Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 43 of 189
Found at i:12643250 original size:13 final size:13
Alignment explanation
Indices: 12643232--12643293 Score: 88
Period size: 13 Copynumber: 4.8 Consensus size: 13
12643222 TTCTTCATTA
12643232 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
*
12643245 CTTTTGAGAAGCG
1 CTTTTGAGAAGTG
*
12643258 CTTTTCAGAAGTG
1 CTTTTGAGAAGTG
* *
12643271 TTTTTAAGAAGTG
1 CTTTTGAGAAGTG
12643284 CTTTTGAGAA
1 CTTTTGAGAA
12643294 TTTTGAGTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (13 bp):
CTTTTGAGAAGTG
Found at i:12645417 original size:16 final size:16
Alignment explanation
Indices: 12645396--12645429 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
12645386 TTTTCAATTT
12645396 TTCCATGTGTAATGAA
1 TTCCATGTGTAATGAA
*
12645412 TTCCATGTGTAATTAA
1 TTCCATGTGTAATGAA
12645428 TT
1 TT
12645430 GAATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (16 bp):
TTCCATGTGTAATGAA
Found at i:12648492 original size:12 final size:12
Alignment explanation
Indices: 12648467--12648506 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
12648457 CCAACAGAGT
*
12648467 GAAAAAGAGGAA
1 GAAAAAGAAGAA
* *
12648479 GAAGAAGAATAA
1 GAAAAAGAAGAA
12648491 GAAAAAGAAGAA
1 GAAAAAGAAGAA
12648503 GAAA
1 GAAA
12648507 CCACTGCTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.03
Consensus pattern (12 bp):
GAAAAAGAAGAA
Found at i:12649082 original size:25 final size:25
Alignment explanation
Indices: 12649032--12649084 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
12649022 AAACTGAAGT
*
12649032 TTTTTTCAATTAGTATCAAAGGAGG
1 TTTTTTCAATTAGTATCAAAGCAGG
* *
12649057 TTTTTTCATTTGGTATCAGAA-CAGG
1 TTTTTTCAATTAGTATCA-AAGCAGG
12649082 TTT
1 TTT
12649085 CAGACACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.45
Consensus pattern (25 bp):
TTTTTTCAATTAGTATCAAAGCAGG
Found at i:12652050 original size:14 final size:15
Alignment explanation
Indices: 12652024--12652053 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12652014 TTGAAGGCTG
12652024 GAGAGATAAAAAGGT
1 GAGAGATAAAAAGGT
12652039 GAGAGA-AAAAAGGT
1 GAGAGATAAAAAGGT
12652053 G
1 G
12652054 GAGTCGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.37, T:0.10
Consensus pattern (15 bp):
GAGAGATAAAAAGGT
Found at i:12653271 original size:16 final size:16
Alignment explanation
Indices: 12653246--12653281 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
12653236 GATTGCAATG
12653246 AATTTCATGTTTAGTT
1 AATTTCATGTTTAGTT
*
12653262 AATTTTATGTTTAGTT
1 AATTTCATGTTTAGTT
12653278 AATT
1 AATT
12653282 AAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.58
Consensus pattern (16 bp):
AATTTCATGTTTAGTT
Found at i:12660958 original size:15 final size:15
Alignment explanation
Indices: 12660938--12660967 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12660928 TTGAACATTT
12660938 AAATAATAAAAATAA
1 AAATAATAAAAATAA
12660953 AAATAATAAAAATAA
1 AAATAATAAAAATAA
12660968 GTTCAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAATAAAAATAA
Found at i:12668231 original size:21 final size:22
Alignment explanation
Indices: 12668207--12668247 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12668197 GCTCTATACT
* *
12668207 TATAA-ACCATAACCGAATCTA
1 TATAATACCAAAACCAAATCTA
12668228 TATAATACCAAAACCAAATC
1 TATAATACCAAAACCAAATC
12668248 ACACCATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.24, G:0.02, T:0.22
Consensus pattern (22 bp):
TATAATACCAAAACCAAATCTA
Found at i:12676694 original size:32 final size:32
Alignment explanation
Indices: 12676651--12676727 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
12676641 GAAAATAAAT
** *
12676651 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
12676683 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
12676715 GATGAAAAGTTAC
1 TATGAAAAGTTAC
12676728 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:12681200 original size:32 final size:32
Alignment explanation
Indices: 12681157--12681233 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
12681147 CAAAATAAAT
** *
12681157 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
12681189 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
12681221 GATGAAAAGTTAC
1 TATGAAAAGTTAC
12681234 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:12682696 original size:18 final size:17
Alignment explanation
Indices: 12682663--12682701 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
12682653 TTGTATAAAT
12682663 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
12682681 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
12682698 TGTG
1 TGTG
12682702 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:12682954 original size:23 final size:23
Alignment explanation
Indices: 12682927--12683024 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
12682917 AGTGTTATTG
12682927 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
12682950 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
12682973 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12682995 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12683018 ATCAGTG
1 ATCAGTG
12683025 TGACACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:12682993 original size:45 final size:45
Alignment explanation
Indices: 12682929--12683017 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
12682919 TGTTATTGAT
* *
12682929 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
12682974 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
12683018 ATCAGTGTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:12688921 original size:21 final size:20
Alignment explanation
Indices: 12688897--12688945 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
12688887 AAATAAGAGG
* *
12688897 GAAAGAAAGAAAATAAGGGAA
1 GAAAGAAAGAAAAGAA-AGAA
12688918 GAAAGAAAGAAAAGAAAGAA
1 GAAAGAAAGAAAAGAAAGAA
12688938 GAAAGAAA
1 GAAAGAAA
12688946 AAGAAGAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (20 bp):
GAAAGAAAGAAAAGAAAGAA
Found at i:12688936 original size:17 final size:17
Alignment explanation
Indices: 12688897--12688946 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
12688887 AAATAAGAGG
*
12688897 GAAAGAAAGAAA-ATAAG
1 GAAAGAAAGAAAGA-AAA
*
12688914 GGAAGAAAGAAAGAAAA
1 GAAAGAAAGAAAGAAAA
12688931 GAAAG-AAGAAAGAAAA
1 GAAAGAAAGAAAGAAAA
12688947 AGAAGAGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 11 0.38
17 17 0.59
18 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (17 bp):
GAAAGAAAGAAAGAAAA
Found at i:12706069 original size:50 final size:50
Alignment explanation
Indices: 12705996--12706580 Score: 387
Period size: 50 Copynumber: 11.7 Consensus size: 50
12705986 GCAATTCAAA
* * *
12705996 AGATTGAATCCACAACGGCGAATCTTACTTTCCAGGCGATGCAGCAGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
* * * * * *
12706046 AGATTGAAGCTACGACGGTGAATCTCACTTCCCCGAC-ATTGCAATTCA-AA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA-TGC-A-GCAGAAC
* * *
12706096 AGATTGAGGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGGCGATGCAGCAGAAC
* * * * * * *
12706147 AGATTGAAGCTACGACGACGAATCTCACTTCCCTGAC-ATTACAATTCA-AA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA-TGC-A-GCAGAAC
* * * *
12706197 AGATTGAGGCCACAACGGTGAATCTTACTTTCCCAGGCGATGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGGCGATGCAGCAGAAC
* * * *
12706248 AGATTGAAGCTACGACGGTGAATCTCACTTCCCCA-AC-ATTGCAAGTCA-AA-
1 AGATTGAAGCTACAACGGCGAATCTTACTT-CCCAGGCGA-TGC-AG-CAGAAC
* * **
12706298 AGATTGAGGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGGCGATGCAGCAGAAC
* * * * *
12706349 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGAC-ATTGTAATTCA-AA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA-TG-CA-GCAGAAC
* * **
12706399 ATATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATACAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
* * * * *
12706449 AGATTGAAGCTACAACGGCAAATCTTGCTTCCCTA-AC-ATTGTAATTCA-AA-
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCC-AGGCGA-TG-CA-GCAGAAC
* * ** *
12706499 AGATTGAAGCTACAATGGCGAATCTTACTT-CCAGGCGATGTAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
* * *
12706548 AGACTGAAGCTACGATGGCGAATCTTACTTCCC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCC
12706581 TGACATTGCA
Statistics
Matches: 407, Mismatches: 90, Indels: 76
0.71 0.16 0.13
Matches are distributed among these distances:
48 4 0.01
49 43 0.11
50 234 0.57
51 119 0.29
52 7 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGCAGAAC
Found at i:12706173 original size:101 final size:101
Alignment explanation
Indices: 12705984--12706590 Score: 853
Period size: 101 Copynumber: 6.0 Consensus size: 101
12705974 AAACCATGGT
* *
12705984 TTGCAATTCAAAAGATTGAATCCACAACGGCGAATCTTACTTT-CCAGGCGATGCAGCAGAACAG
1 TTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
* *
12706048 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCTGACA
*
12706084 TTGCAATTCAAAAGATTGAGGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
1 TTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
*
12706149 ATTGAAGCTACGACGACGAATCTCACTTCCCTGACA
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCTGACA
* * *
12706185 TTACAATTCAAAAGATTGAGGCCACAACGGTGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
1 TTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
* **
12706250 ATTGAAGCTACGACGGTGAATCTCACTTCCCCAACA
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCTGACA
* * *
12706286 TTGCAAGTCAAAAGATTGAGGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAG
1 TTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
* **
12706351 ATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACA
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCTGACA
* * * * *
12706387 TTGTAATTCAAAATATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGGCGATACAGTGGAACAG
1 TTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
* * ** *
12706451 ATTGAAGCTACAACGGCAAATCTTGCTTCCCTAACA
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCTGACA
* * * * * *
12706487 TTGTAATTCAAAAGATTGAAGCTACAATGGCGAATCTTAC-TT-CCAGGCGATGTAGTGGAATAG
1 TTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
* * *
