Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 381 of 444
Found at i:110587912 original size:17 final size:17
Alignment explanation
Indices: 110587879--110587917 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
110587869 AATAATAAAA
110587879 AAATATAAATAAATAAG
1 AAATATAAATAAATAAG
*
110587896 AAATATAAATAGATAAG
1 AAATATAAATAAATAAG
*
110587913 TAATA
1 AAATA
110587918 AGAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (17 bp):
AAATATAAATAAATAAG
Found at i:110588085 original size:33 final size:33
Alignment explanation
Indices: 110588015--110588088 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 33
110588005 TGATGATGAT
* *
110588015 AATAATAATAAAGATAAAAATAGTAATAATAGT
1 AATAATAATAAAGATAAAAAAAGTAATAATAGA
110588048 AATAATAATAAAGCCATAATAAAAAG-AA-AA-AGA
1 AATAATAATAAAG--ATAA-AAAAAGTAATAATAGA
110588081 AATAATAA
1 AATAATAA
110588089 CATGTAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
33 23 0.64
34 2 0.06
35 6 0.17
36 5 0.14
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.22
Consensus pattern (33 bp):
AATAATAATAAAGATAAAAAAAGTAATAATAGA
Found at i:110588124 original size:14 final size:14
Alignment explanation
Indices: 110588081--110588132 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
110588071 AAGAAAAAGA
* * *
110588081 AATAATAACATGTA
1 AATAATAATATATT
*
110588095 AATAATGATAATATT
1 AATAATAAT-ATATT
110588110 AATAATAATATATT
1 AATAATAATATATT
110588124 AATAATAAT
1 AATAATAAT
110588133 GGTATAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (14 bp):
AATAATAATATATT
Found at i:110588148 original size:3 final size:3
Alignment explanation
Indices: 110587941--110588058 Score: 55
Period size: 3 Copynumber: 40.3 Consensus size: 3
110587931 AGATGAAAAT
* * * * * * * *
110587941 ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA GTA ATT ACA AAA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
110587988 ATA GTA ATA A-A ATA A-G ATG ATG ATG ATA ATA ATA ATA A-A GATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * *
110588031 AAA ATA GTA ATA ATA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
110588059 AGCCATAATA
Statistics
Matches: 85, Mismatches: 25, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
2 5 0.06
3 79 0.93
4 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:110590340 original size:17 final size:18
Alignment explanation
Indices: 110590318--110590358 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
110590308 GGAATTCATG
110590318 TAAAATTAA-GACT-ATTT
1 TAAAA-TAAGGACTAATTT
110590335 TAAAATAAGGACTAAATTT
1 TAAAATAAGGACT-AATTT
110590354 TAAAA
1 TAAAA
110590359 AAAATAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.14
17 9 0.43
19 9 0.43
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (18 bp):
TAAAATAAGGACTAATTT
Found at i:110591145 original size:19 final size:20
Alignment explanation
Indices: 110591118--110591155 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
110591108 CAAAAATATA
*
110591118 TTATGATTTTTT-AGTTTTT
1 TTATAATTTTTTGAGTTTTT
110591137 TTATAATTTTTTGAGTTTT
1 TTATAATTTTTTGAGTTTT
110591156 AAGATTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (20 bp):
TTATAATTTTTTGAGTTTTT
Found at i:110593494 original size:21 final size:22
Alignment explanation
Indices: 110593454--110593496 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
110593444 GAGAATCCTC
110593454 CTTTGAAGCTCTAGTTTATTTA
1 CTTTGAAGCTCTAGTTTATTTA
*
110593476 CTTTGTAGCTCTA-TTTATTTA
1 CTTTGAAGCTCTAGTTTATTTA
110593497 AAAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (22 bp):
CTTTGAAGCTCTAGTTTATTTA
Found at i:110595609 original size:25 final size:26
Alignment explanation
Indices: 110595564--110595616 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
110595554 TTTATTTGTT
*
110595564 TATTTTTAAAATTTATTAAATA-ATA
1 TATTTTTAAAATTTATAAAATATATA
110595589 TATTTTTATAAATTTA-AAAATATATA
1 TATTTTTA-AAATTTATAAAATATATA
110595615 TA
1 TA
110595617 CATATTTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TATTTTTAAAATTTATAAAATATATA
Found at i:110597061 original size:15 final size:15
Alignment explanation
Indices: 110597041--110597100 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 15
110597031 GAGGGGAGAG
110597041 TATTATTATTACTAT
1 TATTATTATTACTAT
110597056 TATTATTATT--T-T
1 TATTATTATTACTAT
110597068 TATTACTT-TTACTAT
1 TATTA-TTATTACTAT
110597083 T-TT-TCTATATACTAT
1 TATTAT-TAT-TACTAT
110597098 TAT
1 TAT
110597101 GTTTTCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
12 9 0.24
13 4 0.11
14 4 0.11
15 19 0.51
16 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTATTATTACTAT
Found at i:110597070 original size:21 final size:21
Alignment explanation
Indices: 110597041--110597100 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
110597031 GAGGGGAGAG
*
110597041 TATTATTATTACTATTATTAT
1 TATTTTTATTACTATTATTAT
* *
110597062 TATTTTTATTACTTTTACTAT
1 TATTTTTATTACTATTATTAT
*
110597083 T-TTTCTATATACTATTAT
1 TATTTTTAT-TACTATTAT
110597101 GTTTTCTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 6 0.19
21 26 0.81
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTTTTATTACTATTATTAT
Found at i:110597156 original size:3 final size:3
Alignment explanation
Indices: 110597142--110597445 Score: 55
Period size: 3 Copynumber: 99.0 Consensus size: 3
110597132 AATAGTGTTT
* * *
110597142 TTA TTA TT- TTA TTA TTA CTT- TTA CCTTT TTA TTA CTA TTA TTA TTT
1 TTA TTA TTA TTA TTA TTA -TTA TTA --TTA TTA TTA TTA TTA TTA TTA
* * * *
110597188 TTA TTA ATA -TA GTA TTA TT- TCCTC TT- TT- TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA
** * * * *
110597231 TTA GCA CGTA -TA TTA TTA TTA TTAA TGTA TCA TTG TTA TTT TCTA TT-
1 TTA TTA -TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA T-TA TTA
* *
110597278 TTA TTA TTA CTT- TTA TTA CTA TTG TT- TCTA TTA TTA TTA TT- TTCA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A
* * * * * *
110597323 TTA CTTCCA TTA TTA TTA TAA TCA TTT TCTA TTA TCA TTA ATA TT- TCA
1 TTA -TT--A TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * *
110597371 TTTG TTCA TTA TATA TTTA CTTT TTA ATA TATA TT- TCCA TTA -TA TT-
1 -TTA TT-A TTA T-TA -TTA -TTA TTA TTA T-TA TTA T-TA TTA TTA TTA
*
110597417 TTA TTA TTA TTA TTA CTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
110597446 ACCATCCTAT
Statistics
Matches: 220, Mismatches: 44, Indels: 74
0.65 0.13 0.22
Matches are distributed among these distances:
2 28 0.13
3 151 0.69
4 33 0.15
5 7 0.03
6 1 0.00
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:110597371 original size:24 final size:23
Alignment explanation
Indices: 110597302--110597373 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
110597292 ATTACTATTG
110597302 TTTCTATTATTATTAT-TTTCAT
1 TTTCTATTATTATTATATTTCAT
* *
110597324 TACTTCCATTATTATTATA-ATCAT
1 T--TTCTATTATTATTATATTTCAT
*
110597348 TTTCTATTATCATTAATATTTCAT
1 TTTCTATTATTATT-ATATTTCAT
110597372 TT
1 TT
110597374 GTTCATTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
22 12 0.30
23 3 0.08
24 25 0.62
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTCTATTATTATTATATTTCAT
Found at i:110598542 original size:24 final size:24
Alignment explanation
Indices: 110598515--110598569 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
110598505 TTTACGTGTT
* * *
110598515 TATTTTTTAAATTTATTAATAATG
1 TATTTTTAAAATTTATTAAAAATA
*
110598539 TATTTTTAAAATTTTTTAAAAATA
1 TATTTTTAAAATTTATTAAAAATA
110598563 TATTTTT
1 TATTTTT
110598570 GAATTAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TATTTTTAAAATTTATTAAAAATA
Found at i:110598862 original size:22 final size:24
Alignment explanation
Indices: 110598816--110598868 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
110598806 ATAAAAACAA
*
110598816 TATTTATATATAAAAAATTATATT
1 TATTTATATATAAAAAATTAGATT
*
110598840 TATTTA-AT-TAAAAATTTAGATT
1 TATTTATATATAAAAAATTAGATT
110598862 T-TTTATA
1 TATTTATA
110598869 AATTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 4 0.15
22 14 0.54
23 2 0.08
24 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TATTTATATATAAAAAATTAGATT
Found at i:110600890 original size:143 final size:135
Alignment explanation
Indices: 110600638--110601065 Score: 698
Period size: 143 Copynumber: 3.1 Consensus size: 135
110600628 TATTGGGCCT
* *
110600638 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTTCA-ATTACAATAAACTGGGCCT
1 AAGCCCATT-TGGTAACAGTGGTACTGGGCCAGAGCCC-TTTTCAGATTACAATAAACTGGGCCT
110600702 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAA
64 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAA
110600767 CATATGC
129 CATATGC
110600774 AAGCCCATTTGGTAACAGTGGTACTGGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAAC
1 AAGCCCATTTGGTAAC------A---GTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAAC
110600839 TGGGCCTTAG-CCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACA
57 TGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACA
110600903 TCAATAACATATGC
122 TCAATAACATATGC
