Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 53 of 79
Found at i:17860927 original size:82 final size:83
Alignment explanation
Indices: 17860758--17860944 Score: 199
Period size: 82 Copynumber: 2.3 Consensus size: 83
17860748 AGGCTCGATG
* * *
17860758 CCTAGCAGGCTTAATGCCGGTG-AATTATTTTAGACTTTATGTCTAGCAGGCTTAATGCCGGTGA
1 CCTAGCAGGCTTAAGGCCGGTGAAATGATTTTAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
* **
17860822 ATTATTTCAGACTTTATG
66 ATTATATCAGACTTTAAA
* *
17860840 TCTAGCAGGCTTAAGGCCGGTGAAATGA-TTTGGACTTTAAGTCTAGCAGGC-TAAGTGCCGGTG
1 CCTAGCAGGCTTAAGGCCGGTGAAATGATTTTAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTG
*
17860903 -ATCTGA-ATCAG-GTTATAAA
65 AAT-T-ATATCAGACTT-TAAA
17860922 CCTAGCAGGC-TAAGTGCCGGTGA
1 CCTAGCAGGCTTAAG-GCCGGTGA
17860945 TCTGAATCAG
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
81 11 0.12
82 73 0.82
83 5 0.06
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (83 bp):
CCTAGCAGGCTTAAGGCCGGTGAAATGATTTTAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
ATTATATCAGACTTTAAA
Found at i:17863024 original size:12 final size:12
Alignment explanation
Indices: 17863007--17863034 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
17862997 TATATTTTTA
17863007 AATAATAATAGT
1 AATAATAATAGT
17863019 AATAATAATAGT
1 AATAATAATAGT
17863031 AATA
1 AATA
17863035 CATATACCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:17869102 original size:15 final size:15
Alignment explanation
Indices: 17869082--17869115 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
17869072 AGCAAAGTGT
17869082 TAGTAAGTAGGGATG
1 TAGTAAGTAGGGATG
17869097 TAGTAAGTAGGGATG
1 TAGTAAGTAGGGATG
17869112 TAGT
1 TAGT
17869116 GTTTGATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.29
Consensus pattern (15 bp):
TAGTAAGTAGGGATG
Found at i:17872096 original size:20 final size:20
Alignment explanation
Indices: 17872071--17872111 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17872061 ACCAAATAAG
17872071 AACCTGGTTTGAATAAATTA
1 AACCTGGTTTGAATAAATTA
17872091 AACCTGGTTTGAATAAATTA
1 AACCTGGTTTGAATAAATTA
17872111 A
1 A
17872112 GGCATTGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (20 bp):
AACCTGGTTTGAATAAATTA
Found at i:17872944 original size:20 final size:18
Alignment explanation
Indices: 17872907--17872959 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
17872897 CAAAAGTTAT
*
17872907 AAAAATTATTAAATTTTA
1 AAAAATTATTAAAATTTA
17872925 AAAAATATATTTAAAATTTA
1 AAAAAT-TA-TTAAAATTTA
17872945 TTAAAAATT-TTAAAA
1 --AAAAATTATTAAAA
17872960 AATATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 6 0.20
19 8 0.27
20 9 0.30
21 1 0.03
22 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAATTATTAAAATTTA
Found at i:17872946 original size:30 final size:31
Alignment explanation
Indices: 17872906--17872965 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
17872896 ACAAAAGTTA
17872906 TAAAAATTATT-AAATTTTAAAAAATATATT
1 TAAAAATTATTAAAATTTTAAAAAATATATT
*
17872936 TAAAATTTATTAAAAATTTTAAAAAATATA
1 TAAAAATTATT-AAAATTTTAAAAAATATA
17872966 AATATCGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 10 0.37
32 17 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
TAAAAATTATTAAAATTTTAAAAAATATATT
Found at i:17872976 original size:18 final size:17
Alignment explanation
Indices: 17872955--17873006 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
17872945 TTAAAAATTT
*
17872955 TAAAAAATATAAATATCG
1 TAAAAAATATAAA-ATCA
**
17872973 TAAAATTTTATAAAATCA
1 TAAAA-AATATAAAATCA
17872991 TAAATAAATATAAAAT
1 TAAA-AAATATAAAAT
17873007 GTATCAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
TAAAAAATATAAAATCA
Found at i:17872987 original size:37 final size:33
Alignment explanation
Indices: 17872906--17873004 Score: 89
Period size: 37 Copynumber: 2.9 Consensus size: 33
17872896 ACAAAAGTTA
*
17872906 TAAAAATTATT-AAATTTTAAAAAATAT--ATT
1 TAAAATTTATTAAAATTTTAAAAAATATAAATT
17872936 TAAAATTTATTAAAAATTTTAAAAAATATAAATAT
1 TAAAATTTATT-AAAATTTTAAAAAATATAAAT-T
**
17872971 CGTAAAATTT-TATAAAATCATAAATAAATATAAA
1 --TAAAATTTAT-TAAAATTTTAAA-AAATATAAA
17873005 ATGTATCAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
30 10 0.18
32 16 0.28
34 2 0.04
35 1 0.02
36 10 0.18
37 18 0.32
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (33 bp):
TAAAATTTATTAAAATTTTAAAAAATATAAATT
Found at i:17874135 original size:30 final size:31
Alignment explanation
Indices: 17874087--17874149 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
17874077 TTTCTTATGT
17874087 CAATATTTCGAAACCCATATCTTTGACTTTC
1 CAATATTTCGAAACCCATATCTTTGACTTTC
*
17874118 CAATATTT-GATACCCATATCTTTGACTTTC
1 CAATATTTCGAAACCCATATCTTTGACTTTC
17874148 CA
1 CA
17874150 TAATATGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (31 bp):
CAATATTTCGAAACCCATATCTTTGACTTTC
Found at i:17874141 original size:15 final size:16
Alignment explanation
Indices: 17874099--17874144 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
17874089 ATATTTCGAA
17874099 ACCCATATCTTTGACT
1 ACCCATATCTTTGACT
** *
17874115 TTCCA-ATATTTGA-T
1 ACCCATATCTTTGACT
17874129 ACCCATATCTTTGACT