12706550 ACTGAAGCTACGATGGCGAATCTTACTTCCCTGACA
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCTGACA
12706586 TTGCA
1 TTGCA
12706591 GTTATACAAA
Statistics
Matches: 464, Mismatches: 42, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
99 52 0.11
100 138 0.30
101 274 0.59
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (101 bp):
TTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGCGGAACAG
ATTGAAGCTACGACGGCGAATCTCACTTCCCTGACA
Found at i:12716982 original size:16 final size:15
Alignment explanation
Indices: 12716946--12716986 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
12716936 GAAGGCAAAC
12716946 ATAATTTATATATTT
1 ATAATTTATATATTT
12716961 AT-ATTTATATATTTT
1 ATAATTTATATA-TTT
*
12716976 TTAATTTATAT
1 ATAATTTATAT
12716987 TTGTTACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.39
15 6 0.26
16 8 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATAATTTATATATTT
Found at i:12716985 original size:14 final size:14
Alignment explanation
Indices: 12716946--12716988 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
12716936 GAAGGCAAAC
12716946 ATAATTTATATATTT
1 ATAATTTATAT-TTT
*
12716961 ATATTTATATATTTT
1 ATAATT-TATATTTT
*
12716976 TTAATTTATATTT
1 ATAATTTATATTT
12716989 GTTACTTAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 7 0.29
15 12 0.50
16 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATAATTTATATTTT
Found at i:12727872 original size:28 final size:27
Alignment explanation
Indices: 12727841--12727914 Score: 112
Period size: 28 Copynumber: 2.7 Consensus size: 27
12727831 TAATAATCAC
* *
12727841 ACTCGCACACTTAGTGCTTTACCATTAT
1 ACTCGCACACTTAGTGCTTT-CAATTAA
12727869 ACTCGCACACTTAGTGCATTTCAATTAA
1 ACTCGCACACTTAGTGC-TTTCAATTAA
12727897 ACTCGCACACTTAGTGCT
1 ACTCGCACACTTAGTGCT
12727915 AATCTCATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 1 0.02
28 39 0.91
29 3 0.07
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.32
Consensus pattern (27 bp):
ACTCGCACACTTAGTGCTTTCAATTAA
Found at i:12730965 original size:8 final size:8
Alignment explanation
Indices: 12730952--12730976 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
12730942 TATACTAAAC
12730952 AATAAAAT
1 AATAAAAT
12730960 AATAAAAT
1 AATAAAAT
12730968 AATAAAAT
1 AATAAAAT
12730976 A
1 A
12730977 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:12739254 original size:19 final size:20
Alignment explanation
Indices: 12739217--12739257 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
12739207 TACAACACAA
*
12739217 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
12739237 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
12739256 TT
1 TT
12739258 GCCTTAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:12741888 original size:36 final size:36
Alignment explanation
Indices: 12741836--12741919 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
12741826 ATATATAATT
* * * * *
12741836 ATCACTTTTAAATATTACAACTATATCATTATGCCGA
1 ATCACTTAT-AATATTACAAATACATCAATAGGCCGA
12741873 ATCACTTATAATATTACAAATACATCAATAGGCCGA
1 ATCACTTATAATATTACAAATACATCAATAGGCCGA
*
12741909 ATTACTTATAA
1 ATCACTTATAA
12741920 GTTCAATTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
36 33 0.80
37 8 0.20
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.35
Consensus pattern (36 bp):
ATCACTTATAATATTACAAATACATCAATAGGCCGA
Found at i:12742189 original size:43 final size:43
Alignment explanation
Indices: 12742123--12742243 Score: 149
Period size: 43 Copynumber: 2.8 Consensus size: 43
12742113 GGCTCGTACA
* * *
12742123 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCATATA-TTG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACA-AGTCG
*
12742166 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAAACACAAGTCG
*
12742209 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAAC
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAAC
12742244 GCATATCGGA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 4 0.06
43 60 0.90
44 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACAAGTCG
Found at i:12747565 original size:36 final size:36
Alignment explanation
Indices: 12747484--12747565 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
12747474 GTAATATTGT
*
12747484 TACTGGTATATTGTTGCTTATGTTGTTATACATAGC
1 TACTGGTATATTGTTGCTTATATTGTTATACATAGC
** *
12747520 TGTTGGTATATTGTTGCTTATATTGTTATACATGGC
1 TACTGGTATATTGTTGCTTATATTGTTATACATAGC
*
12747556 TACTAGTATA
1 TACTGGTATA
12747566 CATAGCTAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.48
Consensus pattern (36 bp):
TACTGGTATATTGTTGCTTATATTGTTATACATAGC
Found at i:12747846 original size:23 final size:24
Alignment explanation
Indices: 12747801--12747846 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
12747791 AGATAAAAAA
*
12747801 ACATTTGTATTTCTCAATTCTCAC
1 ACATTTGTATTTCTCAATACTCAC
*
12747825 ACATTTGT-TTTTTCAATACTCA
1 ACATTTGTATTTCTCAATACTCA
12747847 TATGTTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.26, C:0.22, G:0.04, T:0.48
Consensus pattern (24 bp):
ACATTTGTATTTCTCAATACTCAC
Found at i:12748285 original size:21 final size:21
Alignment explanation
Indices: 12748259--12748310 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
12748249 ATCTTTATGG
*
12748259 TGAGTTGGGGCAACTTGTTGA-
1 TGAGTTGGGGCAACTTG-TAAT
*
12748280 TGAGTTGGGGCAATTTGTAAT
1 TGAGTTGGGGCAACTTGTAAT
12748301 TGAGTTGGGG
1 TGAGTTGGGG
12748311 TAACATATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.19, C:0.06, G:0.40, T:0.35
Consensus pattern (21 bp):
TGAGTTGGGGCAACTTGTAAT
Found at i:12749119 original size:26 final size:25
Alignment explanation
Indices: 12749047--12749132 Score: 109
Period size: 26 Copynumber: 3.3 Consensus size: 25
12749037 CACACCTACC
12749047 TAAAAAATAGTCACTACATGCATATTAT
1 TAAAAAATAGTCACTACATG--TA-TAT
* *
12749075 TAAAAAATACTCATTACATGTATAT
1 TAAAAAATAGTCACTACATGTATAT
*
12749100 TAAAAAATAGTCAACAACATGTATAT
1 TAAAAAATAGTC-ACTACATGTATAT
12749126 TAAAAAA
1 TAAAAAA
12749133 ACAGTCATGC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
25 14 0.27
26 20 0.38
28 18 0.35
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (25 bp):
TAAAAAATAGTCACTACATGTATAT
Found at i:12749221 original size:26 final size:25
Alignment explanation
Indices: 12749168--12749231 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
12749158 ACATTCATAT
* *
12749168 TATTAAAAAATACTCACTGCATGCA
1 TATTAAAAAATAGTCACAGCATGCA
* *
12749193 TATTAAAAAATAGTCAACAGTATGTA
1 TATTAAAAAATAGTC-ACAGCATGCA
12749219 TATTAAAAAATAG
1 TATTAAAAAATAG
12749232 GCGTACACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (25 bp):
TATTAAAAAATAGTCACAGCATGCA
Found at i:12749285 original size:96 final size:95
Alignment explanation
Indices: 12749072--12749286 Score: 237
Period size: 95 Copynumber: 2.3 Consensus size: 95
12749062 ACATGCATAT
*
12749072 TATTAAAAAATACTCATTACATG--T-ATATTAAAAAATAGTCAACAACATGTATATTAAAAAAA
1 TATTAAAAAATA-TCACTACATGCATGATATTAAAAAATAGTCAACAACATGTATATTAAAAAAA
* * *
12749134 CAGTCATGCACACCAACAATCACAACATTCA
65 CAGGCATACACACCAACAATCACAACATGCA
**
12749165 TATTATTAAAAA-AT-ACT-CACTGCATGCATATTAAAAAATAGTCAACAGTATGTATATT-AAA
1 TATTA--AAAAATATCACTACA-TGCATG-ATATTAAAAAATAGTCAACAACATGTATATTAAAA
* * **
12749226 AAATAGGCGTACACACCAACAATCACTGCATGCA
62 AAACAGGCATACACACCAACAATCACAACATGCA
12749260 TATTAAAAAATAGTCACTACATGCATG
1 TATTAAAAAATA-TCACTACATGCATG
12749287 TTAAAAACAC
Statistics
Matches: 101, Mismatches: 10, Indels: 19
0.78 0.08 0.15
Matches are distributed among these distances:
91 2 0.02
92 4 0.04
93 11 0.11
94 3 0.03
95 41 0.41
96 38 0.38
97 2 0.02
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (95 bp):
TATTAAAAAATATCACTACATGCATGATATTAAAAAATAGTCAACAACATGTATATTAAAAAAAC
AGGCATACACACCAACAATCACAACATGCA
Found at i:12749300 original size:24 final size:25
Alignment explanation
Indices: 12749243--12749302 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
12749233 CGTACACACC
*
12749243 AACAATCACTGCATGCATATTAAAA
1 AACAATCACTACATGCATATTAAAA
* * *
12749268 AATAGTCACTACATGCATGTT-AAA
1 AACAATCACTACATGCATATTAAAA
*
12749292 AACACTCACTA
1 AACAATCACTA
12749303 AAACAGCATG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (25 bp):
AACAATCACTACATGCATATTAAAA
Found at i:12750222 original size:28 final size:28
Alignment explanation
Indices: 12750182--12750246 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
12750172 GCCCTATAGC
*
12750182 CATCTTTGCATGCTTGTAGACAGACATA
1 CATCTTTGCATGCCTGTAGACAGACATA
12750210 CATCTTTGCATGCCTGTAGACAGACATA
1 CATCTTTGCATGCCTGTAGACAGACATA
12750238 CATCCTTTG
1 CAT-CTTTG
12750247 AAACAACTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 30 0.86
29 5 0.14
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (28 bp):
CATCTTTGCATGCCTGTAGACAGACATA
Found at i:12750544 original size:62 final size:62
Alignment explanation
Indices: 12750429--12750545 Score: 173
Period size: 62 Copynumber: 1.9 Consensus size: 62
12750419 TAACCAATAC
* *
12750429 AAAATAATTTAATACAAACACAACCATTTCTGTCATACACATGGTAGACAATAACTAATAGA
1 AAAATAATTTAATACAAACACAACCATTTCTGTCATACACATGGCAAACAATAACTAATAGA
* * *
12750491 AAAATAATTTAATACAAACACAAGCATTT-TCGTCATGCACATGGCAAATAATAAC
1 AAAATAATTTAATACAAACACAACCATTTCT-GTCATACACATGGCAAACAATAAC
12750546 AAACAATAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 1 0.02
62 48 0.98
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.26
Consensus pattern (62 bp):
AAAATAATTTAATACAAACACAACCATTTCTGTCATACACATGGCAAACAATAACTAATAGA
Found at i:12750765 original size:6 final size:6
Alignment explanation
Indices: 12750756--12750945 Score: 218
Period size: 6 Copynumber: 30.7 Consensus size: 6
12750746 AAATAACCCT
* * * **
12750756 AAATCA AAATCA AAATCA AAATCG AAATCG AAATAA AAATTG AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * **
12750804 AAATCA AAATTA GAATCA GTGAGTGTTTCA AAATCA AAATCA AAATCA
1 AAATCA AAATCA AAATCA ---A---AATCA AAATCA AAATCA AAATCA
* *
12750852 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCG AAATCG AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
*
12750900 AAATCA AAATCA AAATCA AAATCA GAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
12750946 TGAAATTGAA
Statistics