110600917 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTT-GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
110600982 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
110601047 CATATGC
129 CATATGC
110601054 AAGCCCATTTGG
1 AAGCCCATTTGG
110601066 GGAGACTACT
Statistics
Matches: 276, Mismatches: 3, Indels: 26
0.90 0.01 0.09
Matches are distributed among these distances:
135 55 0.20
136 69 0.25
137 19 0.07
138 1 0.00
141 1 0.00
143 84 0.30
144 47 0.17
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (135 bp):
AAGCCCATTTGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
TATGC
Found at i:110601350 original size:25 final size:26
Alignment explanation
Indices: 110601313--110601364 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
110601303 TCAAACATGC
110601313 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
110601339 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
110601364 A
1 A
110601365 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:110602879 original size:26 final size:25
Alignment explanation
Indices: 110602843--110602947 Score: 144
Period size: 26 Copynumber: 4.2 Consensus size: 25
110602833 CATGAAATTC
110602843 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
110602869 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
* *
110602894 TTATCATG---GATTTACCTAATCA
1 TTATCATGAAACATTTACCTAACCA
*
110602916 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
110602942 TTATCA
1 TTATCA
110602948 ATTTGTATCA
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
22 20 0.28
25 22 0.31
26 29 0.41
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:110602909 original size:22 final size:22
Alignment explanation
Indices: 110602855--110602947 Score: 96
Period size: 25 Copynumber: 3.9 Consensus size: 22
110602845 ATCATGAAAC
*
110602855 ATTTACCTAACCCATTATCATGAAAC
1 ATTTACCTAA-CCATTATCATG---G
110602881 ATTTACCTAACCATTATCATGG
1 ATTTACCTAACCATTATCATGG
*
110602903 ATTTACCTAATCATTATCATGG
1 ATTTACCTAACCATTATCATGG
110602925 AACATTTACCTAACCTATTATCA
1 ---ATTTACCTAACC-ATTATCA
110602948 ATTTGTATCA
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
22 21 0.35
25 22 0.37
26 17 0.28
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (22 bp):
ATTTACCTAACCATTATCATGG
Found at i:110602923 original size:47 final size:49
Alignment explanation
Indices: 110602855--110602947 Score: 154
Period size: 47 Copynumber: 1.9 Consensus size: 49
110602845 ATCATGAAAC
110602855 ATTTACCTAACCCATTATCATGAAACATTTACCTAACC-ATTATCATGG
1 ATTTACCTAACCCATTATCATGAAACATTTACCTAACCTATTATCATGG
* *
110602903 ATTTACCTAA-TCATTATCATGGAACATTTACCTAACCTATTATCA
1 ATTTACCTAACCCATTATCATGAAACATTTACCTAACCTATTATCA
110602948 ATTTGTATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 25 0.60
48 17 0.40
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (49 bp):
ATTTACCTAACCCATTATCATGAAACATTTACCTAACCTATTATCATGG
Found at i:110604722 original size:17 final size:19
Alignment explanation
Indices: 110604700--110604737 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
110604690 TTAATATTAC
110604700 AATTTT-ATTTT-AACAAT
1 AATTTTAATTTTAAACAAT
110604717 AATTTTAAATTTTAAACAAT
1 AATTTT-AATTTTAAACAAT
110604737 A
1 A
110604738 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTTTAATTTTAAACAAT
Found at i:110608166 original size:1 final size:1
Alignment explanation
Indices: 110608131--110608158 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
110608121 AAGCTGCTCC
110608131 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
110608159 CACTTTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:110611466 original size:68 final size:64
Alignment explanation
Indices: 110611349--110611515 Score: 160
Period size: 68 Copynumber: 2.5 Consensus size: 64
110611339 ATACAGGTAG
* * * * *
110611349 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTGTACAAGAGAGCTAC--GACA-
110611414 TA
63 TA
* * * **
110611416 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGT-GTACAAGAGAGCTACGACAT
110611480 A
64 A
110611481 TATGTAGCTAGGTCGCAT-G-TGCAGTACTAAGTGCA
1 TATGTAGCTAGGTCGCATGGATG-A-TACTAAGTGCA
110611516 GGCTACTATG
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
62 2 0.02
63 2 0.02
64 26 0.31
65 3 0.04
66 2 0.02
67 1 0.01
68 47 0.56
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTGTACAAGAGAGCTACGACATA
Found at i:110611621 original size:49 final size:50
Alignment explanation
Indices: 110611491--110611636 Score: 186
Period size: 49 Copynumber: 2.9 Consensus size: 50
110611481 TATGTAGCTA
* *
110611491 GGTCGCATGTGCAGTACTAAGTGCAGGCTACTATGCGTACCCAATAACTTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAATAAC-TT
* * * * **
110611542 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAATAACTT
* *
110611591 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAATA
110611637 GTTTGGCTAC
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
49 41 0.51
51 39 0.49
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (50 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAATAACTT
Found at i:110614756 original size:46 final size:46
Alignment explanation
Indices: 110614689--110614862 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
110614679 TGTAACCCGC
*
110614689 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
110614735 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
110614785 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
110614827 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
110614863 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:110614855 original size:92 final size:93
Alignment explanation
Indices: 110614697--110614866 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
110614687 GCCCATAAGT
* *
110614697 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
110614762 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
110614790 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
110614854 CGAGTTCGGATGC
66 CGAGTTCGGATGC
110614867 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 46 0.62
93 28 0.38
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:110617282 original size:30 final size:30
Alignment explanation
Indices: 110617238--110617326 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
110617228 CAAAGATAAC
110617238 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
110617267 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
110617297 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
110617327 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:110617286 original size:15 final size:15
Alignment explanation
Indices: 110617238--110617317 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
110617228 CAAAGATAAC
*
110617238 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
110617252 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
110617267 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
110617282 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
110617297 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
110617312 AAGAAA
1 AAGAAA
110617318 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:110617326 original size:15 final size:15
Alignment explanation
Indices: 110617249--110617326 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
110617239 AGAAAACCGA
110617249 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
110617264 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
110617278 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
110617293 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
110617309 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
110617324 ATA
1 ATA
110617327 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:110620331 original size:46 final size:46
Alignment explanation
Indices: 110620264--110620436 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
110620254 TGTAACCCGC
*
110620264 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
110620310 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
110620360 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
110620401 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
110620437 ATGCCAACCA
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:110620429 original size:91 final size:92
Alignment explanation
Indices: 110620272--110620441 Score: 306
Period size: 91 Copynumber: 1.8 Consensus size: 92
110620262 GCCCATAAGT
*
110620272 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
110620337 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
110620365 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
110620429 GAGTTCGGATGCC
66 GAGTTCGGATGCC
110620442 AACCATCCTA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:110624059 original size:16 final size:16
Alignment explanation
Indices: 110624035--110624095 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
110624025 AAAAAAATCA
110624035 AATGAAGTTAAATTAG
1 AATGAAGTTAAATTAG
* *
110624051 AATGGAGTTAAAGAATCA-
1 AATGAAGTT--A-AATTAG
*
110624069 AATGAAGTTAAATTGG