1 ACCCATATCTTTGACT
17874145 TTCCATAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 4
0.69 0.19 0.12
Matches are distributed among these distances:
14 4 0.18
15 14 0.64
16 4 0.18
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.41
Consensus pattern (16 bp):
ACCCATATCTTTGACT
Found at i:17878490 original size:27 final size:27
Alignment explanation
Indices: 17878451--17878504 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
17878441 GAGGTTCAGC
17878451 AAATTTTTCCTACGTCCTCAGGCACTA
1 AAATTTTTCCTACGTCCTCAGGCACTA
*
17878478 AAATTTTGT-CTACGTCCTCGGGCACTA
1 AAATTTT-TCCTACGTCCTCAGGCACTA
17878505 CCAAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (27 bp):
AAATTTTTCCTACGTCCTCAGGCACTA
Found at i:17878760 original size:30 final size:31
Alignment explanation
Indices: 17878705--17878764 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17878695 TTTCTTATGC
* *
17878705 CAATATTTCGATACCCATTTTTTTGACTTTT
1 CAATATTTCGATACCCATATCTTTGACTTTT
*
17878736 CAATATTT-GATACCTATATCTTTGACTTT
1 CAATATTTCGATACCCATATCTTTGACTTT
17878765 CCATAATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (31 bp):
CAATATTTCGATACCCATATCTTTGACTTTT
Found at i:17882913 original size:45 final size:45
Alignment explanation
Indices: 17882844--17882960 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 45
17882834 AAATGGCAAG
* * ***
17882844 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAGTGAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTAAAGACAACAAA
** *
17882889 TCTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAAGACAACAAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTAAAGACAACAAA
*
17882934 TCTTATCTCCCTGAAGTTGTAGCGGAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAG
17882961 TAGATTTAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTAAAGACAACAAA
Found at i:17883193 original size:20 final size:21
Alignment explanation
Indices: 17883156--17883196 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
17883146 TTTTGCCCGG
*
17883156 ACCCAAAACTAAATAAATAAA
1 ACCCAAAACTAAAAAAATAAA
17883177 ACCCAAAA-TAAAAAAATAAA
1 ACCCAAAACTAAAAAAATAAA
17883197 CAGTCCATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.71, C:0.17, G:0.00, T:0.12
Consensus pattern (21 bp):
ACCCAAAACTAAAAAAATAAA
Found at i:17887949 original size:62 final size:57
Alignment explanation
Indices: 17887873--17888007 Score: 164
Period size: 57 Copynumber: 2.3 Consensus size: 57
17887863 AATTGACGGT
* *
17887873 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAAGGATCTAGCCCAGACGGATGAT-C--T--TGATATAGCCCTCCCGAAGAATATGTG-G
*
17887936 AAAAA-GATCTAGCCTAGACGGATGATCTTGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGGATCTAGCCCAGACGGATGATCTTGATATAGCCCTCCCGAAGAATATGTGG
* *
17887992 AAAATGGATTTAGCCC
1 AAAAAGGATCTAGCCC
17888008 GAGTGTGCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
56 5 0.08
57 35 0.54
59 1 0.02
61 1 0.02
62 18 0.28
63 5 0.08
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (57 bp):
AAAAAGGATCTAGCCCAGACGGATGATCTTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:17889467 original size:116 final size:116
Alignment explanation
Indices: 17889263--17889489 Score: 436
Period size: 116 Copynumber: 2.0 Consensus size: 116
17889253 TTATCCTTTT
*
17889263 CCCATTATCTCCTTCCATTATCTCTTTAATAAGAGCCTCCACATCCTTACGCTTTACGTCAGGGT
1 CCCATTATCTCCTTCCATTATCTCTTTAACAAGAGCCTCCACATCCTTACGCTTTACGTCAGGGT
17889328 TGATTTCCATTCCATTGCCCCATGTGGTGCACGAATATCGACAATTCGTTG
66 TGATTTCCATTCCATTGCCCCATGTGGTGCACGAATATCGACAATTCGTTG
*
17889379 CCCATTATCTCCTTCCATTATCTCTTTAACAAGAGCCTCTACATCCTTACGCTTTACGTCAGGGT
1 CCCATTATCTCCTTCCATTATCTCTTTAACAAGAGCCTCCACATCCTTACGCTTTACGTCAGGGT
17889444 TGATTTCCATTCCATTGCCCCATGTGGTGCACGAATATCGACAATT
66 TGATTTCCATTCCATTGCCCCATGTGGTGCACGAATATCGACAATT
17889490 TGTTTGTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 109 1.00
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.34
Consensus pattern (116 bp):
CCCATTATCTCCTTCCATTATCTCTTTAACAAGAGCCTCCACATCCTTACGCTTTACGTCAGGGT
TGATTTCCATTCCATTGCCCCATGTGGTGCACGAATATCGACAATTCGTTG
Found at i:17892048 original size:3 final size:3
Alignment explanation
Indices: 17892035--17892064 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
17892025 CAATCCAGCT
*
17892035 GAA GGA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
17892065 TGTGGTGCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17892454 original size:37 final size:37
Alignment explanation
Indices: 17892333--17892470 Score: 111
Period size: 37 Copynumber: 3.7 Consensus size: 37
17892323 AACTAATATT
* **
17892333 ATTATTATGGTTAGTTATTAGGATTAGTAAAAACCCTA
1 ATTATTATTGTTAGTTATTATTATTAGT-AAAACCCTA
* *** * *
17892371 ATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTA-CATT
1 ATTATTATTGTTAGTTA-T-T-ATTATTAG-TAAAACCCTA
*
17892410 A-TATTATTGTTAGTTATTATTTTTAGTAAAACCCTA
1 ATTATTATTGTTAGTTATTATTATTAGTAAAACCCTA
*
17892446 ATTATTATTGTTAGTTAGTATTATT
1 ATTATTATTGTTAGTTATTATTATT
17892471 TTGCGTAAAA
Statistics
Matches: 76, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
35 2 0.03
36 10 0.13
37 29 0.38