Matches: 159, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
6 155 0.97
9 1 0.01
12 3 0.02
ACGTcount: A:0.61, C:0.14, G:0.06, T:0.19
Consensus pattern (6 bp):
AAATCA
Found at i:12764402 original size:17 final size:18
Alignment explanation
Indices: 12764380--12764414 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12764370 ATATAATTAT
*
12764380 TAAAAA-TTATTTAAATC
1 TAAAAATTTATTAAAATC
12764397 TAAAAATTTATTAAAATC
1 TAAAAATTTATTAAAATC
12764415 CATAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAAATTTATTAAAATC
Found at i:12764462 original size:17 final size:18
Alignment explanation
Indices: 12764427--12764466 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
12764417 TAAAAAAATT
* *
12764427 TAAAATTACCAAATTTTA
1 TAAAATTACAAAATATTA
12764445 TAAAATT-CAAAATATTA
1 TAAAATTACAAAATATTA
12764462 TAAAA
1 TAAAA
12764467 ACTTATAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAATTACAAAATATTA
Found at i:12786380 original size:16 final size:16
Alignment explanation
Indices: 12786338--12786388 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
12786328 CTGATTTTAG
*
12786338 AAAAT-CATAAAATTA
1 AAAATACATAAAAATA
* *
12786353 TAATTACA-AAAAATA
1 AAAATACATAAAAATA
12786368 AAAATACATAAAAATA
1 AAAATACATAAAAATA
12786384 TAAAA
1 -AAAA
12786389 AAAAATCAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 15 0.54
16 9 0.32
17 4 0.14
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATACATAAAAATA
Found at i:12788634 original size:23 final size:24
Alignment explanation
Indices: 12788583--12788634 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
12788573 ATCTTAAAAA
*
12788583 AAAAAAACTCCACCATGAATCTAC
1 AAAAAAACTCCACCATGAATATAC
12788607 AAAAAAACTCCACCATGAATATAC
1 AAAAAAACTCCACCATGAATATAC
12788631 AAAA
1 AAAA
12788635 TCAACATTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.56, C:0.25, G:0.04, T:0.15
Consensus pattern (24 bp):
AAAAAAACTCCACCATGAATATAC
Found at i:12789167 original size:13 final size:13
Alignment explanation
Indices: 12789148--12789194 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
12789138 TTAAAATAAA
12789148 CAATTAATAAAAT
1 CAATTAATAAAAT
* *
12789161 CAGTTAATCAAAT
1 CAATTAATAAAAT
*
12789174 TAATTAATAAAAT
1 CAATTAATAAAAT
*
12789187 AAATTAAT
1 CAATTAAT
12789195 CAAACCAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.34
Consensus pattern (13 bp):
CAATTAATAAAAT
Found at i:12789178 original size:26 final size:26
Alignment explanation
Indices: 12789149--12789198 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
12789139 TAAAATAAAC
* *
12789149 AATTAATAAAATCAGTTAATCAAATT
1 AATTAATAAAATAAATTAATCAAATT
12789175 AATTAATAAAATAAATTAATCAAA
1 AATTAATAAAATAAATTAATCAAA
12789199 CCAATAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (26 bp):
AATTAATAAAATAAATTAATCAAATT
Found at i:12794568 original size:21 final size:21
Alignment explanation
Indices: 12794542--12794582 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12794532 ATCTGCTCAA
* *
12794542 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
12794563 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
12794583 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:12805894 original size:28 final size:28
Alignment explanation
Indices: 12805862--12805918 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
12805852 TTGTTTTAGA
12805862 ATTTTTGCTAGTTAATTCCTATTATTCT
1 ATTTTTGCTAGTTAATTCCTATTATTCT
12805890 ATTTTTGCTAGTTAATTCCTATTATTCT
1 ATTTTTGCTAGTTAATTCCTATTATTCT
12805918 A
1 A
12805919 ACTTGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (28 bp):
ATTTTTGCTAGTTAATTCCTATTATTCT
Found at i:12811623 original size:19 final size:19
Alignment explanation
Indices: 12811574--12811631 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 19
12811564 AACTCTATCT
12811574 TTCAATAGTTACACAAACA
1 TTCAATAGTTACACAAACA
*
12811593 TTGACTAATAGTTGCACAAACA
1 TT--C-AATAGTTACACAAACA
12811615 TTCAATAGTTACACAAA
1 TTCAATAGTTACACAAA
12811632 TTAAACTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 15 0.44
20 1 0.03
21 1 0.03
22 17 0.50
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.28
Consensus pattern (19 bp):
TTCAATAGTTACACAAACA
Found at i:12812623 original size:15 final size:15
Alignment explanation
Indices: 12812603--12812646 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
12812593 GGTCCTCCAC
12812603 TTAAAAATTATAAAA
1 TTAAAAATTATAAAA
* *
12812618 TTAAAAATTATTAAT
1 TTAAAAATTATAAAA
12812633 TATAAAAATTATAA
1 T-TAAAAATTATAA
12812647 TTTTGTAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTAAAAATTATAAAA
Found at i:12814751 original size:3 final size:3
Alignment explanation
Indices: 12814743--12814866 Score: 72
Period size: 3 Copynumber: 41.7 Consensus size: 3
12814733 CTTATTGCAT
* * * * **
12814743 TTA TTA TTA TTA TTA TTA TTA TCA TCA TCA TCA TTA CCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
12814791 ATA TTA ATA TTA ATA TTA ATA TTG TTA TTA TTA -CA TTA CTA TTA CTT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * *
12814838 TTA TTA TTA GTA ATA TTT TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12814867 TTTACCACTA
Statistics
Matches: 91, Mismatches: 27, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
2 3 0.03
3 86 0.95
4 2 0.02
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:12821294 original size:44 final size:43
Alignment explanation
Indices: 12821239--12822071 Score: 582
Period size: 44 Copynumber: 18.8 Consensus size: 43
12821229 GAAGATGGCG
*
12821239 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* * ** * *
12821283 AATCTTATCTCCCTAAAGTTGCAGTAGAGTGGATTAAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * * *
12821326 AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGAAAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * * * ***
12821371 AAGACTTATC-CTCCTGAAGTTGCAATGGGGCAGACTAAAGATGGCG
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAG-T-AAT
*
12821417 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* * * * *
12821461 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * *
12821504 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGAAAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * **
12821549 AAGTCTTATC-CTCCTGAAGTTGCAGTGG-GCAGACTGAAGATAGCG
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAG-TA-AT
*
12821594 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAA-TCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT--AAT
* * * * *
12821638 AATCCTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * *
12821681 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * * * * *
12821726 AAGTATTATC-CCTCTAAAGTTGCAATGGGGCAGACTGAAGTAACT
1 AA-TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * * * ***
12821771 AGTCTTATGC-CCCTGAAGTTGTAGTGGAGCAGACTGAAGATGGCG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-T-AAT
* * ** *
12821816 AATCTTATCTCCCTAAAATTTTAGTAGAGCAGATTAAAGTTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* * * *
12821860 AATCCTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * *
12821903 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * * * *
12821948 AAGTCTTATC-CCTCTGAAGTTGTAGTGGGGCAGACTGAAGTAACC
1 AA-TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
** * * * *
12821993 AGCCTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAGATACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* * * *
12822037 AATCTTATCTCCTTGAGGTTGCAATGGAGTAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
12822072 GAGGATGGGC
Statistics
Matches: 632, Mismatches: 129, Indels: 56
0.77 0.16 0.07
Matches are distributed among these distances:
43 15 0.02
44 393 0.62
45 221 0.35
46 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
Found at i:12821570 original size:133 final size:131
Alignment explanation
Indices: 12821241--12822065 Score: 691
Period size: 133 Copynumber: 6.2 Consensus size: 131
12821231 AGATGGCGAA
* * * * *
12821241 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAA-TAATCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AAAGCAATCTTATCTCCCTGAAGTTGC
* ** * * * * * * **
12821305 AGTAGAGTGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGAAAG
65 AGTGGAGCAGACTAAAGTAACAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-
12821370 CAAG
128 CAAG
* * * **
12821374 ACTTATC-CTCCTGAAGTTGCAATGGGGCAGACTAAAGATGGCGAATCTTATCTCCCTGAAGTTG
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGC-AATCTTATCTCCCTGAAGTTG
* * * * *
12821438 CAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGTTA
64 CAGTGGAGCAGACTAAAG-TAACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA
12821503 CAAG
128 CAAG
*
12821507 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGAAAGCAAGTCTTATC-CTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAA-TCTTATCTC-CCTGAAGTTG
* * * *
12821571 CAGTGG-GCAGACTGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAA--T
64 CAGTGGAGCAGACTAAAG-TAAC-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* *
12821633 CCAATAA
127 AC-A-AG
* * * * **
12821640 TCCTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAGTTA-CAAGTCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAA-TCTTATCTCCCTGAAGTTGC
* * ** * * * * * *
12821704 AGTGGAGCAGACTGAAGAAAGCAAGTATTATC-CCTCTAAAGTTGCAATGGGGCAGACTGAAGTA
65 AGTGGAGCAGACTAAAGTAA-CAA-TCCTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAGTT
*
12821768 ACTAG
127 ACAAG
* * ** * * *
12821773 TCTTATGC-CCCTGAAGTTGTAGTGGAGCAGACTGAAGATGGCGAATCTTATCTCCCTAAAATTT
1 TCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGC-AATCTTATCTCCCTGAAGTTG
* * * * *
12821837 TAGTAGAGCAGATTAAAGTTAATAATCCTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGTTA
64 CAGTGGAGCAGACTAAAG-TAACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA
12821902 CAAG
128 CAAG
*
12821906 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAGTCTTATC-CCTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAA-TCTTATCTCC-CTGAAGTTG
* * * * * * * * *
12821970 TAGTGGGGCAGACTGAAGTAACCAGCCTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAGATA
64 CAGTGGAGCAGACTAAAGTAACAATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA
12822035 CTAA-
128 C-AAG