1 AATGAAGTTAAATTAG
*
110624085 AATGGAGTTAA
1 AATGAAGTTAA
110624096 TCATTTACTG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
15 3 0.09
16 19 0.54
18 9 0.26
19 4 0.11
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.28
Consensus pattern (16 bp):
AATGAAGTTAAATTAG
Found at i:110624068 original size:34 final size:34
Alignment explanation
Indices: 110624030--110624095 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
110624020 TATTAAAAAA
110624030 AATCAAATGAAGTTAAATTAGAATGGAGTTAAAG
1 AATCAAATGAAGTTAAATTAGAATGGAGTTAAAG
*
110624064 AATCAAATGAAGTTAAATTGGAATGGAGTTAA
1 AATCAAATGAAGTTAAATTAGAATGGAGTTAA
110624096 TCATTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.27
Consensus pattern (34 bp):
AATCAAATGAAGTTAAATTAGAATGGAGTTAAAG
Found at i:110624077 original size:18 final size:17
Alignment explanation
Indices: 110624027--110624080 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
110624017 TACTATTAAA
110624027 AAAAATCAAATGAAGTT
1 AAAAATCAAATGAAGTT
* *
110624044 --AAATTAGAATGGAGTT
1 AAAAATCA-AATGAAGTT
110624060 AAAGAATCAAATGAAGTT
1 AAA-AATCAAATGAAGTT
110624078 AAA
1 AAA
110624081 TTGGAATGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 5 0.17
16 8 0.28
18 12 0.41
19 4 0.14
ACGTcount: A:0.56, C:0.04, G:0.17, T:0.24
Consensus pattern (17 bp):
AAAAATCAAATGAAGTT
Found at i:110627485 original size:36 final size:34
Alignment explanation
Indices: 110627416--110627485 Score: 79
Period size: 36 Copynumber: 2.0 Consensus size: 34
110627406 TTCAATTTAT
* *
110627416 TTTTATTTCTCATCCATTTCTATGTTCATAATAA
1 TTTTATTTCTCATCCATTTCTATGGTCAAAATAA
*
110627450 TTTTATTCTCATCATTCATTT-TATAGGTCAAAATAA
1 TTTTATT-TC-TCATCCATTTCTAT-GGTCAAAATAA
110627486 AGTATTAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
34 7 0.23
35 5 0.17
36 18 0.60
ACGTcount: A:0.30, C:0.16, G:0.04, T:0.50
Consensus pattern (34 bp):
TTTTATTTCTCATCCATTTCTATGGTCAAAATAA
Found at i:110627912 original size:20 final size:20
Alignment explanation
Indices: 110627870--110627908 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
110627860 CTCGTTCTAG
**
110627870 TAAATATTTTTATTTAATAA
1 TAAATATTTTTATCAAATAA
110627890 TAAATATTTTT-TCAAATAA
1 TAAATATTTTTATCAAATAA
110627909 ATAATAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAATATTTTTATCAAATAA
Found at i:110627928 original size:22 final size:23
Alignment explanation
Indices: 110627885--110627928 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
110627875 ATTTTTATTT
***
110627885 AATAATAAATATTTTTTCAAATA
1 AATAATAAATATTTTAAAAAATA
110627908 AATAAT-AATATTTTAAAAAAT
1 AATAATAAATATTTTAAAAAAT
110627929 GATGAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AATAATAAATATTTTAAAAAATA
Found at i:110628773 original size:9 final size:8
Alignment explanation
Indices: 110628757--110628784 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
110628747 TTATCACCCA
110628757 TCTTTTTT
1 TCTTTTTT
110628765 TCTTTTTT
1 TCTTTTTT
110628773 TCTTTTTT
1 TCTTTTTT
110628781 TCTT
1 TCTT
110628785 CTCACCTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TCTTTTTT
Found at i:110630537 original size:2 final size:2
Alignment explanation
Indices: 110630530--110630570 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
110630520 ATTGCAAATT
*
110630530 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TT TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110630570 T
1 T
110630571 TCTTAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:110630625 original size:40 final size:40
Alignment explanation
Indices: 110630546--110630625 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
110630536 TATATATATA
* *
110630546 TATATATATATATTTTAATATATATTCTTAAAATTTTCAT
1 TATATATATATATTTTAATACATATGCTTAAAATTTTCAT
* *
110630586 TATATATATATATTTTTATACA-ATGCTTAGAATTATTCAT
1 TATATATATATATTTTAATACATATGCTTAAAATT-TTCAT
110630626 AATTTTTCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 10 0.29
40 25 0.71
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (40 bp):
TATATATATATATTTTAATACATATGCTTAAAATTTTCAT
Found at i:110631399 original size:92 final size:92
Alignment explanation
Indices: 110631240--110631422 Score: 357
Period size: 92 Copynumber: 2.0 Consensus size: 92
110631230 TCAAATTTCG
110631240 GTAAAATCAAATTAATCGATCGAATCAATCTAATTCGGCCGGAAGTTGGTTAATGATTTTTTAGA
1 GTAAAATCAAATTAATCGATCGAATCAATCTAATTCGGCCGGAAGTTGGTTAATGATTTTTTAGA
110631305 AGTTTAGTTATTAGTTAATTTAATTCC
66 AGTTTAGTTATTAGTTAATTTAATTCC
*
110631332 GTAAAATCAAATTAATCGATCGAATCAATCTAATTCGGCCGGAAGTTGGTTAATGATTTTTTGGA
1 GTAAAATCAAATTAATCGATCGAATCAATCTAATTCGGCCGGAAGTTGGTTAATGATTTTTTAGA
110631397 AGTTTAGTTATTAGTTAATTTAATTC
66 AGTTTAGTTATTAGTTAATTTAATTC
110631423 AAAATTGGAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.39
Consensus pattern (92 bp):
GTAAAATCAAATTAATCGATCGAATCAATCTAATTCGGCCGGAAGTTGGTTAATGATTTTTTAGA
AGTTTAGTTATTAGTTAATTTAATTCC
Found at i:110631986 original size:11 final size:11
Alignment explanation
Indices: 110631972--110632007 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
110631962 AAAGAACAAT
*
110631972 AAAACACCACC
1 AAAACAACACC
*
110631983 AAAACAGCACC
1 AAAACAACACC
110631994 AAAACAACACC
1 AAAACAACACC
110632005 AAA
1 AAA
110632008 GCAGCATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.61, C:0.36, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAACAACACC
Found at i:110631997 original size:22 final size:22
Alignment explanation
Indices: 110631972--110632013 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
110631962 AAAGAACAAT
*
110631972 AAAACACCACCAAAACAGCACC
1 AAAACAACACCAAAACAGCACC
*
110631994 AAAACAACACCAAAGCAGCA
1 AAAACAACACCAAAACAGCA
110632014 TTAAGGTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.36, G:0.07, T:0.00
Consensus pattern (22 bp):
AAAACAACACCAAAACAGCACC
Found at i:110632800 original size:11 final size:11
Alignment explanation
Indices: 110632786--110632893 Score: 119
Period size: 11 Copynumber: 9.9 Consensus size: 11
110632776 AAAATAGTAA
*
110632786 CAAAACAGCAC
1 CAAAACAACAC
* *
110632797 CAAAACAGCAA
1 CAAAACAACAC
*
110632808 CAAAACAGCAC
1 CAAAACAACAC
110632819 CAAAACAACAC
1 CAAAACAACAC
* * *
110632830 CAACACAGCAA
1 CAAAACAACAC
110632841 CAAAACAACAC
1 CAAAACAACAC
*
110632852 TAAAACAACAC
1 CAAAACAACAC
* *
110632863 CAACACAACAA
1 CAAAACAACAC
110632874 CAAAACAACAC
1 CAAAACAACAC
110632885 C-AAACAACA
1 CAAAACAACA
110632894 TAAAAAATAG
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
10 8 0.10
11 74 0.90
ACGTcount: A:0.61, C:0.34, G:0.04, T:0.01
Consensus pattern (11 bp):
CAAAACAACAC
Found at i:110632809 original size:22 final size:22
Alignment explanation
Indices: 110632784--110632893 Score: 134
Period size: 22 Copynumber: 5.0 Consensus size: 22
110632774 TAAAAATAGT
*
110632784 AACAAAACAGCACCAAAACAGC
1 AACAAAACAGCACCAAAACAAC
110632806 AACAAAACAGCACCAAAACAAC
1 AACAAAACAGCACCAAAACAAC
* * *
110632828 ACCAACACAGCAACAAAACAAC
1 AACAAAACAGCACCAAAACAAC
* *
110632850 -ACTAAAACAACACCAACACAAC
1 AAC-AAAACAGCACCAAAACAAC
*
110632872 AACAAAACAACACC-AAACAAC
1 AACAAAACAGCACCAAAACAAC
110632893 A
1 A
110632894 TAAAAAATAG
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
21 8 0.11
22 66 0.87
23 2 0.03
ACGTcount: A:0.62, C:0.34, G:0.04, T:0.01
Consensus pattern (22 bp):
AACAAAACAGCACCAAAACAAC
Found at i:110632823 original size:33 final size:33
Alignment explanation
Indices: 110632786--110632893 Score: 164
Period size: 33 Copynumber: 3.3 Consensus size: 33
110632776 AAAATAGTAA
* * *
110632786 CAAAACAGCACCAAAACAGCAACAAAACAGCAC
1 CAAAACAACACCAACACAGCAACAAAACAACAC
110632819 CAAAACAACACCAACACAGCAACAAAACAACAC
1 CAAAACAACACCAACACAGCAACAAAACAACAC
* *
110632852 TAAAACAACACCAACACAACAACAAAACAACAC
1 CAAAACAACACCAACACAGCAACAAAACAACAC
110632885 C-AAACAACA
1 CAAAACAACA
110632894 TAAAAAATAG
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
32 8 0.12
33 61 0.88
ACGTcount: A:0.61, C:0.34, G:0.04, T:0.01
Consensus pattern (33 bp):
CAAAACAACACCAACACAGCAACAAAACAACAC
Found at i:110632911 original size:22 final size:22
Alignment explanation
Indices: 110632886--110632927 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
110632876 AAACAACACC
*
110632886 AAACAACATAAAAAATAGCACT
1 AAACAACACAAAAAATAGCACT
* *
110632908 AAACAGCACAAAACATAGCA
1 AAACAACACAAAAAATAGCA
110632928 TCACCAACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.21, G:0.07, T:0.10
Consensus pattern (22 bp):
AAACAACACAAAAAATAGCACT
Found at i:110648764 original size:30 final size:30
Alignment explanation
Indices: 110648730--110648786 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
110648720 CCGAGCCTAA
*
110648730 GGGCAAAAGTGTAGTTATGCAAAAGTTTAG
1 GGGCAAAAATGTAGTTATGCAAAAGTTTAG
* * *
110648760 GGGCAAAAATGTATTTTTGCTAAAGTT
1 GGGCAAAAATGTAGTTATGCAAAAGTT
110648787 CTTATTAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (30 bp):
GGGCAAAAATGTAGTTATGCAAAAGTTTAG
Found at i:110651992 original size:15 final size:15
Alignment explanation
Indices: 110651943--110652016 Score: 76
