensus pattern (47 bp):
GTGATGGATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAAC
Found at i:43970404 original size:37 final size:37
Alignment explanation
Indices: 43970348--43970426 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43970338 CCGAGCTCTA
* * *
43970348 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43970385 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43970422 AAGAC
1 AAGAC
43970427 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43980162 original size:16 final size:16
Alignment explanation
Indices: 43980141--43980172 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43980131 TAGGATCGGC
43980141 GCCGGAGACTCAATGT
1 GCCGGAGACTCAATGT
*
43980157 GCCGGAGACTCGATGT
1 GCCGGAGACTCAATGT
43980173 ACCACACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.25, G:0.34, T:0.19
Consensus pattern (16 bp):
GCCGGAGACTCAATGT
Found at i:43988131 original size:25 final size:24
Alignment explanation
Indices: 43988098--43988165 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 24
43988088 ATACACGGAA
*
43988098 ATAATGCTCACACAAGTTATAACT
1 ATAATGCTCACACAAGCTATAACT
**
43988122 ATAATTGCTCACATGAGCTATAACT
1 ATAA-TGCTCACACAAGCTATAACT
*
43988147 GTAAATGCTCACACAAGCT
1 AT-AATGCTCACACAAGCT
43988166 GTGAAATGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 4 0.11
25 30 0.83
26 2 0.06
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (24 bp):
ATAATGCTCACACAAGCTATAACT
Found at i:43989965 original size:28 final size:28
Alignment explanation
Indices: 43989921--43990052 Score: 158
Period size: 28 Copynumber: 4.7 Consensus size: 28
43989911 ACGGAGTCCG
**
43989921 CCACAAAGGCTTATTCTTTCATAGTTTG
1 CCACAAAGGCTTATTCTTTCATAGTTCA
* * *
43989949 CCACAAAGGTTTGTTCTTTCATTA-TTCT
1 CCACAAAGGCTTATTCTTTCA-TAGTTCA
*
43989977 CCCCAAAGGCTTATTCTTTCATAGTTCA
1 CCACAAAGGCTTATTCTTTCATAGTTCA
* * *
43990005 CCATAAATGTTTATTCTTTCATAGTTCA
1 CCACAAAGGCTTATTCTTTCATAGTTCA
*
43990033 CCACAAAAGCTTATTCTTTC
1 CCACAAAGGCTTATTCTTTC
43990053 CTGTCATGTT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
27 2 0.02
28 83 0.95
29 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (28 bp):
CCACAAAGGCTTATTCTTTCATAGTTCA
Found at i:43989995 original size:56 final size:56
Alignment explanation
Indices: 43989921--43990052 Score: 176
Period size: 56 Copynumber: 2.4 Consensus size: 56
43989911 ACGGAGTCCG
** * *
43989921 CCACAAAGGCTTATTCTTTCATAGTTTGCCACAAAGGTTTGTTCTTTCATTA-TTCT
1 CCACAAAGGCTTATTCTTTCATAGTTCACCACAAAGGTTTATTCTTTCA-TAGTTCA
* * *
43989977 CCCCAAAGGCTTATTCTTTCATAGTTCACCATAAATGTTTATTCTTTCATAGTTCA
1 CCACAAAGGCTTATTCTTTCATAGTTCACCACAAAGGTTTATTCTTTCATAGTTCA
*
43990033 CCACAAAAGCTTATTCTTTC
1 CCACAAAGGCTTATTCTTTC
43990053 CTGTCATGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
55 2 0.03
56 64 0.97
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (56 bp):
CCACAAAGGCTTATTCTTTCATAGTTCACCACAAAGGTTTATTCTTTCATAGTTCA
Found at i:43991492 original size:25 final size:25
Alignment explanation
Indices: 43991464--43991514 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
43991454 AAAGCTTAAT
*
43991464 TAATTTAACTTAA-GTAACCTAATCA
1 TAATTTAA-TTAACGTAAACTAATCA