38 17 0.22
39 11 0.14
40 6 0.08
41 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.51
Consensus pattern (37 bp):
ATTATTATTGTTAGTTATTATTATTAGTAAAACCCTA
Found at i:17892491 original size:76 final size:79
Alignment explanation
Indices: 17892286--17892514 Score: 245
Period size: 76 Copynumber: 2.9 Consensus size: 79
17892276 GTTTAGTTAT
* * *
17892286 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTGGTAAAAAAC---TATTATTATTAT-GTTAGTTAT
17892351 TAGGATTAGTAAAAACCC
62 TAGGATTAGTAAAAACCC
* * **** *
17892369 TAATTATTATT-TTAGTTAGTATGATTGTTAGT-TTTTAC-ATTA-TATTATTGTTAGTTATTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTGGTAAAAAACTATTATTATTA-TGTTAGTTATTAG
**
17892430 TTTTAGT-AAAACCC
65 GATTAGTAAAAACCC
*
17892444 TAATTATTATTGTTAGTTAGTATTATT-TTGCGTAAAAAACTATTATTATTGTGTTAGTTATTAG
1 TAATTATTATTGTTAGTTAGTATTATTGTTG-GTAAAAAACTATTATTATTATGTTAGTTATTAG
17892508 GATTAGT
65 GATTAGT
17892515 GGTTAAACGT
Statistics
Matches: 120, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
75 20 0.17
76 37 0.31
77 7 0.06
78 21 0.17
79 4 0.03
81 2 0.02
82 19 0.16
83 10 0.08
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (79 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTGGTAAAAAACTATTATTATTATGTTAGTTATTAGG
ATTAGTAAAAACCC
Found at i:17892499 original size:41 final size:41
Alignment explanation
Indices: 17892286--17892506 Score: 132
Period size: 40 Copynumber: 5.6 Consensus size: 41
17892276 GTTTAGTTAT
* *
17892286 TAATAATTATTGTTACTTAG-TATTATTGTT-AGTAAAAAAC
1 TAATTATTATTGTTAGTTAGTTATTATT-TTGAGTAAAAAAC
* ** *
17892326 TAA-TATTATTATTATGGTTAGTTATTAGGATT-AGTAAAAACCC
1 TAATTATTATTGTTA--GTTAGTTATTA-TTTTGAGTAAAAA-AC
* ****
17892369 TAATTATTATT-TTAGTTAG-TATGATTGTT-AGT-TTTTAC
1 TAATTATTATTGTTAGTTAGTTATTATT-TTGAGTAAAAAAC
* * **
17892407 --ATTA-TATTATT-GTTAGTTATTATTTTTAGTAAAACCC
1 TAATTATTATTGTTAGTTAGTTATTATTTTGAGTAAAAAAC
*
17892444 TAATTATTATTGTTAGTTAG-TATTATTTTGCGTAAAAAAC
1 TAATTATTATTGTTAGTTAGTTATTATTTTGAGTAAAAAAC
17892484 T-ATTATTATTG-T-GTTAGTTATTA
1 TAATTATTATTGTTAGTTAGTTATTA
17892507 GGATTAGTGG
Statistics
Matches: 140, Mismatches: 25, Indels: 34
0.70 0.13 0.17
Matches are distributed among these distances:
35 11 0.08
36 15 0.11
37 6 0.04
38 7 0.05
39 23 0.16
40 35 0.25
41 14 0.10
42 15 0.11
43 7 0.05
44 7 0.05
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (41 bp):
TAATTATTATTGTTAGTTAGTTATTATTTTGAGTAAAAAAC
Found at i:17895162 original size:15 final size:16
Alignment explanation
Indices: 17895144--17895179 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
17895134 TGCTGTAAAA
*
17895144 TTGTTATG-TGTAATG
1 TTGTTATGTTGCAATG
17895159 TTGTTATGTTGCAATG
1 TTGTTATGTTGCAATG
17895175 TTGTT
1 TTGTT
17895180 GTAACACCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (16 bp):
TTGTTATGTTGCAATG
Found at i:17897646 original size:154 final size:153
Alignment explanation
Indices: 17897429--17898319 Score: 1185
Period size: 154 Copynumber: 6.0 Consensus size: 153
17897419 TTCAAAACAA
* * * *
17897429 ATTTATTAAAAAATCCTTATTTCGGCCTTTTGTTCGTATTTTTTCTCGGATTTTATTACTTTCAA
1 ATTTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAA
17897494 TAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
66 TAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
17897559 TTAATTTAGTGTGTTTAAAAAAT
131 TTAATTTAGTGTGTTTAAAAAAT
17897582 ATTTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTCTTTTCCCGGATTTTATTACTTTCA
1 ATTTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATT-TTTTCCCGGATTTTATTACTTTCA
17897647 ATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
65 ATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
17897712 ATTAATTTAGTGTGTTTAAAAAAT
130 ATTAATTTAGTGTGTTTAAAAAAT
17897736 ATTTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTCTTTTCCCGGATTTTATTACTTTCA
1 ATTTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATT-TTTTCCCGGATTTTATTACTTTCA
17897801 ATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
65 ATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
17897866 ATTAATTTAGTGTGTTTAAAAAAT
130 ATTAATTTAGTGTGTTTAAAAAAT
17897890 ATTTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTCTTTTCCCGGATTTTATTACTTTCA
1 ATTTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATT-TTTTCCCGGATTTTATTACTTTCA
* * *
17897955 ATAAAAATATATTATTTTATTATTTTATTATTTTACATTATTTTAGTACATTTTGTTTGAAATGT
65 ATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
*
17898020 ATTAATTTAGTGTGTTTTTTAAATAA-
130 ATTAATTTAGTGTG---TTTAAAAAAT
** * * * * * * ** * *
17898046 ATTTAGTAAAAAACTCTTATTTCGGCCCTTTGCTCGGAATTTTTACCGAAGCCTCATT-GTTTC-
1 ATTTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGGA-TTTTATTACTTTCA
* * *
17898109 --AAAAACATATTATTTTCGT-AGTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAATG
65 ATAAAAATATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
*
17898171 CATTAATTTA----G--TAAAAAACT
129 TATTAATTTAGTGTGTTTAAAAAA-T
* * * * * * *
17898191 CTTATTT---CAGCCC---TTT--G---TTCGT----ATTTTTTTCCAGATTTTATTACTTTC-A
1 ATTTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAA
* *