* * *
12822039 TCTTATCTCCTTGAGGTTGCAATGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
12822066 TAGATTGAGG
Statistics
Matches: 561, Mismatches: 104, Indels: 54
0.78 0.14 0.08
Matches are distributed among these distances:
131 2 0.00
132 58 0.10
133 385 0.69
134 108 0.19
135 8 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (131 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAATCTTATCTCCCTGAAGTTGCA
GTGGAGCAGACTAAAGTAACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAA
G
Found at i:12823622 original size:6 final size:6
Alignment explanation
Indices: 12823607--12823699 Score: 57
Period size: 6 Copynumber: 15.8 Consensus size: 6
12823597 CTTATTGTAT
* * * *
12823607 TTATTA TTATTG TTATTA TTACTA TTACTA TTACTT- TTATTA TTACTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTA-TTA TTATTA TTATTA
* * * * ** *
12823655 ATATTA TTCTTT TTATTT TTACCA CTATTA TTATT- TTATT- TTATT
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATT
12823700 TTTAAACTGT
Statistics
Matches: 67, Mismatches: 18, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
5 12 0.18
6 54 0.81
7 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (6 bp):
TTATTA
Found at i:12823638 original size:24 final size:23
Alignment explanation
Indices: 12823608--12823694 Score: 93
Period size: 24 Copynumber: 3.7 Consensus size: 23
12823598 TTATTGTATT
*
12823608 TATTATTATTGTTATTATTACTAT
1 TATTATTATT-TTATTATTACTAA
*
12823632 TACTATTACTTTTATTATTACTAA
1 TATTATTA-TTTTATTATTACTAA
* * * *
12823656 TATTATTCTTTTTATTTTTACCAC
1 TATTATT-ATTTTATTATTACTAA
12823680 TATTATTATTTTATT
1 TATTATTATTTTATT
12823695 TTATTTTTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
23 7 0.13
24 44 0.83
25 2 0.04
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.62
Consensus pattern (23 bp):
TATTATTATTTTATTATTACTAA
Found at i:12823681 original size:27 final size:28
Alignment explanation
Indices: 12823651--12823703 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
12823641 TTTTATTATT
12823651 ACTAATATTATTCT-TTTTATTTTTACC
1 ACTAATATTATTCTATTTTATTTTTACC
* *
12823678 ACTATTATTATTTTATTTTATTTTTA
1 ACTAATATTATTCTATTTTATTTTTA
12823704 AACTGTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.64
Consensus pattern (28 bp):
ACTAATATTATTCTATTTTATTTTTACC
Found at i:12823852 original size:13 final size:12
Alignment explanation
Indices: 12823816--12823858 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
12823806 ATTAGTTTGT
*
12823816 TTATTTTTTATT
1 TTATTTTTTATC
*
12823828 TTATTATTTATC
1 TTATTTTTTATC
12823840 TTAGTTTTTTATCC
1 TTA-TTTTTTAT-C
12823854 TTATT
1 TTATT
12823859 ATTCCTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 13 0.50
13 9 0.35
14 4 0.15
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (12 bp):
TTATTTTTTATC
Found at i:12824674 original size:88 final size:88
Alignment explanation
Indices: 12824525--12824752 Score: 359
Period size: 88 Copynumber: 2.6 Consensus size: 88
12824515 TAATTAATAA
* * * *
12824525 TTAAAGATAACATATTTTGCCTTCCTGCATAGACAGCGAAGCAGATCGAAGACCCTAGCCTTGCC
1 TTAAAGATAACAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGACCCCAGCCTTGCC
12824590 TCCATCGGCTGCAGTGGAGT-AGG
66 TCCATCGGCTGCAGTGGA-TCAGG
**
12824613 TTAAAGATAACAGATCTTGCCTTCCTATATAGACAGTGAAGCAGATCGAAGACCCCAGCCTTGCC
1 TTAAAGATAACAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGACCCCAGCCTTGCC
*
12824678 TCCATCGGTTGCAGTGGATCAGG
66 TCCATCGGCTGCAGTGGATCAGG
* *
12824701 TTAAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGA
1 TTAAAGATAACAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGA
12824753 TTACAAGTCC
Statistics
Matches: 128, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
87 1 0.01
88 127 0.99
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (88 bp):
TTAAAGATAACAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGACCCCAGCCTTGCC
TCCATCGGCTGCAGTGGATCAGG
Found at i:12824918 original size:44 final size:43
Alignment explanation
Indices: 12824868--12825101 Score: 115
Period size: 44 Copynumber: 5.2 Consensus size: 43
12824858 AGTATAAAGA
*
12824868 AGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCCAG-AATCTTATCTCCCTGAGATTACAGTGG
* *** * *
12824912 AGCAGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAG
1 AGCAGATT-GAAGCCAGAATCTTATCTCCCTGAGA-TTACAGT---G--G
* *
12824961 ATCGCATTAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGG
1 A--GC---AGATTGAAGCCAG-AATCTTATCTCCCTGAGATTACAGTGG
* * * *
12825010 AGCAGATTGAATAAG-C-GAATCTTATCT-TC-AAG-TATA-A-AGA
1 AGCAGATTG---AAGCCAGAATCTTATCTCCCTGAGAT-TACAGTGG
*
12825050 AGCAGATTGAAGCCAGCAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCCAG-AATCTTATCTCCCTGAGATTACAGTGG
12825094 AGCAGATT
1 AGCAGATT
12825102 AAAATAAAAG
Statistics
Matches: 141, Mismatches: 23, Indels: 52
0.65 0.11 0.24
Matches are distributed among these distances:
37 3 0.02
38 1 0.01
39 1 0.01
40 19 0.13
41 3 0.02
42 8 0.06
43 4 0.03
44 52 0.37
45 5 0.04
46 1 0.01
47 6 0.04
49 4 0.03
51 3 0.02
53 5 0.04
54 25 0.18
55 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (43 bp):
AGCAGATTGAAGCCAGAATCTTATCTCCCTGAGATTACAGTGG
Found at i:12825272 original size:50 final size:50
Alignment explanation
Indices: 12825218--12825604 Score: 276
Period size: 50 Copynumber: 7.7 Consensus size: 50
12825208 TCCCAAGCGG
* * *
12825218 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * * * * *
12825268 TGCAGTTAAAAAGATTAAAGCTACAACAGCAAATCTTAC-TCCCCAGGCGA-
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCC-GAC-AT
* * *
12825318 TGCAGCGAAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * * * * * * * * * *
12825368 TGCAGTTAAAAATACTAAAGCCACAGCGGTGAGTGTTACTTCCCTGGCAA
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * * * *
12825418 TGCAGTGGAGCAGATTAAAGCCACAATGGCGTATCCTGCTTCCTCGACAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * * * * * * *
12825468 TGCAGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTACATTCCCTGGCAA
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGC-TTCCCCGACAT
* * ** *
12825519 TGCAGTGAAGCAGATTAAAACCACAACGGTAAATCTTGCTTTCCCGACAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * *
12825569 TGCAGTTAAA-AGGATTAAAGTCACAATGACGAATCT
1 TGCAGTGAAACA-GATTAAAGCCACAACGGCGAATCT
12825605 CACTCTCTCA
Statistics
Matches: 246, Mismatches: 85, Indels: 12
0.72 0.25 0.03
Matches are distributed among these distances:
49 7 0.03
50 197 0.80
51 42 0.17
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (50 bp):
TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
Found at i:12825407 original size:100 final size:100
Alignment explanation
Indices: 12825218--12825588 Score: 463
Period size: 100 Copynumber: 3.7 Consensus size: 100
12825208 TCCCAAGCGG
* * *
12825218 TGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * * * *
12825283 TAAAGCTACAACAGCAAATCTTACTCCCCAGGCGA
66 TAAAGCTACAGCAGCGAATCTTACTTCCCTGGCAA
* * * * *
12825318 TGCAGCGAAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAATAC
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * * * *
12825383 TAAAGCCACAGCGGTGAGTGTTACTTCCCTGGCAA
66 TAAAGCTACAGCAGCGAATCTTACTTCCCTGGCAA
* * * * * *
12825418 TGCAGTGGAGCAGATTAAAGCCACAATGGCGTATCCTGCTTCCTCGACATTGCAGTTAAAAAGAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
12825483 TAAAGCTACAGCAGCGAATCTTACATTCCCTGGCAA
66 TAAAGCTACAGCAGCGAATCTTAC-TTCCCTGGCAA
* * ** * *
12825519 TGCAGTGAAGCAGATTAAAACCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGAT
1 TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
12825584 TAAAG
66 TAAAG
12825589 TCACAATGAC
Statistics
Matches: 226, Mismatches: 44, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
100 155 0.69
101 71 0.31
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (100 bp):
TGCAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
TAAAGCTACAGCAGCGAATCTTACTTCCCTGGCAA
Found at i:12825624 original size:101 final size:100
Alignment explanation
Indices: 12825199--12825656 Score: 444
Period size: 100 Copynumber: 4.5 Consensus size: 100
12825189 AGAATTACAG
* * * *
12825199 ATCTTATCTTCCCAAGCGGTGCAGTGGAA-CAGATTAAAGCCACAACAGCGAATCATGCTTCCCC
1 ATCTTA-CTTCCCAGGCAGTGCAGT-GAAGCAGATTAAAGCCACAACGGCGAATCTTGCTTCCCC
* *
12825263 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCAA
64 GACATTGCAGTTAAAAAGATTAAAGCTACAAGAGCGA
* * * * *
12825300 ATCTTACTCCCCAGGC-GATGCAGCGAAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 ATCTTACTTCCCAGGCAG-TGCAGTGAAGCAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCG
* * * * *
12825364 ACATTGCAGTTAAAAATACTAAAGCCAC-AGCGGTGA
65 ACATTGCAGTTAAAAAGATTAAAGCTACAAG-AGCGA
* * * * * * * * *
12825400 GTGTTACTTCCCTGGCAATGCAGTGGAGCAGATTAAAGCCACAATGGCGTATCCTGCTTCCTCGA
1 ATCTTACTTCCCAGGCAGTGCAGTGAAGCAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
12825465 CATTGCAGTTAAAAAGATTAAAGCTAC-AGCAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAAG-AGCGA
* * * ** *
12825500 ATCTTACATTCCCTGGCAATGCAGTGAAGCAGATTAAAACCACAACGGTAAATCTTGCTTTCCCG
1 ATCTTAC-TTCCCAGGCAGTGCAGTGAAGCAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCG
*
12825565 ACATTGCAGTTAAAAGGATTAAAG-TCACAATGA-CGA
65 ACATTGCAGTTAAAAAGATTAAAGCT-ACAA-GAGCGA
* * * * *
12825601 ATCTCACTCTCTCAGCCAGTGCAGT-AGAGCAGATTAAAGCCACGATGGCGAATCTT
1 ATCTTACT-TCCCAGGCAGTGCAGTGA-AGCAGATTAAAGCCACAACGGCGAATCTT
12825657 ACTTTCCAAA
Statistics
Matches: 292, Mismatches: 55, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
99 5 0.02
100 160 0.55
101 124 0.42
102 2 0.01
103 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (100 bp):
ATCTTACTTCCCAGGCAGTGCAGTGAAGCAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
CATTGCAGTTAAAAAGATTAAAGCTACAAGAGCGA
Found at i:12827559 original size:21 final size:23
Alignment explanation
Indices: 12827533--12827575 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
12827523 TTCGAATAAA
12827533 TTTATTCAT-ATTTT-TTTTAAC
1 TTTATTCATAATTTTATTTTAAC
*
12827554 TTTATTCTTAATTTTATTTTAA
1 TTTATTCATAATTTTATTTTAA
12827576 ATCTATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTATTCATAATTTTATTTTAAC
Found at i:12829008 original size:9 final size:9
Alignment explanation