*
43991489 TAATTTAATTAACTTAAACTAATCA
1 TAATTTAATTAACGTAAACTAATCA
43991514 T
1 T
43991515 TAATAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (25 bp):
TAATTTAATTAACGTAAACTAATCA
Found at i:43998933 original size:42 final size:41
Alignment explanation
Indices: 43998793--43998954 Score: 234
Period size: 41 Copynumber: 3.9 Consensus size: 41
43998783 AATAATGTTG
* * *
43998793 AATTACACATATGTGCCCCTATTTGTACTTCGGTACCCCTG
1 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTA
*
43998834 AATTGCACATATGTGCCCTTGTTTGTACTTCGGTACCCCTA
1 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
43998875 AATTGCACATATGTGCCCTTTTTTGTACTTTGGTACCCCCTA
1 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTA-CCCCTA
* *
43998917 AATTGCACATACGTGCCCCTGTTTGTACTACGGTACCC
1 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCC
43998955 TTGGATATAC
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 73 0.67
42 36 0.33
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.35
Consensus pattern (41 bp):
AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:43998943 original size:83 final size:82
Alignment explanation
Indices: 43998793--43998954 Score: 243
Period size: 83 Copynumber: 2.0 Consensus size: 82
43998783 AATAATGTTG
* * *
43998793 AATTACACATATGTGCCCCTATTTGTACTTCGGTACCCCTGAATTGCACATATGTGCCCTTGTTT
1 AATTACACATATGTGCCCCTATTTGTACTTCGGTACCCCTAAATTGCACATACGTGCCCCTGTTT
*
43998858 GTACTTCGGTACCCCTA
66 GTACTACGGTACCCCTA
* * * *
43998875 AATTGCACATATGTGCCCTTTTTTGTACTTTGGTACCCCCTAAATTGCACATACGTGCCCCTGTT
1 AATTACACATATGTGCCCCTATTTGTACTTCGGTA-CCCCTAAATTGCACATACGTGCCCCTGTT
43998940 TGTACTACGGTACCC
65 TGTACTACGGTACCC
43998955 TTGGATATAC
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 31 0.44
83 40 0.56
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.35
Consensus pattern (82 bp):
AATTACACATATGTGCCCCTATTTGTACTTCGGTACCCCTAAATTGCACATACGTGCCCCTGTTT
GTACTACGGTACCCCTA
Found at i:44006381 original size:16 final size:16
Alignment explanation
Indices: 44006360--44006411 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
44006350 TTTGGTTTGT
44006360 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
44006376 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
44006392 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
44006408 TGTA
1 TGTA
44006412 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:44006497 original size:39 final size:43
Alignment explanation
Indices: 44006392--44006501 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
44006382 GGATTAGAGG
44006392 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
44006437 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
44006477 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
44006502 TAAGGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:44006597 original size:18 final size:16
Alignment explanation
Indices: 44006560--44006604 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
44006550 TAGATAAATG
44006560 ATTTAATAAAATATAT
1 ATTTAATAAAATATAT
44006576 -TTTAATTAAAATATAT
1 ATTTAA-TAAAATATAT
44006592 AATTTAATAAAAT
1 -ATTTAATAAAAT