17898240 -AAAAATATTTTATTTTCGT-ATTTTATTATTTTACATTCTTTTAGTACATTATGTTTGAAATGT
66 TAAAAATATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
17898303 ATTAATTTAGTGTGTTT
130 ATTAATTTAGTGTGTTT
17898320 TTTATATAAA
Statistics
Matches: 672, Mismatches: 50, Indels: 48
0.87 0.06 0.06
Matches are distributed among these distances:
129 4 0.01
130 13 0.02
131 66 0.10
134 3 0.00
135 1 0.00
137 2 0.00
139 3 0.00
142 3 0.00
143 6 0.01
145 3 0.00
148 1 0.00
152 64 0.10
153 38 0.06
154 407 0.61
155 12 0.02
156 38 0.06
157 8 0.01
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (153 bp):
ATTTTTTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAA
TAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
TTAATTTAGTGTGTTTAAAAAAT
Found at i:17897977 original size:8 final size:8
Alignment explanation
Indices: 17897964--17897999 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
17897954 AATAAAAATA
17897964 TATTATTT
1 TATTATTT
17897972 TATTATTT
1 TATTATTT
17897980 TATTATTT
1 TATTATTT
17897988 TACATTATTT
1 T--ATTATTT
17897998 TA
1 TA
17898000 GTACATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 18 0.69
10 8 0.31
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTATTT
Found at i:17898284 original size:131 final size:130
Alignment explanation
Indices: 17898045--17898313 Score: 364
Period size: 131 Copynumber: 2.1 Consensus size: 130
17898035 TTTTTAAATA
* *
17898045 AATTTAGTAAAAAACTCTTATTTCGGCCCTTTGCTCGGAATTTTTACCGAAGCCTCATTGTTTCA
1 AATTTAGTAAAAAACTCTTATTTCAGCCCTTTGCTCGGAATTTTTACCGAAGCCTCATTCTTTCA
*
17898110 AAAACATATTATTTTCGTAGTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAATGCATT
66 AAAACATATTATTTTCGTAGTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGCATT
* * * * ** *
17898175 AATTTAGTAAAAAACTCTTATTTCAGCCCTTTGTTCGTATTTTTTTCC--AGATTTTATTACTTT
1 AATTTAGTAAAAAACTCTTATTTCAGCCCTTTGCTCGGAATTTTTACCGAAG-CCTCATT-CTTT
* *
17898238 CAAAAA-ATATTTTATTTTCGTATTTTATTATTTTACATTCTTTTAGTACATTATGTTTGAAATG
64 CAAAAACATA--TTATTTTCGTAGTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
*
17898302 TATT
127 CATT
17898306 AATTTAGT
1 AATTTAGT
17898314 GTGTTTTTTA
Statistics
Matches: 122, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
128 2 0.02
129 7 0.06
130 52 0.43
131 61 0.50
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.49
Consensus pattern (130 bp):
AATTTAGTAAAAAACTCTTATTTCAGCCCTTTGCTCGGAATTTTTACCGAAGCCTCATTCTTTCA
AAAACATATTATTTTCGTAGTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGCATT
Found at i:17898760 original size:5 final size:5
Alignment explanation
Indices: 17898750--17898804 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
17898740 CTTCTTCTTC
* * * *
17898750 TCCTT TCCTT TCCTT T-CTT CTCCTT TCCTT TTCTT TCTTT TTCTT TCTTT
1 TCCTT TCCTT TCCTT TCCTT -TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
17898800 TCCTT
1 TCCTT
17898805 CTTTCTTCTC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 3 0.08
5 34 0.85
6 3 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (5 bp):
TCCTT
Found at i:17898769 original size:20 final size:20
Alignment explanation
Indices: 17898744--17898804 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
17898734 CTCCCTCTTC
17898744 TTCTTCTCCTTTCCTTTCCT
1 TTCTTCTCCTTTCCTTTCCT
*
17898764 TTCTTCTCCTTTCCTTTTCT
1 TTCTTCTCCTTTCCTTTCCT
* * *
17898784 TTCTTTTTCTTTCTTTTCCT
1 TTCTTCTCCTTTCCTTTCCT
17898804 T
1 T
17898805 CTTTCTTCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (20 bp):
TTCTTCTCCTTTCCTTTCCT
Found at i:17898813 original size:20 final size:20
Alignment explanation
Indices: 17898743--17898810 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 20
17898733 CCTCCCTCTT
*
17898743 CTTC-TTCTCCTTTCCTTTC
1 CTTCTTTCTCCTTTCTTTTC
17898762 CTT-TCTTCTCCTTTCCTTTTC
1 CTTCT-TTCTCCTTT-CTTTTC
* *
17898783 TTTCTTT-TTCTTTCTTTTC
1 CTTCTTTCTCCTTTCTTTTC
17898802 CTTCTTTCT
1 CTTCTTTCT
17898811 TCTCCTCCAG
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 15 0.38
20 15 0.38
21 9 0.22
22 1 0.03
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
CTTCTTTCTCCTTTCTTTTC
Found at i:17899680 original size:96 final size:96
Alignment explanation
Indices: 17899580--17899810 Score: 392
Period size: 96 Copynumber: 2.4 Consensus size: 96
17899570 TGTTTATTAT
*
17899580 TTTTTAAGAAAAAATTAATTAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATGAAGTTTT
1 TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATGAAGTTTT
17899645 ATAAAATTAGATTAGGGTTTAGAG-TTAAGGG
66 ATAAAATTAGATTAGGGTTTAGAGTTTAA-GG
*
17899676 TTTTTAAGGAAAAATCAATTAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATGAAGTTTT
1 TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATGAAGTTTT
*
17899741 ATAAAATTAGATTAGGGTTTAGTGTTTAAGG
66 ATAAAATTAGATTAGGGTTTAGAGTTTAAGG
* *
17899772 TTTTTAAGTAAAAAATCAAATAAATTAGGGTTTGGGGTT
1 TTTTTAAG-AAAAAATCAATTAAATTAGGGTTTAGGGTT
17899811 TAGGGTTATT
Statistics
Matches: 127, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
96 96 0.76
97 31 0.24
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.40
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATGAAGTTTT
ATAAAATTAGATTAGGGTTTAGAGTTTAAGG