Period size: 15 Copynumber: 4.7 Consensus size: 15
110651933 GTTAAGAATT
110651943 ATAAATAATAAATAAA
1 ATAAA-AATAAATAAA
* *
110651959 ATAAAAATTAGTAAA
1 ATAAAAATAAATAAA
*
110651974 ATAAAAATAAATAAT
1 ATAAAAATAAATAAA
*
110651989 ATAACAAATAATTATAA
1 ATAA-AAATAAATA-AA
*
110652006 ACAAAAATAAA
1 ATAAAAATAAA
110652017 AATGGGGTGG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 24 0.51
16 19 0.40
17 4 0.09
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (15 bp):
ATAAAAATAAATAAA
Found at i:110657729 original size:19 final size:18
Alignment explanation
Indices: 110657707--110657742 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
110657697 AATAAAAGAA
110657707 AAACTAGAAAACAAAAATT
1 AAACTA-AAAACAAAAATT
*
110657726 AAACTAAAAATAAAAAT
1 AAACTAAAAACAAAAAT
110657743 GGCTAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.17
Consensus pattern (18 bp):
AAACTAAAAACAAAAATT
Found at i:110658850 original size:30 final size:30
Alignment explanation
Indices: 110658816--110658873 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
110658806 CACAAGTTGG
110658816 CACATAGGCATGTGTCCAACCTGTATGGCT
1 CACATAGGCATGTGTCCAACCTGTATGGCT
* * *
110658846 CACATGGGCGTGTGTCCAGCCTGTATGG
1 CACATAGGCATGTGTCCAACCTGTATGG
110658874 ATCCTGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.26
Consensus pattern (30 bp):
CACATAGGCATGTGTCCAACCTGTATGGCT
Found at i:110662121 original size:9 final size:9
Alignment explanation
Indices: 110662107--110662165 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
110662097 ATAAGTATAA
110662107 AATTAACCG
1 AATTAACCG
*
110662116 AATTAATCG
1 AATTAACCG
*
110662125 AATTAACCA
1 AATTAACCG
* *
110662134 AATTACCCA
1 AATTAACCG
110662143 AATT-ACCTG
1 AATTAACC-G
*
110662152 AATTAATCG
1 AATTAACCG
110662161 AATTA
1 AATTA
110662166 TTTGTATAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
8 2 0.05
9 37 0.90
10 2 0.05
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:110662130 original size:18 final size:18
Alignment explanation
Indices: 110662107--110662165 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
110662097 ATAAGTATAA
110662107 AATTAACCGAATTAATCG
1 AATTAACCGAATTAATCG
* ** *
110662125 AATTAACCAAATTACCCA
1 AATTAACCGAATTAATCG
110662143 AATT-ACCTGAATTAATCG
1 AATTAACC-GAATTAATCG
110662161 AATTA
1 AATTA
110662166 TTTGTATAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
17 3 0.10
18 28 0.90
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.29
Consensus pattern (18 bp):
AATTAACCGAATTAATCG
Found at i:110662194 original size:6 final size:6
Alignment explanation
Indices: 110662183--110662229 Score: 76
Period size: 6 Copynumber: 7.5 Consensus size: 6
110662173 AAAATTATAT
110662183 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
110662230 ATTAAATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 33 0.85
8 6 0.15
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:110662217 original size:26 final size:25
Alignment explanation
Indices: 110662180--110662229 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
110662170 TATAAAATTA
*
110662180 TATTTTTTATTTTTATTTTTATTTT
1 TATTTTTGATTTTTATTTTTATTTT
110662205 TATTTTTAGATTTTTATTTTTATTT
1 TATTTTT-GATTTTTATTTTTATTT
110662230 ATTAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (25 bp):
TATTTTTGATTTTTATTTTTATTTT
Found at i:110662240 original size:32 final size:31
Alignment explanation
Indices: 110662183--110662252 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
110662173 AAAATTATAT
** *
110662183 TTTTTATTTTTATTTTTATTTTTATTTTTAGA
1 TTTTTATTTTTATTTTTATAATTATTTGTA-A
110662215 TTTTTATTTTTATTTATTA-AATTATTTGTAA
1 TTTTTATTTTTATTT-TTATAATTATTTGTAA
110662246 TTTTTAT
1 TTTTTAT
110662253 GATTGGGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 8 0.24
32 23 0.68
33 3 0.09
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (31 bp):
TTTTTATTTTTATTTTTATAATTATTTGTAA
Found at i:110662270 original size:13 final size:13
Alignment explanation
Indices: 110662254--110662278 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110662244 AATTTTTATG
110662254 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
110662267 ATTGGGTTGGGT
1 ATTGGGTTGGGT
110662279 TGGGTATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:110662278 original size:18 final size:18
Alignment explanation
Indices: 110662255--110662292 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
110662245 ATTTTTATGA
110662255 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
110662273 TTGGGTTGGGTATTTGGG
1 TTGGGTTGGGTAATTGGG
110662291 TT
1 TT
110662293 AATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.00, G:0.47, T:0.45
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:110665952 original size:12 final size:12
Alignment explanation
Indices: 110665935--110665959 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110665925 AAAGTAAAAT
110665935 AAAATAAAATAA
1 AAAATAAAATAA
110665947 AAAATAAAATAA
1 AAAATAAAATAA
110665959 A
1 A
110665960 GAACACACAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:110678375 original size:24 final size:24
Alignment explanation
Indices: 110678347--110678392 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
110678337 CAAGATTGCA
*
110678347 TATCATCTCTAAGATTGCATATTG
1 TATCATATCTAAGATTGCATATTG
110678371 TATCATATCTAAGATTGCATAT
1 TATCATATCTAAGATTGCATAT
110678393 CCTTAAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (24 bp):
TATCATATCTAAGATTGCATATTG
Found at i:110680764 original size:25 final size:27
Alignment explanation
Indices: 110680727--110680779 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
110680717 TCAAACATGC
110680727 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
110680753 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
110680779 A
1 A
110680780 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:110682332 original size:26 final size:26
Alignment explanation
Indices: 110682256--110682363 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
110682246 ATGAAATGCC
*
110682256 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
110682282 TATCAT-GAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
110682307 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
110682333 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
110682359 TATCA
1 TATCA
110682364 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 24 0.32
26 52 0.68
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:110682333 original size:51 final size:52
Alignment explanation
Indices: 110682256--110682363 Score: 191
Period size: 51 Copynumber: 2.1 Consensus size: 52
110682246 ATGAAATGCC
110682256 TATCATGGAACATTTACCTAAACCATTATCAT-GAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCAT
* *
110682307 TATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCAT
110682359 TATCA
1 TATCA
110682364 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 30 0.56
52 24 0.44
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (52 bp):
TATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCAT
Found at i:110687696 original size:24 final size:26
Alignment explanation
Indices: 110687660--110687710 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
110687650 TCAAACATGC
110687660 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
110687686 ATTT-GGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
110687710 A
1 A
110687711 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 3 0.13
26 4 0.17
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:110689228 original size:26 final size:26
Alignment explanation
Indices: 110689193--110689300 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
110689183 TGAAATGCCC
*
110689193 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
110689219 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
110689245 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
110689271 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
110689297 ATCA
1 ATCA
110689301 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:110690607 original size:26 final size:26
Alignment explanation
Indices: 110690571--110690678 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
110690561 TGATACAAAT
110690571 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
110690597 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
110690623 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
110690649 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
110690675 TGAT
1 TGAT
110690679 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:110696469 original size:31 final size:30
Alignment explanation
Indices: 110696433--110696490 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
110696423 ACATTTTCCT
*
110696433 TTTA-TTAATCTAGAAAATTCAATTAATTAAA
1 TTTATTTAAT-TAAAAAATT-AATTAATTAAA
110696464 TTTATTTAATTAAAAAATTAATTAATT
1 TTTATTTAATTAAAAAATTAATTAATT
110696491 TACTTAGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 8 0.32
31 12 0.48
32 5 0.20