44006605 TCTTAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 10 0.38
17 6 0.23
18 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTAATAAAATATAT
Found at i:44006777 original size:117 final size:120
Alignment explanation
Indices: 44006568--44006784 Score: 361
Period size: 117 Copynumber: 1.8 Consensus size: 120
44006558 TGATTTAATA
*
44006568 AAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAAT
1 AAATATAATTTAATTAAAATATATAATTTAATAAAATTC-TAATAATCAATATTCTTATATGAAT
44006633 TTACTAAAATCATAATATATAATACTAT-AAAATATAATTTAAAATAATTAATATG
65 TTACTAAAATCATAATATATAATACTATGAAAATATAATTTAAAATAATTAATATG
*
44006688 AAATATAATTTAGTTAAAATATATAATTTAATAAAATTC-AAT-AT-AATTATTCTTATATGAAT
1 AAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAA-TATTCTTATATGAAT
*
44006750 TTACTAAAATCATATTATATAATACTATGAAAATA
65 TTACTAAAATCATAATATATAATACTATGAAAATA
44006785 AAATATAATC
Statistics
Matches: 92, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
116 2 0.02
117 44 0.48
118 9 0.10
120 37 0.40
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (120 bp):
AAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAATATTCTTATATGAATT
TACTAAAATCATAATATATAATACTATGAAAATATAATTTAAAATAATTAATATG
Found at i:44029383 original size:25 final size:25
Alignment explanation
Indices: 44029323--44029386 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
44029313 CAATAATAGG
* *
44029323 CTCTTCGGAGCTTCCTGATAACTGG
1 CTCTTAGGAGCTTCCTGATAACTGA
*
44029348 CTCTTATGAGCTTCCTGATTAA-TGA
1 CTCTTAGGAGCTTCCTGA-TAACTGA
44029373 CTCTCT-GGAGCTTC
1 CTCT-TAGGAGCTTC
44029387 TCGATATTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 29 0.88
26 4 0.12
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (25 bp):
CTCTTAGGAGCTTCCTGATAACTGA
Found at i:44029466 original size:25 final size:25
Alignment explanation
Indices: 44029425--44029493 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
44029415 TTATGGCTCT
**
44029425 AATGAGCTTCCTATTATACAACTCA
1 AATGAGCTTCCCGTTATACAACTCA
***
44029450 AATGAGCTTCCCGTTATATGGCTCA
1 AATGAGCTTCCCGTTATACAACTCA
*
44029475 AAAGAGCTTCCCGATTATA
1 AATGAGCTTCCCG-TTATA
44029494 TGCTCGAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 32 0.86
26 5 0.14
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (25 bp):
AATGAGCTTCCCGTTATACAACTCA
Found at i:44029498 original size:25 final size:25
Alignment explanation
Indices: 44029446--44029495 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
44029436 TATTATACAA
*
44029446 CTCAAATGAGCTTCCCGTTATATGG
1 CTCAAAAGAGCTTCCCGTTATATGG
44029471 CTCAAAAGAGCTTCCCGATTATATG
1 CTCAAAAGAGCTTCCCG-TTATATG
44029496 CTCGAATGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (25 bp):
CTCAAAAGAGCTTCCCGTTATATGG
Found at i:44037761 original size:70 final size:70
Alignment explanation
Indices: 44037675--44038402 Score: 385
Period size: 69 Copynumber: 10.5 Consensus size: 70
44037665 GCTGTTACAC
* **
44037675 TTGGAGGTTGGGACTCTTCTTTTGCGAACCTTAATATGATAGCTGGGAGCTTTTGCTCTCGCTAA
1 TTGGAGGTTGCGACTCTTCTCCTGCGAACCTTAATATGATAGCTGGGAGCTTTTGCTCTCGCTAA
*
44037740 CTGTT
66 CTATT
* * * * *
44037745 TTGGAGGTTGCAACTCTT-TGCCTGCTG-GCCTTAATATTAT-GACTAGGAGC-TTTGCTCTCAC