Indices: 12828994--12829030 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
12828984 TATAGTTTGA
12828994 TATTCGAAT
1 TATTCGAAT
12829003 TATTCGAAT
1 TATTCGAAT
*
12829012 TATTCGAGT
1 TATTCGAAT
12829021 TATTCGAAT
1 TATTCGAAT
12829030 T
1 T
12829031 CGAAAACTCA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12835903 original size:63 final size:63
Alignment explanation
Indices: 12835825--12835953 Score: 224
Period size: 63 Copynumber: 2.0 Consensus size: 63
12835815 CAACCTGATT
12835825 TATAACTTAAATTTGGTAATTCAAACACTATTAAGATATGCCTCATT-CTCGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACACTATTAAGATATGCCTCATTCCT-GATGTGATAAGAA
* *
12835888 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGTGCCTCATTCCTGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACACTATTAAGATATGCCTCATTCCTGATGTGATAAGAA
12835951 TAT
1 TAT
12835954 CTCCATGTGA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 61 0.97
64 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (63 bp):
TATAACTTAAATTTGGTAATTCAAACACTATTAAGATATGCCTCATTCCTGATGTGATAAGAA
Found at i:12836850 original size:69 final size:67
Alignment explanation
Indices: 12836763--12836889 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 67
12836753 TTATGTTATG
* * *
12836763 ATTTTTATTAATTCATATTTTAATAATAATTATATTCAGAATGTTACTAAATTATATATTTTTAT
1 ATTTTTATTAATTCATA-TTTAATAATAATTATATT-AAAATATGACTAAATTATATATTTTTAT
12836828 TTTC
64 TTTC
** *
12836832 ATTTTTATTAAATT-ATATTTGGTAATAATTATATTAAAATATGACTAAATTATTTATT
1 ATTTTTATT-AATTCATATTTAATAATAATTATATTAAAATATGACTAAATTATATATT
12836890 ATTAAATTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
67 19 0.37
68 16 0.31
69 12 0.24
70 4 0.08
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (67 bp):
ATTTTTATTAATTCATATTTAATAATAATTATATTAAAATATGACTAAATTATATATTTTTATTT
TC
Found at i:12837104 original size:16 final size:16
Alignment explanation
Indices: 12837081--12837146 Score: 96
Period size: 16 Copynumber: 4.1 Consensus size: 16
12837071 ACTGATTATT
*
12837081 GCTCTATTCCATTATA
1 GCTCTATTCCATTACA
* *
12837097 GTTTTATTCCATTACA
1 GCTCTATTCCATTACA
*
12837113 ACTCTATTCCATTACA
1 GCTCTATTCCATTACA
12837129 GCTCTATTCCATTACA
1 GCTCTATTCCATTACA
12837145 GC
1 GC
12837147 GAACTAAACG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.26, C:0.27, G:0.06, T:0.41
Consensus pattern (16 bp):
GCTCTATTCCATTACA
Found at i:12839020 original size:21 final size:21
Alignment explanation
Indices: 12838994--12839049 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
12838984 TTAGGGTCAT
12838994 AAATAATTAATTAATGTATTA
1 AAATAATTAATTAATGTATTA
*
12839015 AAATAATATAATCAA-GTATTA
1 AAATAAT-TAATTAATGTATTA
**
12839036 TTAT-ATTAATTAAT
1 AAATAATTAATTAAT
12839050 CTAAATTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 6 0.21
20 2 0.07
21 15 0.52
22 6 0.21
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
AAATAATTAATTAATGTATTA
Found at i:12842894 original size:11 final size:11
Alignment explanation
Indices: 12842866--12842899 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
12842856 AATCTTTTTA
* *
12842866 TTTATTCTCGT
1 TTTATTTTCTT
12842877 TTTATTTTCTT
1 TTTATTTTCTT
12842888 TTTATTTTCTT
1 TTTATTTTCTT
12842899 T
1 T
12842900 ACACCATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTATTTTCTT
Found at i:12848625 original size:254 final size:253
Alignment explanation
Indices: 12848176--12849387 Score: 1970
Period size: 254 Copynumber: 4.8 Consensus size: 253
12848166 TTAATTTTGC
12848176 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
*
12848241 GAAAGATATTCTATTCTTTAAAAAAAAGTATCA-AGGTTTTTTTAGAAAAAAATTTAACTATTGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGA-GTTTTTTTAG-AAAAAATTTAACAATTGG
* *
12848305 GGCTTTATATTTAGGTGTAAAGATAAAATCAGCCTCTAATGTTTAATCATTTTTTTTATTTTGGC
129 GGCTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTCATTTTGGC
* *
12848370 CCTCAACTTTTAAAATTTATGAAAAATTTGATCGAAATGCTAAATTTTTAACGACATTGG
194 CCTCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
* *
12848430 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGATGTT
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
12848495 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
* *
12848560 CTTTATATTTAGGTATAAAGATAAAAATCAGACCCTAATGTTTAATCATTTTTTTCATTTTGGCC
131 CTTTATATTTAGGTGTAAAGAT-AAAATCAGCCCCTAATGTTTAATCATTTTTTTCATTTTGGCC
* *
12848625 CCCAACTTTTAAATTTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
195 CTCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
*
12848684 CAAGGTTTTCCATCACTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
12848749 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
*
12848814 CTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCTTTTTTTTTTCATTTTGGT
131 CTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATC--ATTTTTTTCATTTTGG-
*
12848879 CCC-CAACTTTTAAAATTTACGAAAAATTTGATTGAAATTCTAAATTTTTAACGACATTGG
193 CCCTCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
* *
12848939 CAAGCTTTTCCATCATTAGGGAATTAAGAATACATATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
* * *
12849004 GAAAGATATTCTATTCTTTTAAAAAAAGCATCCGAGTTTTTTTAGAAAAAAATTTAACAATTGGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAG-AAAAAATTTAACAATTGGG
*
12849069 GCTTTATATTTAGGTATAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTTTCATTTTGG
130 GCTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCA--TTTTTTTCATTTTGG
*
12849134 CCCTCATC-TTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
193 CCCTCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
* *
12849194 CAAGGTTTTCCATCATTGGGGAATTAAGAATACACATTTGAAGGGAAAAAAGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
* * **
12849259 GAAAGATATTCTATTCTTT-AAAAAAGGTATCGGAGTTTTTTT-GAAAATTTTTTTAACAATTGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAA--AATTTAACAATTGG
* * * * * * *
12849322 GCCTTTATATTTAGGCGTGAAGGTAAATTTAGCCCCTAATGTTTAAACA--TTTTTCATTTTGGC
129 GGCTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTCATTTTGGC
12849385 CCT
194 CCT
12849388 TATTTTTTTA
Statistics
Matches: 901, Mismatches: 46, Indels: 26
0.93 0.05 0.03
Matches are distributed among these distances:
250 17 0.02
252 4 0.00
253 64 0.07
254 421 0.47
255 309 0.34
256 86 0.10
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (253 bp):
CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
CTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTCATTTTGGCCC
TCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
Found at i:12849322 original size:510 final size:506
Alignment explanation
Indices: 12848176--12849387 Score: 1979
Period size: 510 Copynumber: 2.4 Consensus size: 506
12848166 TTAATTTTGC
12848176 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
* *
12848241 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAAGGTTTTTTTAGAAAAAAATTTAACTATTGGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATCGA-GTTTTTTTAG-AAAAAATTTAACAATTGGG
*
12848306 GCTTTATATTTAGGTGTAAAGATAAAATCAGCCTCTAATGTTTAATCATTTTTTTTATTTTGGCC
129 GCTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTTATTTTGGCC
* *
12848371 CTCAACTTTTAAAATTTATGAAAAATTTGATCGAAATGCTAAATTTTTAACGACATTGGCAAGGT
194 CTCAACTTTTAAAATTTACGAAAAATTTGATCGAAATGCTAAATTTTTAACGACATTGGCAAGCT
*
12848436 TTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGATGTTGAAAGA
259 TTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGATGTAGAAAGA
*
12848501 TATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGGCTTTAT
324 TATTCTATTCTTTAAAAAAAAGCATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGGCTTTAT
12848566 ATTTAGGTATAAAGATAAAAATCAGACCCTAATGTTTAATCATTTTTTTCATTTTGGCCCCCAAC
389 ATTTAGGTATAAAGATAAAAATCAGACCCTAATGTTTAATCATTTTTTTCATTTTGGCCCCCAAC
*
12848631 TTTTAAATTTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
454 TTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
*
12848684 CAAGGTTTTCCATCACTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
12848749 GAAAGATATTCTATTCTTTAAAAAAAAGTATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATC-GAGTTTTTTTAGAAAAAATTTAACAATTGGGG
*
12848814 CTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCTTTTTTTTTTCATTTTGGT
130 CTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATC-ATTTTTTTT-ATTTTGG-
* *
12848879 CCC-CAACTTTTAAAATTTACGAAAAATTTGATTGAAATTCTAAATTTTTAACGACATTGGCAAG
192 CCCTCAACTTTTAAAATTTACGAAAAATTTGATCGAAATGCTAAATTTTTAACGACATTGGCAAG
* *
12848943 CTTTTCCATCATTAGGGAATTAAGAATACATATTTGAAGGGAAAAAGGAAAGAAAGTTGTAGAAA
257 CTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGATGTAGAAA
* *
12849008 GATATTCTATTCTTTTAAAAAAAGCATCCGAGTTTTTTTAGAAAAAAATTTAACAATTGGGGCTT
322 GATATTCTATTCTTTAAAAAAAAGCATCAGAGTTTTTTTAG-AAAAAATTTAACAATTGGGGCTT
*
12849073 TATATTTAGGTATAAAGAT-AAAATCAGCCCCTAATGTTTAATCATTTTTTTTTCATTTTGGCCC
386 TATATTTAGGTATAAAGATAAAAATCAGACCCTAATGTTTAATCA--TTTTTTTCATTTTGGCCC
* *
12849137 TCATC-TTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
449 CCAACTTTTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
* *
12849194 CAAGGTTTTCCATCATTGGGGAATTAAGAATACACATTTGAAGGGAAAAAAGAAAGAAAGTTGTA
1 CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
* **
12849259 GAAAGATATTCTATTCTTT-AAAAAAGGTATCGGAGTTTTTTT-GAAAATTTTTTTAACAATTGG
66 GAAAGATATTCTATTCTTTAAAAAAAAGTATC-GAGTTTTTTTAGAAAA--AATTTAACAATTGG
* * * * * * * *
12849322 GCCTTTATATTTAGGCGTGAAGGTAAATTTAGCCCCTAATGTTTAAACA--TTTTTCATTTTGGC
128 GGCTTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTTATTTTGGC
12849385 CCT
193 CCT
12849388 TATTTTTTTA
Statistics
Matches: 659, Mismatches: 35, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
505 3 0.00
506 7 0.01
507 69 0.10
508 119 0.18
509 210 0.32
510 230 0.35
511 21 0.03
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (506 bp):
CAAGGTTTTCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGTTGTA
GAAAGATATTCTATTCTTTAAAAAAAAGTATCGAGTTTTTTTAGAAAAAATTTAACAATTGGGGC
TTTATATTTAGGTGTAAAGATAAAATCAGCCCCTAATGTTTAATCATTTTTTTTATTTTGGCCCT
CAACTTTTAAAATTTACGAAAAATTTGATCGAAATGCTAAATTTTTAACGACATTGGCAAGCTTT
TCCATCATTAGGGAATTAAGAATACACATTTGAAGGGAAAAAGGAAAGAAAGATGTAGAAAGATA
TTCTATTCTTTAAAAAAAAGCATCAGAGTTTTTTTAGAAAAAATTTAACAATTGGGGCTTTATAT
TTAGGTATAAAGATAAAAATCAGACCCTAATGTTTAATCATTTTTTTCATTTTGGCCCCCAACTT