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (30 bp):
TTTATTTAATTAAAAAATTAATTAATTAAA
Found at i:110713556 original size:80 final size:73
Alignment explanation
Indices: 110713457--110713660 Score: 210
Period size: 80 Copynumber: 2.7 Consensus size: 73
110713447 AACTAGGCCT
* *
110713457 AAAAATGTAAACATCAAAAATATATTAAATTATAGTTTAAAATAAAAAAAATAGGTAAAGACACT
1 AAAAATGTAAATATTAAAAATATATTAAATTATA-TTTAAAATAAAAAAAATA--TAAAGACACT
110713522 TGTGGTTATAC
63 TGTGGTTATAC
* * ** * * ***
110713533 AAAAAAAAATTTAAATATTAAAAAGATATTAAATTATATTGTAAAATAAAAAACCTATGAGGGGG
1 ----AAAAATGTAAATATTAAAAATATATTAAATTATATT-TAAAATAAAAAAAATATAAAGACA
110713598 CTTGTGGTTATAC
61 CTTGTGGTTATAC
* *
110713611 AAAAATGTAAATATTAAAAATGTATGAAATTATATTTTAAAATAAAAAAA
1 AAAAATGTAAATATTAAAAATATATTAAATTATA-TTTAAAATAAAAAAA
110713661 TGAACAAACT
Statistics
Matches: 106, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
74 42 0.40
75 2 0.02
78 16 0.15
79 2 0.02
80 44 0.42
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.30
Consensus pattern (73 bp):
AAAAATGTAAATATTAAAAATATATTAAATTATATTTAAAATAAAAAAAATATAAAGACACTTGT
GGTTATAC
Found at i:110719038 original size:35 final size:37
Alignment explanation
Indices: 110718967--110719064 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
110718957 ATAATCTTCA
110718967 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
110719005 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
110719040 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
110719065 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:110719064 original size:17 final size:19
Alignment explanation
Indices: 110718967--110719057 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
110718957 ATAATCTTCA
110718967 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
110718986 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
110719005 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
110719022 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
110719040 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
110719058 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:110719083 original size:22 final size:22
Alignment explanation
Indices: 110718967--110719080 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
110718957 ATAATCTTCA
110718967 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
110718986 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
110719005 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
110719022 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
110719040 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
110719062 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
110719081 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:110720145 original size:13 final size:13
Alignment explanation
Indices: 110720127--110720156 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
110720117 TGGATCCTTT
*
110720127 TTACATGTGTTTG
1 TTACATATGTTTG
110720140 TTACATATGTTTG
1 TTACATATGTTTG
110720153 TTAC
1 TTAC
110720157 CTTATTGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.10, G:0.17, T:0.53
Consensus pattern (13 bp):
TTACATATGTTTG
Found at i:110728684 original size:38 final size:39
Alignment explanation
Indices: 110728628--110728839 Score: 183
Period size: 46 Copynumber: 4.9 Consensus size: 39
110728618 CTGATATGAA
* *
110728628 ATGTTTAAGACCATGGTTGAAAGATACCATGACAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
110728667 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
110728710 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G
* *
110728758 ATGTGTAAGACCATGGTTGAAAGGTACCATGGCAACGTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
110728797 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
110728840 ATGACAGAAA
Statistics
Matches: 150, Mismatches: 6, Indels: 27
0.82 0.03 0.15
Matches are distributed among these distances:
38 34 0.23
39 1 0.01
41 4 0.03
43 2 0.01
44 1 0.01
46 107 0.71
48 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:110728734 original size:46 final size:46
Alignment explanation
Indices: 110728667--110728883 Score: 301
Period size: 46 Copynumber: 4.7 Consensus size: 46
110728657 TGACAACCTG
*
110728667 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
110728713 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
110728759 TGTGTAAGACCATGGTTGAAAGGTACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
110728805 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
110728851 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
110728884 TCACGTCAAA
Statistics
Matches: 155, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 154 0.99
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:110729189 original size:23 final size:25
Alignment explanation
Indices: 110729144--110729190 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
110729134 AATAAATATA
*
110729144 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
110729169 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
110729191 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:110731412 original size:78 final size:78
Alignment explanation
Indices: 110731313--110731492 Score: 317
Period size: 78 Copynumber: 2.3 Consensus size: 78
110731303 GTAACAAGCT
110731313 GAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTAGCATCTCTGTATTAGA
1 GAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTAGCATCTCTGTATTAGA
110731378 CGGGGAGCAGATC
66 CGGGGAGCAGATC
* *
110731391 GAAGACATAACAGAT-TGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAG
1 GAAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTAGCATCTCTGTATTAG
110731455 ACGGGGAGCAGATC
65 ACGGGGAGCAGATC
*
110731469 GAAGACATAGCAGATCTAACCTTC
1 GAAGACATAGCAGATCTGACCTTC
110731493 GGATGTTTTC
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
77 1 0.01
78 94 0.98
79 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (78 bp):
GAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTAGCATCTCTGTATTAGA
CGGGGAGCAGATC
Found at i:110731588 original size:89 final size:90
Alignment explanation
Indices: 110731418--110731627 Score: 241
Period size: 89 Copynumber: 2.4 Consensus size: 90
110731408 GACCTTCATT
***
110731418 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAAAAGGAGCAGATCGAAGACATAGCAGA
**
110731483 TCTAACCTTCGGATGTTTTCACATC
66 TCTAACCTTCACATGTTTTCACATC
* *
110731508 GAAGTAGATCCAAGATGATTTGGCATC-CTTGTGTT-GAAAAGGAGCAGATCGAAGACATAGCAG
1 GAAGCAGATCCAAGATGATTTGGCATCTC-TGTATTAGAAAAGGAGCAGATCGAAGACATAGCAG
* ** * *
110731571 ATTTGGCTTTCACATG-TTT-ACGGT-
65 ATCTAACCTTCACATGTTTTCAC-ATC
**
110731595 GAAGCAGATTTAAGATGATTTGGCATCTCTGTA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTA
110731628 CTGTCAGAGA
Statistics
Matches: 101, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
87 29 0.29
88 5 0.05
89 36 0.36
90 31 0.31
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (90 bp):
GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAAAAGGAGCAGATCGAAGACATAGCAGA
TCTAACCTTCACATGTTTTCACATC
Found at i:110731702 original size:131 final size:131
Alignment explanation
Indices: 110731549--110731834 Score: 500
Period size: 131 Copynumber: 2.2 Consensus size: 131
110731539 TGTTGAAAAG
*
110731549 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACATGTTTACGGTGAAGCAGATTTAAGATGAT
1 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACATGTTTACGGTGAAGCAGATCTAAGATGAT
**
110731614 TTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCAACTCCATATTCGACGG
66 TTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCAACTCCATATTCGACAA
110731679 A
131 A
* * *
110731680 GAGCAGATCGAAGACATAGCAGAATTGGCTTTCACGTGTTTACGTTGAAGCAGATCTAAGATGAT
1 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACATGTTTACGGTGAAGCAGATCTAAGATGAT
*
110731745 TTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAA
66 TTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCAACTCCATATTCGACAA
110731810 A
131 A
*
110731811 GAGCAGATCAAAGACATAGCAGAT
1 GAGCAGATCGAAGACATAGCAGAT
110731835 CTGACCTTCA
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
131 146 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (131 bp):
GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACATGTTTACGGTGAAGCAGATCTAAGATGAT
TTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCAACTCCATATTCGACAA
A
Found at i:110731920 original size:78 final size:78
Alignment explanation
Indices: 110731811--110732312 Score: 720
Period size: 78 Copynumber: 6.3 Consensus size: 78
110731801 ATTCGACAAA
* * * *
110731811 GAGCAGATCAAAGACATAGCAGATCT-GACCTTCATTGCAGTAGATCCAAGATGATTTGGCATCT
1 GAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCT
110731875 CTGTATTAGACGGG
65 CTGTATTAGACGGG
* * *
110731889 GAGCAAATCGAAGACATAACAGATTGAACCTTCATTGAAGCAGATCCAAGATGATTTGACATCTC
1 GAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
110731954 TGTATTAGACGGG
66 TGTATTAGACGGG
* *
110731967 GAGCAGATCAAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGCCATCTC
1 GAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
110732032 TGTATTAGACGGG
66 TGTATTAGACGGG
* *
110732045 GAGCAGATCGAAGACATAGCGGATCT-GACCTTCATGTGTTTACATTGAAGCAGATCCAAGATGA
1 GAGCAGATCGAAGACATAACAGAT-TGGA-C--C------TT-CATTGAAGCAGATCCAAGATGA
110732109 TTTGGCATCTCTGTATTAGACGGG
55 TTTGGCATCTCTGTATTAGACGGG
* *
110732133 GAGCAGATTGAAGACATAACAGATTGGACCTTCATCGAAGCAGATCCAAGATGATTTGGCATCTC
1 GAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
110732198 TGTATTAGACGGG
66 TGTATTAGACGGG
* * *
110732211 GAGCAGATTGAAGACATAACAGATTGGACCTTCATCGAAGCAGATCCAAGATGACTTGGCATCTC
1 GAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
110732276 TGTATTAGACGGG
66 TGTATTAGACGGG
* *
110732289 GAGCAAATCGAAGACATAGCAGAT
1 GAGCAGATCGAAGACATAACAGAT
110732313 CTAACCTTCA
Statistics
Matches: 388, Mismatches: 23, Indels: 26
0.89 0.05 0.06
Matches are distributed among these distances:
77 1 0.00
78 309 0.80
79 4 0.01
81 1 0.00
85 1 0.00
87 4 0.01
88 68 0.18
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (78 bp):
GAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
TGTATTAGACGGG
Found at i:110732128 original size:244 final size:244
Alignment explanation
Indices: 110731843--110732403 Score: 910
Period size: 244 Copynumber: 2.3 Consensus size: 244
110731833 ATCTGACCTT
* *
110731843 CATTGCAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAA
1 CATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAA
*
110731908 CAGATTGAACCTTCATTGAAGCAGATCCAAGATGATTTGACATCTCTGTATTAGACGGGGAGCAG
66 CAGATTGAACCTTCATCGAAGCAGATCCAAGATGATTTGACATCTCTGTATTAGACGGGGAGCAG
* *
110731973 ATCAAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGCCATCTCTGTATT
131 ATCAAAGACATAACAGATTGGACCTTCATCGAAGCAGATCCAAGATGACTTGCCATCTCTGTATT
* * *
110732038 AGACGGGGAGCAGATCGAAGACATAGCGGATCTGACCTTCATGTGTTTA
196 AGACGGGGAGCAAATCGAAGACATAGCAGATCTAACCTTCATGTGTTTA
* *
110732087 CATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACATAA
1 CATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAA
* *
110732152 CAGATTGGACCTTCATCGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
66 CAGATTGAACCTTCATCGAAGCAGATCCAAGATGATTTGACATCTCTGTATTAGACGGGGAGCAG
** *
110732217 ATTGAAGACATAACAGATTGGACCTTCATCGAAGCAGATCCAAGATGACTTGGCATCTCTGTATT
131 ATCAAAGACATAACAGATTGGACCTTCATCGAAGCAGATCCAAGATGACTTGCCATCTCTGTATT
110732282 AGACGGGGAGCAAATCGAAGACATAGCAGATCTAACCTTCATGTGTTTA
196 AGACGGGGAGCAAATCGAAGACATAGCAGATCTAACCTTCATGTGTTTA
* *
110732331 CATCGAAGCAGATCTAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCG--GAC
1 CATTGAAGCAGATCCAAGAT----GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGAC
*
110732394 ATAATAGATT
62 ATAACAGATT
110732404 TGGCATCTCT
Statistics
Matches: 293, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
244 247 0.84
246 12 0.04
248 34 0.12
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (244 bp):
CATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAA
CAGATTGAACCTTCATCGAAGCAGATCCAAGATGATTTGACATCTCTGTATTAGACGGGGAGCAG
ATCAAAGACATAACAGATTGGACCTTCATCGAAGCAGATCCAAGATGACTTGCCATCTCTGTATT
AGACGGGGAGCAAATCGAAGACATAGCAGATCTAACCTTCATGTGTTTA
Found at i:110732148 original size:88 final size:80
Alignment explanation
Indices: 110732090--110732403 Score: 381
Period size: 78 Copynumber: 3.9 Consensus size: 80
110732080 GTGTTTACAT
*
110732090 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACATAACAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAG
110732155 ATTGGACCTTCATC-
66 ATTGGACCTTCATCA
*
110732169 -GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACATAACAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAG
110732233 ATTGGACCTTCATC-
66 ATTGGACCTTCATCA
* * *
110732247 -GAAGCAGATCCAAGATGACTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAG
*
110732311 ATCT-AACCTTCATGTGTTTACA
66 AT-TGGACCTTCA------T-CA
* *
110732333 TCGAAGCAGATCTAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCG--GACAT
1 T-GAAGCAGATCCAAGAT----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAT
*
110732396 AATAGATT
61 AACAGATT
110732404 TGGCATCTCT
Statistics
Matches: 211, Mismatches: 9, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
78 147 0.70
79 1 0.00
84 1 0.00
85 1 0.00
88 15 0.07
89 1 0.00
90 10 0.05
92 35 0.17
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (80 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAG
ATTGGACCTTCATCA
Found at i:110732418 original size:45 final size:45
Alignment explanation
Indices: 110732266--110732475 Score: 183
Period size: 45 Copynumber: 4.6 Consensus size: 45
110732256 CCAAGATGAC
*
110732266 TTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACATAGCAGAT
1 TTGGCATCTCTGTATTAGACGGGGAGCAAATCG-A-ACATAACAGAT
* ** * * * * * * *
110732313 CTAACCT-TCATGTGTTTACATC--GAAGCAGATCTAAGATAACAGAT
1 TTGGCATCTC-TGT-ATTAGA-CGGGGAGCAAATCGAACATAACAGAT
* *
110732358 TTGGCATCTCTGTATTAGACGGGGAGCAAATCGGACATAATAGAT
1 TTGGCATCTCTGTATTAGACGGGGAGCAAATCGAACATAACAGAT
* * * *
110732403 TTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGAT
1 TTGGCATCTCTGTATTAGACGGGGAGCAAATCGAACATAACAGAT
* *
110732448 TTGGCGTCTCTGTATTAGATGGGGAGCA
1 TTGGCATCTCTGTATTAGACGGGGAGCA
110732476 GATCAAAGAT
Statistics
Matches: 125, Mismatches: 32, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
43 1 0.01
44 4 0.03
45 96 0.77
46 5 0.04
47 14 0.11
48 4 0.03
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (45 bp):
TTGGCATCTCTGTATTAGACGGGGAGCAAATCGAACATAACAGAT
Found at i:110732476 original size:45 final size:45
Alignment explanation
Indices: 110732337--110732492 Score: 213
Period size: 45 Copynumber: 3.5 Consensus size: 45
110732327 TTTACATCGA
*
110732337 AGCAGATCTAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * * *
110732382 AGCAAATCGGACATAATAGATTTGGCATCTCTGTATTAGACAGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
110732427 AGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTAGATGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
110732472 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
110732493 ATCGCCTTCC
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 96 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:110732709 original size:21 final size:20
Alignment explanation
Indices: 110732683--110732722 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
110732673 CAGGCCCAGA
*
110732683 AATAAATCCAAAAACAAAAAT
1 AATAAACCCAAAAA-AAAAAT
110732704 AATAAACCCAAAAAAAAAA
1 AATAAACCCAAAAAAAAAA
110732723 CGAAGTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.75, C:0.15, G:0.00, T:0.10
Consensus pattern (20 bp):
AATAAACCCAAAAAAAAAAT
Found at i:110732865 original size:19 final size:19
Alignment explanation
Indices: 110732841--110732932 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
110732831 ATAATCTTCA
110732841 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
110732860 ATGATATGCAATCTTATAT
1 ATGATATGCAATCTTAGAT
*
110732879 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
110732898 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
110732915 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
110732933 AGATATGATT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
17 16 0.24
19 51 0.76
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:110732873 original size:36 final size:38
Alignment explanation
Indices: 110732833--110732939 Score: 136
Period size: 36 Copynumber: 3.0 Consensus size: 38
110732823 ATGGAAATAT
110732833 AATCTT-CA-ATGATATGCAATCTTAGATATGATATGC
1 AATCTTACATATGATATGCAATCTTAGATATGATATGC
* *
110732869 AATCTTATATATGATATGTAATCTTAGATATGATA--C
1 AATCTTACATATGATATGCAATCTTAGATATGATATGC
* *
110732905 AATCTTAGATATGATATACAATCTTAGA-A-GATATG
1 AATCTTACATATGATATGCAATCTTAGATATGATATG
110732940 ATTTTGTAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
34 4 0.06
35 1 0.02
36 32 0.52
37 1 0.02
38 24 0.39
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.37
Consensus pattern (38 bp):
AATCTTACATATGATATGCAATCTTAGATATGATATGC
Found at i:110735824 original size:34 final size:34
Alignment explanation
Indices: 110735781--110735850 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
110735771 ATATATAATC
110735781 ATTAAAATAGATGTTATAAAATGAAGACATTTGA
1 ATTAAAATAGATGTTATAAAATGAAGACATTTGA
110735815 ATTAAAATAGATGTTATAAAATGAAGACATTTGA
1 ATTAAAATAGATGTTATAAAATGAAGACATTTGA
110735849 AT
1 AT
110735851 CAAATAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.14, T:0.33
Consensus pattern (34 bp):
ATTAAAATAGATGTTATAAAATGAAGACATTTGA
Found at i:110736326 original size:25 final size:25
Alignment explanation
Indices: 110736297--110736360 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
110736287 ATATATGTAC
*
110736297 AAATATATATAAAAATATTTAAATA
1 AAATATATATAAAAATATTAAAATA
* *
110736322 AAATAT-TATACATAATGTTAAAATA
1 AAATATATATA-AAAATATTAAAATA
*
110736347 ATATA-ATATAAAAA
1 AAATATATATAAAAA
110736361 CTTCAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
AAATATATATAAAAATATTAAAATA
Found at i:110746526 original size:2 final size:2
Alignment explanation