Found at i:17902207 original size:34 final size:33
Alignment explanation
Indices: 17902164--17902237 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 33
17902154 ATGTAAAAGT
*
17902164 AAATTTCTATTTTAGTACATGAAATAATATAGAA
1 AAATTTCTATTTTAGTACATCAAATAATAT-GAA
*
17902198 AAATTTCTATTTTATTACATCAAATAATATGAA
1 AAATTTCTATTTTAGTACATCAAATAATATGAA
17902231 AATATTT
1 AA-ATTT
17902238 AAAATGTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 5 0.14
34 32 0.86
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (33 bp):
AAATTTCTATTTTAGTACATCAAATAATATGAA
Found at i:17902376 original size:20 final size:20
Alignment explanation
Indices: 17902353--17902404 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
17902343 GCAAAGGTTG
17902353 TGGTTGCTCGG-CGGGGATTC
1 TGGTTGCTCGGTCGGGGA-TC
* *
17902373 TGGTTCCTCCGGTTGGGGATC
1 TGGTTGCT-CGGTCGGGGATC
17902394 TGGTTG-TCGGT
1 TGGTTGCTCGGT
17902405 GTTGGGACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 4 0.15
20 8 0.30
21 10 0.37
22 5 0.19
ACGTcount: A:0.04, C:0.19, G:0.42, T:0.35
Consensus pattern (20 bp):
TGGTTGCTCGGTCGGGGATC
Found at i:17902680 original size:18 final size:18
Alignment explanation
Indices: 17902640--17902682 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
17902630 CACTAGAAGA
* * *
17902640 AGGAAACATATAAGAGTT
1 AGGATACATAAAAGAGCT
17902658 AGGATACATAAAAGAGCT
1 AGGATACATAAAAGAGCT
*
17902676 GGGATAC
1 AGGATAC
17902683 GCACCTGCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGAGCT
Found at i:17903342 original size:7 final size:7
Alignment explanation
Indices: 17903330--17903361 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
17903320 TATTAGTTAT
17903330 ATACTAA
1 ATACTAA
17903337 ATACTAA
1 ATACTAA
17903344 ATACTAA
1 ATACTAA
17903351 ATACTAA
1 ATACTAA
17903358 ATAC
1 ATAC
17903362 CAATCGACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACTAA
Found at i:17904544 original size:11 final size:11
Alignment explanation
Indices: 17904530--17904583 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
17904520 TTTAAATAGA
17904530 AATTTGAGAGG
1 AATTTGAGAGG
*
17904541 AATTTGAAAGG
1 AATTTGAGAGG
17904552 AATTTGAGA-G
1 AATTTGAGAGG
17904562 AATATT-AGAGAG
1 AAT-TTGAGAG-G
*
17904574 AAATTGAGAG
1 AATTTGAGAG
17904584 AAAGGATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
10 7 0.19
11 22 0.61
12 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (11 bp):
AATTTGAGAGG
Found at i:17905734 original size:16 final size:16
Alignment explanation
Indices: 17905713--17905768 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
17905703 CGTTTGGTTC
17905713 ACTGTAATAGAATAGA
1 ACTGTAATAGAATAGA
17905729 ACTGTAATTA-AATAGA
1 ACTGTAA-TAGAATAGA
* *
17905745 ATTGTAATGGAATA-A
1 ACTGTAATAGAATAGA
17905760 ACTTGTAAT
1 AC-TGTAAT
17905769 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.09
16 29 0.85
17 2 0.06
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (16 bp):
ACTGTAATAGAATAGA
Found at i:17906066 original size:57 final size:58
Alignment explanation
Indices: 17905946--17906056 Score: 179
Period size: 57 Copynumber: 1.9 Consensus size: 58
17905936 TTTTAATAAG
* *
17905946 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAACCATATTTCAACATA
* *
17906004 ATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATCATATTTCAA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAACCATATTTCAA
17906057 TCTATTTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 27 0.55
58 22 0.45
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (58 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAACCATATTTCAACATA
Found at i:17907278 original size:37 final size:36
Alignment explanation
Indices: 17907223--17907296 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 36
17907213 ATAATTGATG
*
17907223 TAAATGGCATGTATCTAGGCTTGTATATATATATATA
1 TAAATGGCATGTACCTAGGCTTGTATATATATA-ATA
17907260 TAAATGGCATGTACCTAGGCTTGTATATATATAATA
1 TAAATGGCATGTACCTAGGCTTGTATATATATAATA
17907296 T
1 T
17907297 TATGTCGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 4 0.11
37 32 0.89
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.39
Consensus pattern (36 bp):
TAAATGGCATGTACCTAGGCTTGTATATATATAATA
Found at i:17910448 original size:40 final size:40
Alignment explanation
Indices: 17910319--17910435 Score: 216
Period size: 40 Copynumber: 2.9 Consensus size: 40
17910309 GTTTGAATAA
*
17910319 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTATAT
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTATAT
17910359 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTATAT
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTATAT
*
17910399 AAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTA
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTA
17910436 AGGAAAGCGC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTATAT
Found at i:17910543 original size:41 final size:41
Alignment explanation
Indices: 17910486--17910613 Score: 220
Period size: 41 Copynumber: 3.1 Consensus size: 41
17910476 TTTTGACCTT
* *