1 TTGGAGGTTGCGACTCTTCT-CCTGC-GAACCTTAATATGATAG-CTGGGAGCTTTTGCTCTCGC
44037806 TAACTATT
63 TAACTATT
* * * * * * *
44037814 TTGGAGGTTACGGCTCTTCTTCTACGAACTTTAATATGAAAGCTGGGGAG-TTTTGCTCCCGCTA
1 TTGGAGGTTGCGACTCTTCTCCTGCGAACCTTAATATGATAGCT-GGGAGCTTTTGCTCTCGCTA
*
44037878 ACTACT
65 ACTATT
* * * * ** * * *
44037884 TTAGAGGTTGCGGA-TCTTCGCTTGCGAACCTTAATATGACAATTGAGAGC-TTTACTCTCACTA
1 TTGGAGGTTGC-GACTCTTCTCCTGCGAACCTTAATATGATAGCTGGGAGCTTTTGCTCTCGCTA
*
44037947 ATTATT
65 ACTATT
* ** * * * * * * * **
44037953 TTAGAGGTTATGGCTCTTCGT-CTGTGAACCTTACTATTACAACTGGGAGC-TTTGCCCTCATTA
1 TTGGAGGTTGCGACTCTTC-TCCTGCGAACCTTAATATGATAGCTGGGAGCTTTTGCTCTCGCTA
44038016 ACTATT
65 ACTATT
* * * * * * * * *
44038022 TTAGAGGTTGTGAATATT-TACCTGTGAACCTTAATGTTACAGTTGGGAGC-TTTGCTCTCGCTA
1 TTGGAGGTTGCGACTCTTCT-CCTGCGAACCTTAATATGATAGCTGGGAGCTTTTGCTCTCGCTA
*
44038085 ACTGTT
65 ACTATT
* * * * ** * * * * * * *
44038091 TTGGAAGTTACGGCTCTTCGCCTATGAACCTTAATGTTACAACTAGGAG-TTTTTCTATCGCTAA
1 TTGGAGGTTGCGACTCTTCTCCTGCGAACCTTAATATGATAGCTGGGAGCTTTTGCTCTCGCTAA
44038155 CTATT
66 CTATT
* * ** * * * **
44038160 TTGGAGGTTACGACTCTTCACCTAAGAACCTTAATATAACAGCTAGGAGC-TTT-CTCTTACTAA
1 TTGGAGGTTGCGACTCTTCTCCTGCGAACCTTAATATGATAGCTGGGAGCTTTTGCTCTCGCTAA
44038223 CTATT
66 CTATT
* * * * ** *
44038228 TTGGAGATTACGACTCTT-TGCCTGCGAACCTTAATATGACAACTAAGAGC-TTTGCTTTCGCTA
1 TTGGAGGTTGCGACTCTTCT-CCTGCGAACCTTAATATGATAGCTGGGAGCTTTTGCTCTCGCTA
* **
44038291 ATTGCT
65 ACTATT
* * ** * * * * * * *
44038297 TTGAAGATTGCGGTTTTTCGCCTGTGAACCCTAATATGATAGTTGGGAGC-TTTGATCTCACTAA
1 TTGGAGGTTGCGACTCTTCTCCTGCGAACCTTAATATGATAGCTGGGAGCTTTTGCTCTCGCTAA
*
44038361 CTGTT
66 CTATT
* * *
44038366 TTGGAGGTTGCTG-CTATTCTCCTACAAACCTTAATAT
1 TTGGAGGTTGC-GACTCTTCTCCTGCGAACCTTAATAT
44038403 CACATGAACG
Statistics
Matches: 507, Mismatches: 130, Indels: 43
0.75 0.19 0.06
Matches are distributed among these distances:
67 1 0.00
68 59 0.12
69 354 0.70
70 91 0.18
71 2 0.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (70 bp):
TTGGAGGTTGCGACTCTTCTCCTGCGAACCTTAATATGATAGCTGGGAGCTTTTGCTCTCGCTAA
CTATT
Found at i:44038073 original size:138 final size:138
Alignment explanation
Indices: 44037790--44038402 Score: 496
Period size: 138 Copynumber: 4.4 Consensus size: 138
44037780 ATTATGACTA
** *
44037790 GGAGCTTTGCTCTCACTAACTATTTTGGAGGTTACGGCTCTTCTTCTACGAACTTTAATATGA-A
1 GGAGCTTTGCTCTCACTAACTATTTTGGAGGTTACGGCTCTTCGCCTACGAACCTTAATATGACA
* * * * * * *
44037854 AGCTGGGGAGTTTTGCTCC-CGCTAACTACTTTAGAGGTTGCGGATCTTCGCTTGCGAACCTTAA
66 A-CT-AGGAGCTTTGC-CCTCGCTAACTATTTTAGAGGTTGCGAATCTTCACCTGAGAACCTTAA
* *
44037918 TATGACAATTG
128 TATAACAGTTG
* * * * * * ** * *
44037929 AGAGCTTTACTCTCACTAATTATTTTAGAGGTTATGGCTCTTCGTCTGTGAACCTTACTATTACA
1 GGAGCTTTGCTCTCACTAACTATTTTGGAGGTTACGGCTCTTCGCCTACGAACCTTAATATGACA
* ** * * * * *
44037994 ACTGGGAGCTTTGCCCTCATTAACTATTTTAGAGGTTGTGAATATTTACCTGTGAACCTTAATGT
66 ACTAGGAGCTTTGCCCTCGCTAACTATTTTAGAGGTTGCGAATCTTCACCTGAGAACCTTAATAT
*
44038059 TACAGTTG
131 AACAGTTG
* * * * * *
44038067 GGAGCTTTGCTCTCGCTAACTGTTTTGGAAGTTACGGCTCTTCGCCTATGAACCTTAATGTTACA
1 GGAGCTTTGCTCTCACTAACTATTTTGGAGGTTACGGCTCTTCGCCTACGAACCTTAATATGACA
* * ** * * * *