Indices: 110746519--110746567 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
110746509 ACTTAATCTT
110746519 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110746561 TA TA TA T
1 TA TA TA T
110746568 CTCTTAACTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:110746863 original size:2 final size:2
Alignment explanation
Indices: 110746856--110746888 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
110746846 CTTCAACTTT
110746856 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
110746889 TAAATCACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:110759628 original size:5 final size:5
Alignment explanation
Indices: 110759610--110759652 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
110759600 CTAATTTAAC
110759610 ATAAA ATCAAA ATAAA ATAAA ATAAGAA ATAAAA ATAAA ATAA
1 ATAAA AT-AAA ATAAA ATAAA AT-A-AA AT-AAA ATAAA ATAA
110759653 GATTTTTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 19 0.54
6 10 0.29
7 6 0.17
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:110759646 original size:18 final size:17
Alignment explanation
Indices: 110759610--110759654 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
110759600 CTAATTTAAC
*
110759610 ATAAAATCA-AAATAAA
1 ATAAAATAAGAAATAAA
110759626 ATAAAATAAGAAATAAAA
1 ATAAAATAAGAAAT-AAA
110759644 ATAAAATAAGA
1 ATAAAATAAGA
110759655 TTTTTTCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 8 0.31
17 4 0.15
18 14 0.54
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (17 bp):
ATAAAATAAGAAATAAA
Found at i:110760424 original size:17 final size:17
Alignment explanation
Indices: 110760402--110760438 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
110760392 TAACTTGAGC
*
110760402 TTTTATTTATTTATTCA
1 TTTTATTTAGTTATTCA
*
110760419 TTTTATTTAGTTATTTA
1 TTTTATTTAGTTATTCA
110760436 TTT
1 TTT
110760439 ATGTACAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTATTTAGTTATTCA
Found at i:110760457 original size:19 final size:19
Alignment explanation
Indices: 110760433--110760475 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
110760423 ATTTAGTTAT
110760433 TTATTTATGTACAAGCAAA
1 TTATTTATGTACAAGCAAA
110760452 TTATTTATGTACAAGCAAA
1 TTATTTATGTACAAGCAAA
110760471 -TATTT
1 TTATTT
110760476 TTTCAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (19 bp):
TTATTTATGTACAAGCAAA
Found at i:110778714 original size:19 final size:17
Alignment explanation
Indices: 110778674--110778716 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
110778664 AGCCGTGTGT
110778674 GACACACGGCCGTGTAA
1 GACACACGGCCGTGTAA
110778691 GACACACGGCCGTGTAA
1 GACACACGGCCGTGTAA
110778708 GACACACGG
1 GACACACGG
110778717 TCATGTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.30, C:0.30, G:0.30, T:0.09
Consensus pattern (17 bp):
GACACACGGCCGTGTAA
Found at i:110782568 original size:17 final size:17
Alignment explanation
Indices: 110782537--110782570 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
110782527 ACACTAATAT
**
110782537 TCTACTCATTGGGCCTA
1 TCTACTCATAAGGCCTA
110782554 TCTACTCATAAGGCCTA
1 TCTACTCATAAGGCCTA
110782571 CGAGAAAGGA
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:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (17 bp):
TCTACTCATAAGGCCTA
Found at i:110795298 original size:6 final size:6
Alignment explanation
Indices: 110795266--110795295 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
110795256 ACATATAACC
*
110795266 ATTTAT ATTTAT ATTTAT ATTTAT TTTTAT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT
110795296 TTTCCTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTAT
Found at i:110799753 original size:12 final size:12
Alignment explanation
Indices: 110799725--110799760 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
110799715 GCAAATGACT
*
110799725 CATTTCTCATTTT
1 CATTTC-CATTTC
110799738 CATTTCCATTTC
1 CATTTCCATTTC
110799750 CATTTCCATTT
1 CATTTCCATTT
110799761 TGAGAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (12 bp):
CATTTCCATTTC
Found at i:110799759 original size:18 final size:19
Alignment explanation
Indices: 110799725--110799760 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
110799715 GCAAATGACT
*
110799725 CATTTCTCATTTTCATTTC
1 CATTTCTCATTTCCATTTC
110799744 CATTTC-CATTTCCATTT
1 CATTTCTCATTTCCATTT
110799761 TGAGAAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (19 bp):
CATTTCTCATTTCCATTTC
Found at i:110805830 original size:17 final size:17
Alignment explanation
Indices: 110805776--110805875 Score: 60
Period size: 17 Copynumber: 5.9 Consensus size: 17
110805766 TTAGCATAAA
*
110805776 ATAACAGTTCATATGAA-
1 ATAACAGTTCAT-TCAAT
* *
110805793 ATAACAGTTTATGC-AT
1 ATAACAGTTCATTCAAT
*
110805809 AATAATAGTTCATTCAAT
1 -ATAACAGTTCATTCAAT
* * *
110805827 ATAACACTTCCTACAAT
1 ATAACAGTTCATTCAAT
* *
110805844 ATAGCAGCTCATTCAAT
1 ATAACAGTTCATTCAAT
* * *
110805861 GTAATAATTCATTCA
1 ATAACAGTTCATTCA
110805876 TACCACATTG
Statistics
Matches: 60, Mismatches: 20, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
15 1 0.02
17 57 0.95
18 2 0.03
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (17 bp):
ATAACAGTTCATTCAAT
Found at i:110810428 original size:97 final size:97
Alignment explanation
Indices: 110810289--110810484 Score: 392
Period size: 97 Copynumber: 2.0 Consensus size: 97
110810279 ATTTAACGAT
110810289 TAAACACCCTCAATTAAGTCACAAACATAGCATTTGCATGTCATCATACTTGTGTTTCTCATACT
1 TAAACACCCTCAATTAAGTCACAAACATAGCATTTGCATGTCATCATACTTGTGTTTCTCATACT
110810354 CATTTTATATCAAGTCTAGACATACCAAATCA
66 CATTTTATATCAAGTCTAGACATACCAAATCA
110810386 TAAACACCCTCAATTAAGTCACAAACATAGCATTTGCATGTCATCATACTTGTGTTTCTCATACT
1 TAAACACCCTCAATTAAGTCACAAACATAGCATTTGCATGTCATCATACTTGTGTTTCTCATACT
110810451 CATTTTATATCAAGTCTAGACATACCAAATCA
66 CATTTTATATCAAGTCTAGACATACCAAATCA
110810483 TA
1 TA
110810485 TTCATTTGGC
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 99 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (97 bp):
TAAACACCCTCAATTAAGTCACAAACATAGCATTTGCATGTCATCATACTTGTGTTTCTCATACT
CATTTTATATCAAGTCTAGACATACCAAATCA
Found at i:110812388 original size:49 final size:48
Alignment explanation
Indices: 110812179--110812397 Score: 222
Period size: 48 Copynumber: 4.5 Consensus size: 48
110812169 ACATGTCGAC
* * * * * *
110812179 GCCATATCCCAGATATGGTCTTACACTAGCACACATATCATCTCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCAAT
* * * * * * *
110812227 GCCATATCCCAGATATGGTCTTAAACTGGAACACATGTCAACACCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCAAT
* * *
110812275 GCCATGTCCCAGACATGGTCTTACATTGGCAGACATATCAACGTCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCAAT
* * * * * *
110812323 GCCATGTCCTAGACATGGTCTTACACTGGCTCTCATCTCGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-AACGCCAAT
*
110812372 GCCATGTCCCAAACATGGTCTTACAC
1 GCCATGTCCCAGACATGGTCTTACAC
110812398 GAGATCTCAT
Statistics
Matches: 143, Mismatches: 27, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
48 113 0.79
49 30 0.21
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCCAAT
Found at i:110814415 original size:96 final size:96
Alignment explanation
Indices: 110814246--110814436 Score: 301
Period size: 96 Copynumber: 2.0 Consensus size: 96
110814236 CGAAAGAAGG
* * *
110814246 AATACGATTGAGCTATCACCTTTTGTGCAATGTTGTTGGTGTAGTTCAAATGATCATAAGGGTTT
1 AATACGATTGAGCTATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGGATTT
**
110814311 TTAATGTCCAAATAAATATCCAAATAGAGAT
66 CCAATGTCCAAATAAATATCCAAATAGAGAT
*
110814342 AATATGATTGAGCTATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGGATTT
1 AATACGATTGAGCTATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGGATTT
* * *
110814407 CCAGTGTCCAATTAAATATCCAACTAGAGA
66 CCAATGTCCAAATAAATATCCAAATAGAGA
110814437 AGAAAGTAAG
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (96 bp):
AATACGATTGAGCTATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGGATTT
CCAATGTCCAAATAAATATCCAAATAGAGAT
Found at i:110817852 original size:23 final size:23
Alignment explanation
Indices: 110817826--110817870 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
110817816 ATAAAAAGTA
* * *
110817826 AATTTTTTTATTTTATATATTTT
1 AATTTTGTTATGTTAAATATTTT
110817849 AATTTTGTTATGTTAAATATTT
1 AATTTTGTTATGTTAAATATTT
110817871 ATGTATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
AATTTTGTTATGTTAAATATTTT
Found at i:110819307 original size:53 final size:52
Alignment explanation
Indices: 110819212--110819317 Score: 133
Period size: 52 Copynumber: 2.0 Consensus size: 52
110819202 AATTGAATAG
*
110819212 TTGAGTGATCATTTTGTAACTTTTCGTAGTTGAGTGACAAAAAAAAATACTAA
1 TTGAGTGATCATTTTGTAACTTTTCATAGTTGAGTG-CAAAAAAAAATACTAA
* * * * *
110819265 TTGAGTGATTATTTTGTAAC-TTTCATATTTGGGTGTTAAAAAAAATTACTAA
1 TTGAGTGATCATTTTGTAACTTTTCATAGTTGAGTG-CAAAAAAAAATACTAA
110819317 T
1 T
110819318 AGTTAGATAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 27 0.59
53 19 0.41
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.41
Consensus pattern (52 bp):
TTGAGTGATCATTTTGTAACTTTTCATAGTTGAGTGCAAAAAAAAATACTAA