17910486 TCAGGCCTTTAGCGGCGTTTATGGAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
*
17910527 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCTGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
17910568 TCAGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
1 TCA-GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
17910610 TCAG
1 TCAG
17910614 NNNNNNNNNN
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 42 0.51
42 40 0.49
ACGTcount: A:0.18, C:0.22, G:0.34, T:0.27
Consensus pattern (41 bp):
TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
Found at i:17910589 original size:42 final size:42
Alignment explanation
Indices: 17910492--17910613 Score: 219
Period size: 42 Copynumber: 2.9 Consensus size: 42
17910482 CCTTTCAGGC
*
17910492 CTTTAGCGGCGTTTATGGAGAAGCGCCGCTAATGCTCA-GGG
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGGGG
*
17910533 CTTTAGCGGCGTTTTTGGAGAAGCGCTGCTAATGCTCAGGGG
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGGGG
17910575 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAG
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAG
17910614 NNNNNNNNNN
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 36 0.47
42 41 0.53
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGGGG
Found at i:17913784 original size:107 final size:107
Alignment explanation
Indices: 17913586--17913785 Score: 285
Period size: 107 Copynumber: 1.9 Consensus size: 107
17913576 AAATAATAAG
* * * *
17913586 TAAGACAATGTTTTGCGTTTGGAAATTCGAAAAAACGTACCCTAATGTGTTGGGTTTCGATTTTT
1 TAAGACAATGTTTTGCATTTGGAAATTCGAAAAAACGTACCCTAATGTGCTAGGTTTCGATTTTC
17913651 TCGTTCAACCAAATAGCCAAAAATCCTTATAAAATTTCAAAA
66 TCGTTCAACCAAATAGCCAAAAATCCTTATAAAATTTCAAAA
* * **
17913693 TAAGGCAATGTTTTGCATTTGGAAAATTCGAGAAAACGTGTCCTAATGTGCTAGGTTTCGA-TTT
1 TAAGACAATGTTTTGCATTTGG-AAATTCGAAAAAACGTACCCTAATGTGCTAGGTTTCGATTTT
** *
17913757 CTCGTTGGACCAAATAGCCAAATATCCTT
65 CTCGTTCAACCAAATAGCCAAAAATCCTT
17913786 TTGAATCTTA
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 48 0.59
108 33 0.41
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (107 bp):
TAAGACAATGTTTTGCATTTGGAAATTCGAAAAAACGTACCCTAATGTGCTAGGTTTCGATTTTC
TCGTTCAACCAAATAGCCAAAAATCCTTATAAAATTTCAAAA
Found at i:17918783 original size:44 final size:44
Alignment explanation
Indices: 17918720--17918807 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
17918710 CCCCCAACAT
*
17918720 GTTTCACAGTCCTACAAACATTGTATAAACCTAATAACCACCCA
1 GTTTCACAGTCCTACAAACATTATATAAACCTAATAACCACCCA
17918764 GTTTCACAGTCCTACAAACATTATATAAACCTAATAACCACCCA
1 GTTTCACAGTCCTACAAACATTATATAAACCTAATAACCACCCA
17918808 ACAAAAAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.40, C:0.30, G:0.06, T:0.25
Consensus pattern (44 bp):
GTTTCACAGTCCTACAAACATTATATAAACCTAATAACCACCCA
Found at i:17919945 original size:20 final size:21
Alignment explanation
Indices: 17919916--17919957 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
17919906 CATTTACATA
17919916 TTTTGCAATTTTA-TTTTATT
1 TTTTGCAATTTTATTTTTATT
*
17919936 TTTTGTAATTTTATTTTTATT
1 TTTTGCAATTTTATTTTTATT
17919957 T
1 T
17919958 ATGACATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTGCAATTTTATTTTTATT
Found at i:17922035 original size:31 final size:33
Alignment explanation
Indices: 17921995--17922055 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
17921985 TTAAATTTTA
* *
17921995 AAAAGTATAAAAATTAAAATTGACC-AATTCAG
1 AAAAGTATAAAAAATAAAATTAACCGAATTCAG
17922027 AAAA-TATAAAAAATAAAATTAACCGAATT
1 AAAAGTATAAAAAATAAAATTAACCGAATT
17922056 AAAGTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.61, C:0.08, G:0.07, T:0.25
Consensus pattern (33 bp):
AAAAGTATAAAAAATAAAATTAACCGAATTCAG
Found at i:17931472 original size:30 final size:30
Alignment explanation
Indices: 17931417--17931478 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
17931407 CACTAAGCAA
17931417 GTTTTATATACATGTATCATCCATTT-CAT
1 GTTTTATATACATGTATCATCCATTTCCAT
17931446 GTTTTAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTT-ATATA-CATGT-ATCATCCATTTCCAT
17931477 GT
1 GT
17931479 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (30 bp):
GTTTTATATACATGTATCATCCATTTCCAT
Found at i:17931714 original size:25 final size:24
Alignment explanation
Indices: 17931686--17931761 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 24
17931676 GTAATCTTAT
17931686 ACAAGCTAAGAATCAGTAAGCTCTC
1 ACAAGCTAAGAATC-GTAAGCTCTC
17931711 ACAAGCTATA-AATCGATAAGCTCAT-
1 ACAAGCTA-AGAATCG-TAAGCTC-TC
* *
17931736 ACGAGCTGAGAATCGGTAAGCTCTC
1 ACAAGCTAAGAATC-GTAAGCTCTC
17931761 A
1 A
17931762 TGAGTTGTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
24 3 0.07
25 37 0.86
26 3 0.07
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (24 bp):
ACAAGCTAAGAATCGTAAGCTCTC
Found at i:17932273 original size:9 final size:9
Alignment explanation
Indices: 17932259--17932289 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
17932249 AAGCCCATAT
17932259 ATTTCACAA
1 ATTTCACAA
17932268 ATTTCACAA
1 ATTTCACAA
17932277 ATTTCACAA
1 ATTTCACAA
17932286 ATTT
1 ATTT
17932290 TACCATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (9 bp):