44038132 ACTAGGAGTTTTTCTATCGCTAACTATTTTGGAGGTTACGACTCTTCACCTAAGAACCTTAATAT
66 ACTAGGAGCTTTGCCCTCGCTAACTATTTTAGAGGTTGCGAATCTTCACCTGAGAACCTTAATAT
* *
44038197 AACAGCTA
131 AACAGTTG
* * * * *
44038205 GGAGCTTT-CTCTTACTAACTATTTTGGAGATTACGACTCTTTGCCTGCGAACCTTAATATGACA
1 GGAGCTTTGCTCTCACTAACTATTTTGGAGGTTACGGCTCTTCGCCTACGAACCTTAATATGACA
* ** * ** * ** * * * *
44038269 ACTAAGAGCTTTGCTTTCGCTAATTGCTTT-GAAGATTGCGGTTTTTCGCCTGTGAACCCTAATA
66 ACTAGGAGCTTTGCCCTCGCTAACTATTTTAG-AGGTTGCGAATCTTCACCTGAGAACCTTAATA
* *
44038333 TGATAGTTG
130 TAACAGTTG
* * * * * * *
44038342 GGAGCTTTGATCTCACTAACTGTTTTGGAGGTTGCTGCTATTCTCCTACAAACCTTAATAT
1 GGAGCTTTGCTCTCACTAACTATTTTGGAGGTTACGGCTCTTCGCCTACGAACCTTAATAT
44038403 CACATGAACG
Statistics
Matches: 371, Mismatches: 99, Indels: 9
0.77 0.21 0.02
Matches are distributed among these distances:
136 1 0.00
137 106 0.29
138 208 0.56
139 54 0.15
140 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (138 bp):
GGAGCTTTGCTCTCACTAACTATTTTGGAGGTTACGGCTCTTCGCCTACGAACCTTAATATGACA
ACTAGGAGCTTTGCCCTCGCTAACTATTTTAGAGGTTGCGAATCTTCACCTGAGAACCTTAATAT
AACAGTTG
Found at i:44038398 original size:344 final size:347
Alignment explanation
Indices: 44037718--44038400 Score: 727
Period size: 344 Copynumber: 2.0 Consensus size: 347
44037708 ATATGATAGC
* * * * *
44037718 TGGGAGCTTTTGCTCTCGCTAACTGTTTTGGAGGTTGCAACTCTTTGCCTGCTGGCCTTAATATT
1 TGGGAGCTTTTGCTCTCGCTAACTGTTTTGGAAGTTACAACTCTTCGCCTGATGACCTTAATATT
** * * ** * *
44037783 ATGACTAGGAGCTTTGCTCTCACTAACTATTTTGGAGGTTACGGCTCTTCTTCTACGAACTTTAA
66 ACAACTAGGAGCTTTGCTATCACTAACTATTTTGGAGGTTACGACTCTTCACCTAAGAACCTTAA
* * * * * *
44037848 TATGAAAGCTGGGGAGTTTTGCTCCCGCTAACTACTTTAGAGGTTGCGGATCTTCGCTTGCGAAC
131 TATGAAAGCTGAGGAGCTTTGCTCCCACTAACTACTTTAGAGATTACGGATCTTCGCCTGCGAAC
* * * * * *
44037913 CTTAATATGACAATTGAGAGCTTTACTCTCACTAATTATTTTAGAGGTTATGGCTCTTCGTCTGT
196 CTTAATATGACAACTAAGAGCTTTACTCTCACTAATTATTTGAGAGATTACGGCTCTTCGCCTGT
* * * * *
44037978 GAACCTTACTATTACAACTGGGAGCTTTGCCCTCATTAACTATTTTAGAGGTTGTGAATATTTAC
261 GAACCCTAATATGACAACTGGGAGCTTTGACCTCACTAACTATTTTAGAGGTTGTGAATATTTAC
***
44038043 CTGTGAACCTTAATGTTACAGT
326 CTACAAACCTTAATGTTACAGT
** *
44038065 TGGGAGC-TTTGCTCTCGCTAACTGTTTTGGAAGTTACGGCTCTTCGCCT-ATGAACCTTAATGT
1 TGGGAGCTTTTGCTCTCGCTAACTGTTTTGGAAGTTACAACTCTTCGCCTGATG-ACCTTAATAT
* * *
44038128 TACAACTAGGAGTTTTTCTATCGCTAACTATTTTGGAGGTTACGACTCTTCACCTAAGAACCTTA
65 TACAACTAGGAGCTTTGCTATCACTAACTATTTTGGAGGTTACGACTCTTCACCTAAGAACCTTA
** * * *
44038193 ATAT-AACAGCT-AGGAGCTTT-CTCTTACTAACTATTTTGGAGATTAC-GACTCTTTGCCTGCG
130 ATATGAA-AGCTGAGGAGCTTTGCTCCCACTAACTACTTTAGAGATTACGGA-TCTTCGCCTGCG
* * * * * * *
44038254 AACCTTAATATGACAACTAAGAGCTTTGCTTTCGCTAATTGCTTTGA-AGATTGCGGTTTTTCGC
193 AACCTTAATATGACAACTAAGAGCTTTACTCTCACTAATT-ATTTGAGAGATTACGGCTCTTCGC
* ** * * * *
44038318 CTGTGAACCCTAATATGATAGTTGGGAGCTTTGATCTCACTAACTGTTTTGGAGGTTGCTG-CTA
257 CTGTGAACCCTAATATGACAACTGGGAGCTTTGACCTCACTAACTATTTTAGAGGTTG-TGAATA
44038382 TTCT-CCTACAAACCTTAAT
321 TT-TACCTACAAACCTTAAT
44038401 ATCACATGAA
Statistics
Matches: 272, Mismatches: 58, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
343 2 0.01
344 138 0.51
345 18 0.07
346 107 0.39