TTAAAATTTACGAAAAATTTGATTGAAATGCTAAATTTTTAACGACATTGG
Found at i:12849513 original size:31 final size:31
Alignment explanation
Indices: 12849477--12849535 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
12849467 TGGCAAGGTT
12849477 AAAAAATAATAATAAA-TATTTA-AAAATTCAA
1 AAAAAATAATAA-AAACT-TTTAGAAAATTCAA
*
12849508 AAAAAATCATAAAAACTTTTAGAAAATT
1 AAAAAATAATAAAAACTTTTAGAAAATT
12849536 TATCCATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (31 bp):
AAAAAATAATAAAAACTTTTAGAAAATTCAA
Found at i:12860123 original size:23 final size:23
Alignment explanation
Indices: 12860088--12860132 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
12860078 AAAATGACCC
12860088 AAATTGCACAATCTCAAACATTT
1 AAATTGCACAATCTCAAACATTT
**
12860111 AAATTGCTTAATCTCAAACATT
1 AAATTGCACAATCTCAAACATT
12860133 CAAAACATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATTGCACAATCTCAAACATTT
Found at i:12864416 original size:19 final size:19
Alignment explanation
Indices: 12864375--12864419 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
12864365 TTCCAGCTCT
*
12864375 TTTTTTTCTTTTTCAAACT
1 TTTTTTTCTTTTTCAAACA
**
12864394 TTTTTTTCTTTTTCATTCA
1 TTTTTTTCTTTTTCAAACA
12864413 TTTTTTT
1 TTTTTTT
12864420 ACTAACACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTCTTTTTCAAACA
Found at i:12864888 original size:27 final size:27
Alignment explanation
Indices: 12864820--12864889 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
12864810 GGTGGAGGGC
* * *
12864820 CTGCCACAGGAGACACCAAAGGTGCCT
1 CTGCCACAGGAGGCACCAAAGGTACCA
* * * *
12864847 GTGGCAGAGGTGGCACCAAAGGTACCA
1 CTGCCACAGGAGGCACCAAAGGTACCA
*
12864874 CTGCCACAGGCGGCAC
1 CTGCCACAGGAGGCAC
12864890 AACTGCACCA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.31, G:0.31, T:0.10
Consensus pattern (27 bp):
CTGCCACAGGAGGCACCAAAGGTACCA
Found at i:12865095 original size:24 final size:25
Alignment explanation
Indices: 12865067--12865116 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
12865057 AATAATGGAT
12865067 TATATTGTTATTATGTTTTTT-TTG
1 TATATTGTTATTATGTTTTTTGTTG
* * *
12865091 TATATTTTTTTTTTGTTTTTTGTTG
1 TATATTGTTATTATGTTTTTTGTTG
12865116 T
1 T
12865117 TAGTTTAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (25 bp):
TATATTGTTATTATGTTTTTTGTTG
Found at i:12865417 original size:76 final size:80
Alignment explanation
Indices: 12865212--12865417 Score: 197
Period size: 76 Copynumber: 2.6 Consensus size: 80
12865202 GTTTAATTAT
* *
12865212 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAATTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGT-AAAAA--AATATTATTATTATGGTTAGTTAT
* *
12865277 TAGGAGTAGTAAAAATCG
63 TAGGAGTAGTAAAAACCC
* **** * * *
12865295 TAATTATTATT-TTAGTTAGTATGATTGTTAGT--TTTTACATTA-TATTATTGTTAGTTATTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAATATTATTATTATGGTTAGTTATTAG
***
12865356 TTTTAGT-AAAACCC
66 GAGTAGTAAAAACCC
* *
12865370 TAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAAACTATTATTA
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAATATTATTA
12865418 ATATTATTAT
Statistics
Matches: 96, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
75 16 0.17
76 40 0.42
77 5 0.05
78 4 0.04
79 2 0.02
82 19 0.20
83 10 0.10
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (80 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAATATTATTATTATGGTTAGTTATTAG
GAGTAGTAAAAACCC
Found at i:12867576 original size:13 final size:13
Alignment explanation
Indices: 12867558--12867589 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12867548 TTTCCAGCAA
12867558 TTATGAATTTATT
1 TTATGAATTTATT
12867571 TTATGAATTTATT
1 TTATGAATTTATT
*
12867584 TGATGA
1 TTATGA
12867590 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:12867764 original size:50 final size:50
Alignment explanation
Indices: 12867684--12867863 Score: 252
Period size: 50 Copynumber: 3.6 Consensus size: 50
12867674 ATTTGGGTAA
*
12867684 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
* * ** * *
12867734 AGAGGTCCCATGTAAGACCATGTCCGGGACATGGTGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
* * *
12867784 AGAGATCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
*
12867834 AGAACATCCCATGTAAGACCATGTCTGGGA
1 AG-AGATCCCATGTAAGACCATGTCTGGGA
12867864 TATAACTTTG
Statistics
Matches: 110, Mismatches: 19, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 86 0.78
51 24 0.22
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
Found at i:12875030 original size:13 final size:13
Alignment explanation
Indices: 12875012--12875043 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12875002 TTTCCAGCAA
12875012 TTATGAATTTATT
1 TTATGAATTTATT
12875025 TTATGAATTTATT
1 TTATGAATTTATT
*
12875038 TGATGA
1 TTATGA
12875044 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:12875285 original size:50 final size:50
Alignment explanation
Indices: 12875138--12875385 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 50
12875128 ATTTGGGTAA
*
12875138 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--AAGA-C--G
* *
12875194 AGAGGTCCC-TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACG
* * *
12875243 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACG
* * * * *
12875293 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACG
** *
12875343 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
12875386 TGTTATTATC
Statistics
Matches: 172, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 10 0.06
50 83 0.48
51 35 0.20
52 3 0.02
54 2 0.01
55 31 0.18
56 8 0.05
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACG
Found at i:12875331 original size:105 final size:102
Alignment explanation
Indices: 12875138--12875386 Score: 351
Period size: 100 Copynumber: 2.4 Consensus size: 102
12875128 ATTTGGGTAA
12875138 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
12875203 TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 TATAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * *
12875243 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGT-CCCTA
*
12875305 TAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
65 TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* *
12875343 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
12875387 GTTATTATCA
Statistics
Matches: 131, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
99 9 0.07
100 43 0.33
101 37 0.28
104 2 0.02
105 40 0.31
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCTAT
AAGACCATGTCTGGGACATGGCATGGGCACCAACACG
Found at i:12879198 original size:12 final size:12
Alignment explanation
Indices: 12879183--12879214 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
12879173 CTCGCGATTT
12879183 GGCTCGAGCTCC
1 GGCTCGAGCTCC
12879195 GGCTCGAGCTCC
1 GGCTCGAGCTCC
*
12879207 GGTTCGAG
1 GGCTCGAG
12879215 ATTAGGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.34, G:0.38, T:0.19
Consensus pattern (12 bp):
GGCTCGAGCTCC
Found at i:12882889 original size:159 final size:158
Alignment explanation
Indices: 12882344--12883237 Score: 1305
Period size: 159 Copynumber: 5.6 Consensus size: 158
12882334 ACTTCAAAAC
* *
12882344 AAATTTAGTAAAAAATCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
* *
12882409 ACTTTAAAAAAATATGCTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
* * * *
12882474 AATGCATTGATTTAGTGTGTTTTTTAAAT
131 AATGTATTAATTTAGTTTG-TTTTTATAT
* *
12882503 AAATTTAGTAAAAACCCCTTATTTTGGCCCTTT-TTCATATTTTTCTTTTTTCCCGAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
* * *
12882567 ATTTTCAAAAAATATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATTACGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
* * *
12882632 AATTTATTAATTTAGTGTGTTTTTTTAAAT
131 AATGTATTAATTTAGT-T-TGTTTTTATAT
* *
12882662 AAATTTAGTAAAAAACCCTTATTTTGGCCTTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
*
12882727 ACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
12882792 AATGTATTAATTTAGTTTGTTTTTATAT
131 AATGTATTAATTTAGTTTGTTTTTATAT
*
12882820 AAATTTAGTAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTAT
1 AAATTTAGT-AAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTAT
12882885 TACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTG
65 TACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTG
* *
12882950 AAATGTATTAATTTACTGTGTTTTTATAT
130 AAATGTATTAATTTAGTTTGTTTTTATAT
* *
12882979 AAATTTAGCAAAAAAAAACCCTTATTTTGGCCC-TTGTTCTTATTTTTCTTTTTTCCCGAATTTT
1 AAATTTAG---TAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTT
* * *
12883043 ATTACTTTCAAAAGA-ATACTATTTTTGTATTTTATTATTTTATATTATTTTACTACATTATGTT
63 ATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTT
* * *
12883107 TGAAGTATATTAATTTAGTGTGTGTTTTT-TAAA
128 TGAAATGTATTAATTTAGT-T-TGTTTTTAT-AT
* * * *
12883140 AAAATTAGTAAAAAATCATTATTTTGGCCCTTTGTTCGTAATTTTCTTATTTT--CGAATTTTAT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTT-TTTTCCCGAATTTTAT
* ** *
12883203 TTCTTTCAGTAAATATACTATTTTCGTTTTTTATT
65 TACTTTCAAAAAATATACTATTTTCGTATTTTATT
12883238 TCTTTTCGTA
Statistics
Matches: 670, Mismatches: 52, Indels: 26
0.90 0.07 0.03
Matches are distributed among these distances:
158 158 0.24
159 322 0.48
160 154 0.23
161 36 0.05
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.53
Consensus pattern (158 bp):
AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
AATGTATTAATTTAGTTTGTTTTTATAT
Found at i:12883245 original size:17 final size:17
Alignment explanation
Indices: 12883223--12883255 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12883213 AAATATACTA
*
12883223 TTTTCGTTTTTTATTTC
1 TTTTCGTATTTTATTTC
12883240 TTTTCGTATTTTATTT
1 TTTTCGTATTTTATTT
12883256 TTTCATAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTCGTATTTTATTTC
Found at i:12883251 original size:51 final size:49
Alignment explanation
Indices: 12883189--12883287 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 49
12883179 AATTTTCTTA
* *
12883189 TTTTCGAATTTTATTTCTTTCAGTAAATATACTATTTTC-GTTTTTTATTTC
1 TTTTCGAATTTTATTT-TTTCA-TAAACATA-TATTTTCAGTATTTTATTTC
* *
12883240 TTTTCGTATTTTATTTTTTCATAAACATATTTTTTCAGTATTTTATTT
1 TTTTCGAATTTTATTTTTTCATAAACATATATTTTCAGTATTTTATTT
12883288 TTAATGCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 6 0.14