ATTTCACAA
Found at i:17940340 original size:10 final size:11
Alignment explanation
Indices: 17940320--17940352 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
17940310 ATTTTTCCTA
17940320 GGATGTGAATT
1 GGATGTGAATT
17940331 GGAT-TGAATT
1 GGATGTGAATT
*
17940341 GAATGTGAATT
1 GGATGTGAATT
17940352 G
1 G
17940353 TATTAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (11 bp):
GGATGTGAATT
Found at i:17940346 original size:21 final size:21
Alignment explanation
Indices: 17940322--17940363 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17940312 TTTTCCTAGG
*
17940322 ATGTGAATTGGATTGAATTGA
1 ATGTGAATTGGATTAAATTGA
*
17940343 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATTAAATTGA
17940364 GCTAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (21 bp):
ATGTGAATTGGATTAAATTGA
Found at i:17940779 original size:24 final size:25
Alignment explanation
Indices: 17940726--17940773 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
17940716 TTGGCTCTCA
*
17940726 CGAGCTTCCCGTTATATAGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
17940751 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
17940774 CGGAGCATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.38
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:17943145 original size:22 final size:22
Alignment explanation
Indices: 17943104--17943154 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
17943094 AATTTTTAAT
17943104 TTTAAAAAATAGAGAAACTAAA
1 TTTAAAAAATAGAGAAACTAAA
17943126 TTTATAAAAATA-A-AAGACTAAA
1 TTTA-AAAAATAGAGAA-ACTAAA
17943148 TTCTAAA
1 TT-TAAA
17943155 TATACAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.08
22 15 0.58
23 9 0.35
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (22 bp):
TTTAAAAAATAGAGAAACTAAA
Found at i:17946936 original size:19 final size:19
Alignment explanation
Indices: 17946894--17946933 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
17946884 TCACTCCCCC
17946894 CTTCTCTTCTTTCACCTTT
1 CTTCTCTTCTTTCACCTTT
17946913 CTTCTC-TCTTT-ACCCTTT
1 CTTCTCTTCTTTCA-CCTTT
17946931 CTT
1 CTT
17946934 TCTGCCGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.05
18 13 0.65
19 6 0.30
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.57
Consensus pattern (19 bp):
CTTCTCTTCTTTCACCTTT
Found at i:17961307 original size:14 final size:13
Alignment explanation
Indices: 17961274--17961309 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
17961264 ATTAGGAGTC
17961274 AAATTGAGTTAAA
1 AAATTGAGTTAAA
17961287 AAATTGAGTTAAA
1 AAATTGAGTTAAA
17961300 AAATTTGAGT
1 AAA-TTGAGT
17961310 CGAGTTAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (13 bp):
AAATTGAGTTAAA
Found at i:17962132 original size:18 final size:18
Alignment explanation
Indices: 17962090--17962132 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
17962080 TAAAGTTTGG
*
17962090 AAATTTAAAAATAATTAT
1 AAATTAAAAAATAATTAT
* * *
17962108 CATTTAAAAAATAATTTT
1 AAATTAAAAAATAATTAT
17962126 AAATTAA
1 AAATTAA
17962133 CTATTATAAC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTAAAAAATAATTAT
Found at i:17962495 original size:6 final size:6
Alignment explanation
Indices: 17962479--17962512 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
17962469 ATAAAATAAA
17962479 TTTCATT TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTT
17962513 AAGTGAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:17967064 original size:16 final size:16
Alignment explanation
Indices: 17967043--17967076 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
17967033 CTTCAACCTC
*
17967043 TCATTTCCTTCTCATT
1 TCATTTCCTCCTCATT
17967059 TCATTTCCTCCTCATT
1 TCATTTCCTCCTCATT
17967075 TC
1 TC
17967077 CTCTCCGTCC
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:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:17968785 original size:321 final size:321
Alignment explanation
Indices: 17968203--17968845 Score: 1214
Period size: 321 Copynumber: 2.0 Consensus size: 321
17968193 TAACCTCAAG
17968203 AGTTACCTTCATTCAGGGAGTGCTATGGTTGTTACGCCTATGAGTAATACAAGATATGTCATAAG
1 AGTTACCTTCATTCAGGGAGTGCTATGGTTGTTACGCCTATGAGTAATACAAGATATGTCATAAG
* *
17968268 AAGTATTTTAAGTGTTAGAATGAATTCCACCTATTATTATATATACTAGATGGATGTTTCTAACA
66 AAGTATTTTAAATGCTAGAATGAATTCCACCTATTATTATATATACTAGATGGATGTTTCTAACA
17968333 TCTGAAATTGCTTATTGTAAATCAATGACTCTTTTAAGTTTAGAATTTCATGTATGAGGACTATC
131 TCTGAAATTGCTTATTGTAAATCAATGACTCTTTTAAGTTTAGAATTTCATGTATGAGGACTATC
*
17968398 TTTTCGTATCTATGTTTCTTTTGTTGTTTAAGTTGCAATATAGATCTTTCTCTCTGAGACAGATA
196 TTTTCATATCTATGTTTCTTTTGTTGTTTAAGTTGCAATATAGATCTTTCTCTCTGAGACAGATA
*
17968463 CATACTCAATGAGAGGTGTATGCACACATGCATGTAATTACATGTTATTCTTGTTTACCAC
261 CATACTCAAGGAGAGGTGTATGCACACATGCATGTAATTACATGTTATTCTTGTTTACCAC
*
17968524 AGTTACCTTCATTCAGGGAGTGCTATGGTTGTTACGTCTATGAGTAATACAAGATATGTCATAAG
1 AGTTACCTTCATTCAGGGAGTGCTATGGTTGTTACGCCTATGAGTAATACAAGATATGTCATAAG
* *
17968589 AAGTATTTTAAATGCTAGAATGAATTGCACCTATTATTATATATACTAGATGGATGTTTCTGACA
66 AAGTATTTTAAATGCTAGAATGAATTCCACCTATTATTATATATACTAGATGGATGTTTCTAACA
*
17968654 TCTGAAATTGCTTATTGTAAATCAATGACTCTTTTAAGTTTAGAATTTGATGTATGAGGACTATC