347 7 0.03
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (347 bp):
TGGGAGCTTTTGCTCTCGCTAACTGTTTTGGAAGTTACAACTCTTCGCCTGATGACCTTAATATT
ACAACTAGGAGCTTTGCTATCACTAACTATTTTGGAGGTTACGACTCTTCACCTAAGAACCTTAA
TATGAAAGCTGAGGAGCTTTGCTCCCACTAACTACTTTAGAGATTACGGATCTTCGCCTGCGAAC
CTTAATATGACAACTAAGAGCTTTACTCTCACTAATTATTTGAGAGATTACGGCTCTTCGCCTGT
GAACCCTAATATGACAACTGGGAGCTTTGACCTCACTAACTATTTTAGAGGTTGTGAATATTTAC
CTACAAACCTTAATGTTACAGT
Found at i:44044968 original size:4 final size:4
Alignment explanation
Indices: 44044959--44045010 Score: 59
Period size: 4 Copynumber: 12.5 Consensus size: 4
44044949 AATATAATGG
* * *
44044959 ATAA ATAA ATAA GTAA ATAA ATAA ATGA ATAA ATGA ATCAA ATAA ATGAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA AT-AA
44045009 AT
1 AT
44045011 TATAAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
4 33 0.82
5 7 0.17
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:44047087 original size:44 final size:44
Alignment explanation
Indices: 44047038--44047264 Score: 191
Period size: 44 Copynumber: 5.2 Consensus size: 44
44047028 TAGTACAGGA
* *
44047038 AGGCAAGTTCTTTTATCTTCAACCAGCTCCATCACAACCGAGAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
* * * * * *
44047082 AGGCAAGGT-TTGTGTCTTCGACCTGCTTCGCTGTCA-ATA-CAAGA-
1 AGGCAAGATCTTTTGTCTTCAACCAGC-TC-C-ATCACA-ACCGAGAG
*
44047126 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCAAGAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
* * * * * *
44047170 AGGCAAGGT-TTGTGTCTTCGACCTGCTTCGCTGTCA-ATACAG-GA-
1 AGGCAAGATCTTTTGTCTTCAACCAGC-TC-C-ATCACA-ACCGAGAG
44047214 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
44047258 AGGCAAG
1 AGGCAAG
44047265 GTTTGTGTCT
Statistics
Matches: 142, Mismatches: 25, Indels: 32
0.71 0.13 0.16
Matches are distributed among these distances:
42 10 0.07
43 38 0.27
44 47 0.33
45 38 0.27
46 9 0.06
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (44 bp):
AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
Found at i:44047157 original size:88 final size:88
Alignment explanation
Indices: 44047008--44047312 Score: 531
Period size: 88 Copynumber: 3.5 Consensus size: 88
44046998 AAATCCGCCA
* * * *
44047008 TCTTCGATCTGCTTCGCTG-CTAGTACAGGAAGGCAAGTTCTTTTATCTTCAACCAGCTCCATCA
1 TCTTCGACCTGCTTCGCTGTC-AATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCA
44047072 CAACCGAGAGAGGCAAGGTTTGTG
65 CAACCGAGAGAGGCAAGGTTTGTG
*
44047096 TCTTCGACCTGCTTCGCTGTCAATACAAGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
1 TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
*
44047161 AACCAAGAGAGGCAAGGTTTGTG
66 AACCGAGAGAGGCAAGGTTTGTG
44047184 TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
1 TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
44047249 AACCGAGAGAGGCAAGGTTTGTG
66 AACCGAGAGAGGCAAGGTTTGTG
*
44047272 TCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATCT
44047313 GCAACTTCAT
Statistics
Matches: 207, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
88 206 1.00
89 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (88 bp):
TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
AACCGAGAGAGGCAAGGTTTGTG
Done.