49 17 0.40
50 5 0.12
51 15 0.35
ACGTcount: A:0.22, C:0.10, G:0.05, T:0.63
Consensus pattern (49 bp):
TTTTCGAATTTTATTTTTTCATAAACATATATTTTCAGTATTTTATTTC
Found at i:12883286 original size:16 final size:16
Alignment explanation
Indices: 12883240--12883289 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
12883230 TTTTTATTTC
12883240 TTTTC-GTATTTTATT
1 TTTTCAGTATTTTATT
***
12883255 TTTTCA-TAAACATATT
1 TTTTCAGT-ATTTTATT
12883271 TTTTCAGTATTTTATT
1 TTTTCAGTATTTTATT
12883287 TTT
1 TTT
12883290 AATGCTATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 6 0.23
16 19 0.73
17 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (16 bp):
TTTTCAGTATTTTATT
Found at i:12883461 original size:71 final size:67
Alignment explanation
Indices: 12883327--12883463 Score: 168
Period size: 71 Copynumber: 2.0 Consensus size: 67
12883317 CATTACAACA
* * * * **
12883327 TGCTAAATAAATTTCATAAAAAATATATCTAATTAACATAGAATGTACATAACATGAGTTTTTTA
1 TGCTAAATAAATCTCATAAAAAATATATCTAAATAAAATAAAAACTACATAACATGAGTTTTTTA
12883392 CC
66 CC
12883394 TGCTAAATAAATCTCATAAAAAAATATATGCTAAATAAAATAATAAAACTACATAACATTG-GTT
1 TGCTAAATAAATCTCAT-AAAAAATATAT-CTAAATAAAAT-A-AAAACTACATAACA-TGAGTT
12883458 TTTTAC
61 TTTTAC
12883464 ACAAATAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
67 16 0.27
68 11 0.19
69 9 0.15
70 1 0.02
71 20 0.34
72 2 0.03
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (67 bp):
TGCTAAATAAATCTCATAAAAAATATATCTAAATAAAATAAAAACTACATAACATGAGTTTTTTA
CC
Found at i:12883574 original size:10 final size:10
Alignment explanation
Indices: 12883553--12883600 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
12883543 CTCCGTTTTC
12883553 TTCTTCTCCT
1 TTCTTCTCCT
12883563 TTCCTT-TCCT
1 TT-CTTCTCCT
12883573 TTCTTCTCCT
1 TTCTTCTCCT
12883583 TT-TT-T-CT
1 TTCTTCTCCT
12883590 TTCTTCTCCT
1 TTCTTCTCCT
12883600 T
1 T
12883601 CAGTCGAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
7 4 0.12
8 3 0.09
9 6 0.18
10 17 0.52
11 3 0.09
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (10 bp):
TTCTTCTCCT
Found at i:12883591 original size:17 final size:17
Alignment explanation
Indices: 12883548--12883600 Score: 72
Period size: 17 Copynumber: 3.0 Consensus size: 17
12883538 GTCTCCTCCG
12883548 TTTTC-TTCTTCTCCTT
1 TTTTCTTTCTTCTCCTT
12883564 TCCTTTCCTTTCTTCTCCTT
1 T--TTT-CTTTCTTCTCCTT
12883584 TTTTCTTTCTTCTCCTT
1 TTTTCTTTCTTCTCCTT
12883601 CAGTCGAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
16 1 0.03
17 13 0.39
18 6 0.18
19 1 0.03
20 12 0.36
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTCTTTCTTCTCCTT
Found at i:12883669 original size:26 final size:27
Alignment explanation
Indices: 12883632--12883702 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 27
12883622 TTATAAGGGG
*
12883632 CTGGTGCCGCCTGTGGCAATGACACCT
1 CTGGTGCCGCCTCTGGCAATGACACCT
* * * *
12883659 -TGGTGCCGCCTCTGCCACTGGCACGT
1 CTGGTGCCGCCTCTGGCAATGACACCT
*
12883685 CTGGTGCCGCCTTTGGCA
1 CTGGTGCCGCCTCTGGCA
12883703 GGCCCTCCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 21 0.58
27 15 0.42
ACGTcount: A:0.10, C:0.35, G:0.31, T:0.24
Consensus pattern (27 bp):
CTGGTGCCGCCTCTGGCAATGACACCT
Found at i:12892715 original size:16 final size:16
Alignment explanation
Indices: 12892694--12892753 Score: 102
Period size: 16 Copynumber: 3.8 Consensus size: 16
12892684 TGTATTAGAT
*
12892694 TAGAGGCGTAATGGAA
1 TAGAGGTGTAATGGAA
*
12892710 TAGAGGTGTAATGGAT
1 TAGAGGTGTAATGGAA
12892726 TAGAGGTGTAATGGAA
1 TAGAGGTGTAATGGAA
12892742 TAGAGGTGTAAT
1 TAGAGGTGTAAT
12892754 AGCAAATCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.35, C:0.02, G:0.37, T:0.27
Consensus pattern (16 bp):
TAGAGGTGTAATGGAA
Found at i:12892737 original size:32 final size:32
Alignment explanation
Indices: 12892691--12892753 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
12892681 CGCTGTATTA
12892691 GATTAGAGGCGTAATGGAATAGAGGTGTAATG
1 GATTAGAGGCGTAATGGAATAGAGGTGTAATG
*
12892723 GATTAGAGGTGTAATGGAATAGAGGTGTAAT
1 GATTAGAGGCGTAATGGAATAGAGGTGTAAT
12892754 AGCAAATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.02, G:0.37, T:0.27
Consensus pattern (32 bp):
GATTAGAGGCGTAATGGAATAGAGGTGTAATG
Found at i:12892787 original size:45 final size:44
Alignment explanation
Indices: 12892732--12892822 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
12892722 GGATTAGAGG
*
12892732 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
12892777 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
12892821 TG
1 TG
12892823 GAATAGAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:12893004 original size:16 final size:16
Alignment explanation
Indices: 12892967--12893008 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12892957 TTAATCATAT
*
12892967 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
12892983 TT-AAATATATTATAA
1 TTAAAATATATTATAA
12892998 TTAAAATATAT
1 TTAAAATATAT
12893009 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:12893015 original size:14 final size:15
Alignment explanation
Indices: 12892976--12893017 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12892966 TTTAAACATA
*
12892976 ATTATTATTAAATAT
1 ATTATAATTAAATAT
12892991 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
12893005 A-TATAATTTAATA
1 ATTATAATTAAATA
12893018 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:12893085 original size:33 final size:33
Alignment explanation
Indices: 12893048--12893115 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
12893038 TCTTATATGG
* * *
12893048 ATTTACTCAAATCATAATATATGATACTATAAA
1 ATTTACTAAAATCATAATACATAATACTATAAA
12893081 ATTTACTAAAATCATAATACATAATACTATAAA
1 ATTTACTAAAATCATAATACATAATACTATAAA
12893114 AT
1 AT
12893116 ATAATTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.35
Consensus pattern (33 bp):
ATTTACTAAAATCATAATACATAATACTATAAA
Found at i:12894819 original size:31 final size:31
Alignment explanation
Indices: 12894781--12894845 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
12894771 TGAATAGAGG
12894781 TTTGATTTTACAAGAATGAATATGGTGCAAC
1 TTTGATTTTACAAGAATGAATATGGTGCAAC
12894812 TTTGATTTTACAAGAATGAATATGGTGCAAC
1 TTTGATTTTACAAGAATGAATATGGTGCAAC
12894843 TTT
1 TTT
12894846 ACGACAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (31 bp):
TTTGATTTTACAAGAATGAATATGGTGCAAC
Found at i:12907724 original size:3 final size:3
Alignment explanation
Indices: 12907716--12907770 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
12907706 GACTATTAAT
*
12907716 TAA TAA TAA TAA T-A TAA TAA TAA T-A TAA TAC TAA TAA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
12907760 -AA TAAA TAA TA
1 TAA T-AA TAA TA
12907771 TTTCGGCATC
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 6 0.13
3 33 0.73
4 6 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12907734 original size:11 final size:11
Alignment explanation
Indices: 12907718--12907770 Score: 65
Period size: 11 Copynumber: 4.8 Consensus size: 11
12907708 CTATTAATTA
12907718 ATAATAATAAT
1 ATAATAATAAT
12907729 ATAATAATAAT
1 ATAATAATAAT
*
12907740 ATAATACTAAT
1 ATAATAATAAT
12907751 AATTAATAA-AAT
1 -A-TAATAATAAT
12907763 A-AATAATA
1 ATAATAATA
12907771 TTTCGGCATC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
9 5 0.14
10 1 0.03
11 22 0.59
12 4 0.11
13 5 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:12907768 original size:25 final size:25
Alignment explanation
Indices: 12907712--12907770 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
12907702 TATTGACTAT
12907712 TAAT-TAATAATAATAATATAATAA
1 TAATATAATAATAATAATATAATAA
*
12907736 TAATATAATACTAATAAT-TAATAA
1 TAATATAATAATAATAATATAATAA
12907760 -AATA-AATAATA
1 TAATATAATAATA
12907771 TTTCGGCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 6 0.19
23 4 0.12
24 10 0.31
25 12 0.38
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
TAATATAATAATAATAATATAATAA
Found at i:12908905 original size:6 final size:6
Alignment explanation
Indices: 12908868--12908894 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12908858 TATATTTATA
12908868 AATATT AATATT AATATT AATATT AAT
1 AATATT AATATT AATATT AATATT AAT
12908895 TATTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATATT
Found at i:12911450 original size:16 final size:18
Alignment explanation
Indices: 12911431--12911463 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
12911421 ATAATTTTTA
12911431 AAAAATA-T-AATACATC
1 AAAAATACTAAATACATC
12911447 AAAAATACTAAATACAT
1 AAAAATACTAAATACAT
12911464 TAAAGTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATACTAAATACATC
Found at i:12914676 original size:31 final size:30
Alignment explanation
Indices: 12914618--12914678 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
12914608 AATAGCTCAA
12914618 TGACTTAAATAAAAATTCTAAATAGTTTAG
1 TGACTTAAATAAAAATTCTAAATAGTTTAG
* * *
12914648 TGACTTAAATGAAAACTTTTGAATAGTTTAG
1 TGACTTAAAT-AAAAATTCTAAATAGTTTAG
12914679 CGACCATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.38
Consensus pattern (30 bp):
TGACTTAAATAAAAATTCTAAATAGTTTAG
Found at i:12917120 original size:23 final size:22
Alignment explanation
Indices: 12917088--12917149 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 22
12917078 CCCGACCCAT
*
12917088 TTTTTGATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
12917112 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
12917134 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
12917150 TTGTTATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 15 0.42
24 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:12917162 original size:16 final size:16
Alignment explanation
Indices: 12917123--12917164 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
12917113 TTTTATTAAA
*
12917123 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
12917139 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
12917155 ATTAAAATTA
1 ATTAAAATTA
12917165 TATCAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:12917279 original size:110 final size:110
Alignment explanation
Indices: 12917159--12917361 Score: 336
Period size: 111 Copynumber: 1.8 Consensus size: 110
12917149 ATTGTTATTA
* * ** *