Found at i:110822875 original size:68 final size:70
Alignment explanation
Indices: 110822746--110822874 Score: 183
Period size: 67 Copynumber: 1.9 Consensus size: 70
110822736 TTAAATGTTT
* *
110822746 AATGAGAATTTTAAAAAAAATTAAAAGACATTAATTAAAATTTTCAAAAAAAATTTAAAAAATAT
1 AATGAGAATTTT-AAAAAAATTAAAAGACACTAATTAAAATTTTCAAAAAAAATTAAAAAAATAT
110822811 AATAAG
65 AATAAG
* * *
110822817 AATGAGAATTTT-AAAAAATTGAAGGAC-CTAATTAAAATTTTC-AAAAAACTTAAAAAAA
1 AATGAGAATTTTAAAAAAATTAAAAGACACTAATTAAAATTTTCAAAAAAAATTAAAAAAA
110822875 AAAAATCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
67 14 0.26
68 14 0.26
69 13 0.25
71 12 0.23
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.29
Consensus pattern (70 bp):
AATGAGAATTTTAAAAAAATTAAAAGACACTAATTAAAATTTTCAAAAAAAATTAAAAAAATATA
ATAAG
Found at i:110822878 original size:71 final size:70
Alignment explanation
Indices: 110822746--110822878 Score: 162
Period size: 68 Copynumber: 1.9 Consensus size: 70
110822736 TTAAATGTTT
* ***
110822746 AATGAGAATTTTAAAAAAAATTAAAAGACATTAATTAAAATTTTCAAAAAAAATTTAAAAAATAT
1 AATGAGAATTTT-AAAAAAATTAAAAGACACTAATTAAAATTTTCAAAAAAAAAAAAAAAAATAT
110822811 AATAAG
65 AATAAG
* *
110822817 AATGAGAATTTT-AAAAAATTGAAGGAC-CTAATTAAAATTTTCAAAAAACTTAAAAAAAAAAA
1 AATGAGAATTTTAAAAAAATTAAAAGACACTAATTAAAATTTTCAAAAAA---AAAAAAAAAAA
110822879 ATCAAAATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
68 20 0.38
69 13 0.25
71 20 0.38
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.28
Consensus pattern (70 bp):
AATGAGAATTTTAAAAAAATTAAAAGACACTAATTAAAATTTTCAAAAAAAAAAAAAAAAATATA
ATAAG
Found at i:110834590 original size:15 final size:17
Alignment explanation
Indices: 110834570--110834601 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
110834560 TCATTTCATT
110834570 TATAT-AAT-CATAAAA
1 TATATAAATGCATAAAA
110834585 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
110834602 AGATTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:110837723 original size:19 final size:19
Alignment explanation
Indices: 110837701--110837739 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
110837691 TTAACTGTAA
110837701 TTTATTACTGTAAGTTATT
1 TTTATTACTGTAAGTTATT
* *
110837720 TTTATTGCTGTAATTTATT
1 TTTATTACTGTAAGTTATT
110837739 T
1 T
110837740 AGTTTAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTATTACTGTAAGTTATT
Found at i:110840634 original size:9 final size:9
Alignment explanation
Indices: 110840620--110840644 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
110840610 TTTTGTTTTT
110840620 GTTAATTCG
1 GTTAATTCG
110840629 GTTAATTCG
1 GTTAATTCG
110840638 GTTAATT
1 GTTAATT
110840645 TTTATACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (9 bp):
GTTAATTCG
Found at i:110842209 original size:19 final size:18
Alignment explanation
Indices: 110842185--110842223 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
110842175 AAATTTACAT
110842185 AATAAACCACTATAAACTA
1 AATAAACCACTA-AAACTA
* *
110842204 AATAAACTATTAAAACTA
1 AATAAACCACTAAAACTA
110842222 AA
1 AA
110842224 AACATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAACCACTAAAACTA
Found at i:110843143 original size:13 final size:13
Alignment explanation
Indices: 110843125--110843150 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110843115 ACACGGACGG
110843125 GTGGACCATACAA
1 GTGGACCATACAA
110843138 GTGGACCATACAA
1 GTGGACCATACAA
110843151 CTATGTGCCT
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:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (13 bp):
GTGGACCATACAA
Found at i:110843586 original size:38 final size:38
Alignment explanation
Indices: 110843544--110843616 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
110843534 GCCTACTATT
* *
110843544 ATTGTTGATCCAAAAACATATTAAACATGTCTACTGCC
1 ATTGTTAAACCAAAAACATATTAAACATGTCTACTGCC
* * * *
110843582 ATTGTTAAACTAAATACATGTTAAGCATGTCTACT
1 ATTGTTAAACCAAAAACATATTAAACATGTCTACT
110843617 TTTTTTTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (38 bp):
ATTGTTAAACCAAAAACATATTAAACATGTCTACTGCC
Found at i:110852171 original size:26 final size:27
Alignment explanation
Indices: 110852134--110852185 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
110852124 TTATAAGCGT
*
110852134 CCCATTATAAGGCTCTTCATGAGCTTC
1 CCCATTATAAGGATCTTCATGAGCTTC
**
110852161 CCCATTA-AAGGATCTTTGTGAGCTT
1 CCCATTATAAGGATCTTCATGAGCTT
110852186 TTTGATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
CCCATTATAAGGATCTTCATGAGCTTC
Found at i:110855529 original size:10 final size:10
Alignment explanation
Indices: 110855478--110855562 Score: 50
Period size: 10 Copynumber: 8.7 Consensus size: 10
110855468 AATACATAAT
*
110855478 TTATTAAAAA
1 TTATAAAAAA
*
110855488 TTAGAAAAAAA
1 TTA-TAAAAAA
*
110855499 TTAT-AAGAA
1 TTATAAAAAA
** *
110855508 TCGTAGAAAA
1 TTATAAAAAA
110855518 TTATAAAAAA
1 TTATAAAAAA
* **
110855528 TTGTAAAATT
1 TTATAAAAAA
110855538 TTAT-AAAAA
1 TTATAAAAAA
*
110855547 TCATAAAAAA
1 TTATAAAAAA
110855557 -TATAAA
1 TTATAAA
110855563 TGCATTAGCA
Statistics
Matches: 53, Mismatches: 19, Indels: 7
0.67 0.24 0.09
Matches are distributed among these distances:
9 17 0.32
10 28 0.53
11 8 0.15
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:110855848 original size:17 final size:17
Alignment explanation
Indices: 110855813--110855846 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
110855803 TATAAAAAAA
*
110855813 TATAATTCTTTATATTT
1 TATAATTCTTTAAATTT
110855830 TATAATT-TTTAAATTT
1 TATAATTCTTTAAATTT
110855846 T
1 T
110855847 TAACAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TATAATTCTTTAAATTT
Found at i:110855868 original size:30 final size:28
Alignment explanation
Indices: 110855826--110855905 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 28
110855816 AATTCTTTAT
*
110855826 ATTTTATAATTTTTAAATTTTTAACAAA
1 ATTTAATAATTTTTAAATTTTTAACAAA
* **
110855854 ATTTAAATATATTTTTATATTTTTATTAAA
1 ATTT-AATA-ATTTTTAAATTTTTAACAAA
*
110855884 ATTTAATAATTTTATAACTTTT
1 ATTTAATAATTTT-TAAATTTT
110855906 AGTGATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
28 9 0.21
29 13 0.30
30 21 0.49
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (28 bp):
ATTTAATAATTTTTAAATTTTTAACAAA
Found at i:110859573 original size:57 final size:57
Alignment explanation
Indices: 110859485--110859610 Score: 207
Period size: 57 Copynumber: 2.2 Consensus size: 57
110859475 GAAACATAGC
* * *
110859485 TTTATCATAATCACATTACATTGAAGAAGTTCTTAAAAAGTTTGATCTTTTCAATTG
1 TTTATCAAAATCACATTACATTGAAAAAGTTCTTAAAAAGTTTGATCATTTCAATTG
110859542 TTTATCAAAATCACATTACATTGAAAAAGTTCTTAAAAAGTTTGATCATTTCAATTG
1 TTTATCAAAATCACATTACATTGAAAAAGTTCTTAAAAAGTTTGATCATTTCAATTG
* *
110859599 TCTATCAGAATC
1 TTTATCAAAATC
110859611 TACACCCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 64 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (57 bp):
TTTATCAAAATCACATTACATTGAAAAAGTTCTTAAAAAGTTTGATCATTTCAATTG
Found at i:110861606 original size:24 final size:24
Alignment explanation
Indices: 110861579--110861626 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
110861569 TGCATCACAT
*
110861579 ATCATATACC-AAAATCAAACCATA
1 ATCATA-ACCGAAAACCAAACCATA
*
110861603 ATCATAACCGAAAACCAAGCCATA
1 ATCATAACCGAAAACCAAACCATA
110861627 TCACATGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.52, C:0.27, G:0.04, T:0.17
Consensus pattern (24 bp):
ATCATAACCGAAAACCAAACCATA
Found at i:110863847 original size:20 final size:20
Alignment explanation
Indices: 110863824--110863865 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
110863814 AACTATTCAA
*
110863824 ATAATATTACTTGAATAGTT
1 ATAATATTACTTGAATAATT
*
110863844 ATAATATTAGTTGAATAATT
1 ATAATATTACTTGAATAATT
110863864 AT
1 AT
110863866 GTGTCTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (20 bp):
ATAATATTACTTGAATAATT
Found at i:110871474 original size:137 final size:137
Alignment explanation
Indices: 110871255--110871527 Score: 316
Period size: 137 Copynumber: 2.0 Consensus size: 137
110871245 TGTCATTAGG
* * * * * *
110871255 GTTACAATGTTTCAGGTGCTGGTCCTGAACGTCCTACCGGTGCTGAGTTTTCGTCATGCGTTGCG
1 GTTACAATGTTGCAGGTGCTGGTCCTGAACGTCCTACCGATGCTGAGTGTCCGGCATGAGTTGCG
** * * * * *
110871320 GTTACTTGACAGCTTGTGTGAGCAACACTGTGTAAC-TACGTTCCGACCGATAGCTTGTGTGAGC
66 AATACTCGACAGCTTGTGTGAGCAACA-TATGTAACTTACATTCCGACCGACAACTTGTGTGAGC
*
110871384 AGACCCAA
130 ACACCCAA
* * * * *
110871392 GTTACCATGTTGCGGGTGCTGGTCTTGAATGTCCTACCGATGGCTGAG-GTCCGGCATTAGTTGC
1 GTTACAATGTTGCAGGTGCTGGTCCTGAACGTCCTACCGAT-GCTGAGTGTCCGGCATGAGTTGC
* **
110871456 GAATACTCGACAGCTTGTGTGAGCAACATATGTAGCTTACATTTTGACCGACAACTTGTGTGAGC
65 GAATACTCGACAGCTTGTGTGAGCAACATATGTAACTTACATTCCGACCGACAACTTGTGTGAGC
110871521 ACACCCA
130 ACACCCA
110871528 TTTTACAGCT
Statistics
Matches: 112, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
136 6 0.05
137 100 0.89
138 6 0.05
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (137 bp):
GTTACAATGTTGCAGGTGCTGGTCCTGAACGTCCTACCGATGCTGAGTGTCCGGCATGAGTTGCG
AATACTCGACAGCTTGTGTGAGCAACATATGTAACTTACATTCCGACCGACAACTTGTGTGAGCA
CACCCAA
Done.