12917159 AAATTATATCAAATTA-TATTTTTTTTACCAGTCAAAACATTTTTTAAAATCTAACATTTTGTTA
1 AAATTATATCAAATTATTAATTGTTACACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTA
12917223 GTAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATC
66 GTAAAA-TATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATC
12917269 AAATTATATCAAATTATTAATTGTTACACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTA
1 AAATTATATCAAATTATTAATTGTTACACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTA
*
12917334 GTAAAATATTAATTTTTAATTGTATTAA
66 GTAAAATATTAATTGTTAATTGTATTAA
12917362 GGACAATTTA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
110 37 0.43
111 49 0.57
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (110 bp):
AAATTATATCAAATTATTAATTGTTACACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTA
GTAAAATATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATC
Found at i:12923909 original size:16 final size:17
Alignment explanation
Indices: 12923890--12923924 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
12923880 TATATATTTT
12923890 AAACAT-AAAAAACTTA
1 AAACATAAAAAAACTTA
12923906 AAACATAAAAAAACTTA
1 AAACATAAAAAAACTTA
12923923 AA
1 AA
12923925 CTAAAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.17
Consensus pattern (17 bp):
AAACATAAAAAAACTTA
Found at i:12923914 original size:22 final size:22
Alignment explanation
Indices: 12923854--12923914 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
12923844 AGTCAAAACT
*
12923854 AAAACTAAAAACTTAAACATAA
1 AAAACTTAAAACTTAAACATAA
* **
12923876 AAAA-TATATATTTTAAACATAA
1 AAAACT-TAAAACTTAAACATAA
*
12923898 AAAACTTAAAACATAAA
1 AAAACTTAAAACTTAAA
12923915 AAAACTTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAACTTAAAACTTAAACATAA
Found at i:12923925 original size:16 final size:16
Alignment explanation
Indices: 12923888--12923930 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
12923878 AATATATATT
12923888 TTAAACAT-AAAAAAC
1 TTAAACATAAAAAAAC
12923903 TTAAAACATAAAAAAAC
1 TT-AAACATAAAAAAAC
12923920 TTAAAC-TAAAA
1 TTAAACATAAAA
12923931 CTAAAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.27
16 10 0.38
17 9 0.35
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (16 bp):
TTAAACATAAAAAAAC
Found at i:12931290 original size:26 final size:26
Alignment explanation
Indices: 12931255--12931311 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
12931245 AATAGAGTTC
*
12931255 ATTTTTTATTAATAAATTTTAATAAA
1 ATTTTTTATTAATAAATATTAATAAA
* **
12931281 ATTTTTTATTATTTCATATTAATAAA
1 ATTTTTTATTAATAAATATTAATAAA
12931307 ATTTT
1 ATTTT
12931312 AATGTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTTTTTATTAATAAATATTAATAAA
Found at i:12933833 original size:2 final size:2
Alignment explanation
Indices: 12933826--12933854 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12933816 TTACCTTATT
12933826 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
12933855 TTTCTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12934012 original size:18 final size:18
Alignment explanation
Indices: 12933985--12934023 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
12933975 CTCCGCCTGC
*
12933985 TTGCTCGACTTAACGGGA
1 TTGCTCGACTTAACAGGA
*
12934003 TTGCTTGACTTAACAGGA
1 TTGCTCGACTTAACAGGA
12934021 TTG
1 TTG
12934024 AAAAAGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (18 bp):
TTGCTCGACTTAACAGGA
Found at i:12936104 original size:27 final size:27
Alignment explanation
Indices: 12936073--12936130 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
12936063 ATTAAAATAT
12936073 ATTACTTTTAGCACTTATAAATTAAGC
1 ATTACTTTTAGCACTTATAAATTAAGC
*
12936100 ATTACTTTTAGCACTTATAAATTGAGC
1 ATTACTTTTAGCACTTATAAATTAAGC
12936127 ATTA
1 ATTA
12936131 ACATATATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (27 bp):
ATTACTTTTAGCACTTATAAATTAAGC
Found at i:12937335 original size:3 final size:3
Alignment explanation
Indices: 12937327--12937352 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12937317 GGAGGATTGT
12937327 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
12937353 CCATTAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:12946326 original size:14 final size:15
Alignment explanation
Indices: 12946307--12946341 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
12946297 TTTAATTTTC
12946307 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
*
12946321 AAAATTTTAAAAATA
1 AAAATTTCAAAAATA
12946336 AAAATT
1 AAAATT
12946342 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:12946371 original size:30 final size:30
Alignment explanation
Indices: 12946337--12946438 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
12946327 TTAAAAATAA
*
12946337 AAATTGCATTTTGACCCCTAAACTTTTC-TT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
12946367 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
12946397 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
12946427 AAATTTCATTTT
1 AAATTTCATTTT
12946439 AATCCTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 4 0.06
30 59 0.94
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:12946719 original size:10 final size:10
Alignment explanation
Indices: 12946700--12946749 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
12946690 TTTTTCGAAG
*
12946700 GAAAAAAGAA
1 GAAAAGAGAA
12946710 GAAAAGAGAA
1 GAAAAGAGAA
12946720 GAAAAGAGAA
1 GAAAAGAGAA
* *
12946730 -AGAGGAGAA
1 GAAAAGAGAA
12946739 GAAAAGA-AA
1 GAAAAGAGAA
12946748 GA
1 GA
12946750 GTACCGGCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:12946750 original size:17 final size:19
Alignment explanation
Indices: 12946703--12946745 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
12946693 TTCGAAGGAA
12946703 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
12946721 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
12946740 AAAAGA
1 AAAAGA
12946746 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:12946821 original size:3 final size:3
Alignment explanation
Indices: 12946815--12946842 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12946805 GTGTAGGAGG
12946815 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
12946843 AGAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:12946992 original size:31 final size:31
Alignment explanation
Indices: 12946955--12947058 Score: 97
Period size: 32 Copynumber: 3.3 Consensus size: 31
12946945 AAATTAATTA
*
12946955 AAAAAAACAACACAAA-AAAAAACAAATCAGCCC
1 AAAAAAA-AAC-CAAAGAAAAAA-AAAGCAGCCC
*
12946988 AAAAAAAAACCAAAGCAAAAAAAAGCAGCCC
1 AAAAAAAAACCAAAGAAAAAAAAAGCAGCCC
*
12947019 AAAAAGAAAAGGCCCAA-AAAAAAAAA-CAGCCC
1 AAAAA-AAAA--CCAAAGAAAAAAAAAGCAGCCC
*
12947051 AGAAAAAA
1 AAAAAAAA
12947059 GAAGCAGGCC
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
31 21 0.34
32 22 0.35
33 15 0.24
34 4 0.06
ACGTcount: A:0.69, C:0.21, G:0.09, T:0.01
Consensus pattern (31 bp):
AAAAAAAAACCAAAGAAAAAAAAAGCAGCCC
Found at i:12947028 original size:17 final size:16
Alignment explanation
Indices: 12946971--12947065 Score: 70
Period size: 17 Copynumber: 5.8 Consensus size: 16
12946961 ACAACACAAA
*
12946971 AAAAAACAAATCAGCCC
1 AAAAAA-AAAGCAGCCC
* ***
12946988 AAAAAAAAACCAAAGC
1 AAAAAAAAAGCAGCCC
12947004 -AAAAAAAAGCAGCCC
1 AAAAAAAAAGCAGCCC
12947019 AAAAAGAAAAG--GCCC
1 AAAAA-AAAAGCAGCCC
*
12947034 AAAAAAAAAAACAGCCC
1 -AAAAAAAAAGCAGCCC
12947051 AGAAAAAAGAAGCAG
1 A-AAAAAA-AAGCAG
12947066 GCCACAGCAG
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
15 19 0.31
16 16 0.26
17 21 0.34
18 5 0.08
ACGTcount: A:0.65, C:0.21, G:0.13, T:0.01
Consensus pattern (16 bp):
AAAAAAAAAGCAGCCC
Found at i:12947037 original size:14 final size:14
Alignment explanation
Indices: 12947004--12947042 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
12946994 AAACCAAAGC
12947004 AAAAAAAAGCAGCCCA
1 AAAAAAAAG--GCCCA
12947020 AAAAGAAAAGGCCCA
1 AAAA-AAAAGGCCCA
12947035 AAAAAAAA
1 AAAAAAAA
12947043 AACAGCCCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 9 0.41
16 4 0.18
17 5 0.23
ACGTcount: A:0.69, C:0.18, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGGCCCA
Found at i:12947173 original size:15 final size:15
Alignment explanation
Indices: 12947153--12947248 Score: 111
Period size: 15 Copynumber: 6.1 Consensus size: 15
12947143 CAAGCCAGGA
* *
12947153 AAAAAAGAGAGAAAG
1 AAAAAAGAAAAAAAG
12947168 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
12947183 AAAGAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
12947198 AAAAGAGAAAAAAAGG
1 AAAAAAGAAAAAAA-G
12947214 AAAAAAGGAAAAAAGAAG
1 AAAAAA-G-AAAAA-AAG
12947232 AAAAAAAGAAAAAAAG
1 -AAAAAAGAAAAAAAG
12947248 A
1 A
12947249 GAGTTTCAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
15 40 0.57
16 9 0.13
17 6 0.09
18 7 0.10
19 8 0.11
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:12947179 original size:8 final size:8
Alignment explanation
Indices: 12947151--12947248 Score: 103
Period size: 8 Copynumber: 12.2 Consensus size: 8
12947141 AGCAAGCCAG
12947151 GAAAAAAA
1 GAAAAAAA
* *
12947159 GAGAGAAA
1 GAAAAAAA
12947167 G-AAAAAA
1 GAAAAAAA
12947174 GAAAAAAA
1 GAAAAAAA
*
12947182 G-AAAGAA
1 GAAAAAAA
12947189 GAAAAAAA
1 GAAAAAAA
*
12947197 G-AAAAGA
1 GAAAAAAA
12947204 GAAAAAAA
1 GAAAAAAA
*
12947212 GGAAAAAAG
1 -GAAAAAAA
12947221 GAAAAAAGAA
1 G-AAAAA-AA
12947231 GAAAAAAA
1 GAAAAAAA
12947239 GAAAAAAA
1 GAAAAAAA
12947247 GA
1 GA
12947249 GAGTTTCAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
7 17 0.23
8 38 0.51
9 17 0.23
10 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:12947181 original size:23 final size:22
Alignment explanation
Indices: 12947151--12947248 Score: 98
Period size: 23 Copynumber: 4.5 Consensus size: 22
12947141 AGCAAGCCAG
*
12947151 GAAAAAAAGAGAGAAAGAAAAAA
1 GAAAAAAAGAAAG-AAGAAAAAA
12947174 GAAAAAAAGAAAGAAGAAAAAAA
1 GAAAAAAAGAAAGAAG-AAAAAA
12947197 GAAAAGAGAA-AAA-AAGGAAAAAA
1 GAAAA-A-AAGAAAGAA-GAAAAAA
*
12947220 GGAAAAAAG-AAG-A-AAAAAA
1 GAAAAAAAGAAAGAAGAAAAAA
12947239 GAAAAAAAGA
1 GAAAAAAAGA
12947249 GAGTTTCAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
19 14 0.22
21 5 0.08
22 4 0.06
23 35 0.54
24 5 0.08
25 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
GAAAAAAAGAAAGAAGAAAAAA
Done.