131 TCTGAAATTGCTTATTGTAAATCAATGACTCTTTTAAGTTTAGAATTTCATGTATGAGGACTATC
17968719 TTTTCATATCTATGTTTCTTTTGTTGTTTAAGTTGCAATATAGATCTTTCTCTCTGAGACAGATA
196 TTTTCATATCTATGTTTCTTTTGTTGTTTAAGTTGCAATATAGATCTTTCTCTCTGAGACAGATA
17968784 CATACTCAAGGAGAGGTGTATGCACACATGCATGTAATTACATGTTATTCTTGTTTACCAC
261 CATACTCAAGGAGAGGTGTATGCACACATGCATGTAATTACATGTTATTCTTGTTTACCAC
17968845 A
1 A
17968846 CTGTGTCTGT
Statistics
Matches: 314, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
321 314 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (321 bp):
AGTTACCTTCATTCAGGGAGTGCTATGGTTGTTACGCCTATGAGTAATACAAGATATGTCATAAG
AAGTATTTTAAATGCTAGAATGAATTCCACCTATTATTATATATACTAGATGGATGTTTCTAACA
TCTGAAATTGCTTATTGTAAATCAATGACTCTTTTAAGTTTAGAATTTCATGTATGAGGACTATC
TTTTCATATCTATGTTTCTTTTGTTGTTTAAGTTGCAATATAGATCTTTCTCTCTGAGACAGATA
CATACTCAAGGAGAGGTGTATGCACACATGCATGTAATTACATGTTATTCTTGTTTACCAC
Found at i:17969517 original size:20 final size:20
Alignment explanation
Indices: 17969492--17969531 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17969482 AATATTTTCC
* *
17969492 AGTAAATCATTTTACAGAAA
1 AGTAAAACACTTTACAGAAA
*
17969512 AGTAAAACACTTTCCAGAAA
1 AGTAAAACACTTTACAGAAA
17969532 TTATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTAAAACACTTTACAGAAA
Found at i:17970738 original size:28 final size:28
Alignment explanation
Indices: 17970666--17970739 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
17970656 TCTTTCTCAC
*
17970666 ATATATATAAAAT-ATA-TATTTTTATT
1 ATATAAATAAAATAATATTATTTTTATT
* *
17970692 ATAT-AATTACATAATTATTA-TTTTATTT
1 ATATAAATAAAATAA-TATTATTTTTA-TT
17970720 ATATAAATAAAATAATATTA
1 ATATAAATAAAATAATATTA
17970740 ATTAAAAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
25 5 0.13
26 5 0.13
27 7 0.18
28 13 0.34
29 8 0.21
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (28 bp):
ATATAAATAAAATAATATTATTTTTATT
Found at i:17978995 original size:376 final size:376
Alignment explanation
Indices: 17978302--17979056 Score: 1467
Period size: 376 Copynumber: 2.0 Consensus size: 376
17978292 AATGGAAACC
17978302 ATTTAAAATCATACTAGGCAGCTTGGACATAACATATATGCTTAGTATATGAAAAGCAACAAGAC
1 ATTTAAAATCATACTAGGCAGCTTGGACATAACATATATGCTTAGTATATGAAAAGCAACAAGAC
17978367 ATTAACATGACAAAACCAGCACTTGTAAATCACATAATTGATATAAAGTAAAATCTAGAAGACAT
66 ATTAACATGACAAAACCAGCACTTGTAAATCACATAATTGATATAAAGTAAAATCTAGAAGACAT
*
17978432 TGAAATGTTGCAAATGCATCATATCAGTCTTCCTCTTTTGCTGAAATAGAAAAGATATAACCCAG
131 TGAAATGTTGAAAATGCATCATATCAGTCTTCCTCTTTTGCTGAAATAGAAAAGATATAACCCAG
17978497 ATAAGATAAGCATTAACTTATCTATACAAGTAAAATTCAAGAACATGCAAATAACTCAACCCGAC
196 ATAAGATAAGCATTAACTTATCTATACAAGTAAAATTCAAGAACATGCAAATAACTCAACCCGAC
*
17978562 GAGTAAGGCAATATTGACACTGTGTAATCACATAGGATTGCCGAATACATGATCATGTAAAACGA
261 GAGTAAGACAATATTGACACTGTGTAATCACATAGGATTGCCGAATACATGATCATGTAAAACGA
17978627 CTTACCTCTCAAGAGTTTGGTTTTTCCTTAGCTGCATGCGTGAAAAATTCG
326 CTTACCTCTCAAGAGTTTGGTTTTTCCTTAGCTGCATGCGTGAAAAATTCG
17978678 ATTTAAAATCATACTAGGCAGCTTGGACATAACATATATGCTTAGTATATGAAAAGCAACAAGAC
1 ATTTAAAATCATACTAGGCAGCTTGGACATAACATATATGCTTAGTATATGAAAAGCAACAAGAC
17978743 ATTAACATGACAAAACCAGCACTTGTAAATCACATAATTGATATACAAGTAAAATCTAGAAGACA
66 ATTAACATGACAAAACCAGCACTTGTAAATCACATAATTGATATA-AAGTAAAATCTAGAAGACA
17978808 TTGAAATGTTGAAAATGCATCATATCAGTCTTCCTC-TTTGCTGAAATAGAAAAGATATAACCCA
130 TTGAAATGTTGAAAATGCATCATATCAGTCTTCCTCTTTTGCTGAAATAGAAAAGATATAACCCA
17978872 GATAAGATAAGCATTAACTTATCTATACAAGTAAAATTCAAGAACATGCAAATAACTCAACCCGA
195 GATAAGATAAGCATTAACTTATCTATACAAGTAAAATTCAAGAACATGCAAATAACTCAACCCGA
*
17978937 CGAGTAAGACAATATTGACACTGTGTAATCACTTAGGATTGCCGAATACATGATCATGTAAAACG
260 CGAGTAAGACAATATTGACACTGTGTAATCACATAGGATTGCCGAATACATGATCATGTAAAACG
17979002 ACTTACCTCTCAAGAGTTTGGTTTTTCCTTAGCTGCATGCGTGAAAAATTCG
325 ACTTACCTCTCAAGAGTTTGGTTTTTCCTTAGCTGCATGCGTGAAAAATTCG
17979054 ATT
1 ATT
17979057 GCCAAGCAAG
Statistics
Matches: 375, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
376 321 0.86
377 54 0.14
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (376 bp):
ATTTAAAATCATACTAGGCAGCTTGGACATAACATATATGCTTAGTATATGAAAAGCAACAAGAC
ATTAACATGACAAAACCAGCACTTGTAAATCACATAATTGATATAAAGTAAAATCTAGAAGACAT
TGAAATGTTGAAAATGCATCATATCAGTCTTCCTCTTTTGCTGAAATAGAAAAGATATAACCCAG
ATAAGATAAGCATTAACTTATCTATACAAGTAAAATTCAAGAACATGCAAATAACTCAACCCGAC
GAGTAAGACAATATTGACACTGTGTAATCACATAGGATTGCCGAATACATGATCATGTAAAACGA
CTTACCTCTCAAGAGTTTGGTTTTTCCTTAGCTGCATGCGTGAAAAATTCG
Found at i:17980252 original size:24 final size:25
Alignment explanation
Indices: 17980201--17980253 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
17980191 TGGATACAAG
**
17980201 TTTAGTATTGATTTTGGAAAATGCT
1 TTTAGTATTGATTTTAAAAAATGCT
*
17980226 TTTAGTATTG-TTGTTAAAAAATGTT
1 TTTAGTATTGATT-TTAAAAAATGCT
17980251 TTT
1 TTT
17980254 GAAAAATGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.53
Consensus pattern (25 bp):
TTTAGTATTGATTTTAAAAAATGCT
Found at i:17984251 original size:31 final size:32
Alignment explanation
Indices: 17984216--17984283 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
17984206 AAAATTAGAT
* *
17984216 TAAATTGTGATTAAAAT-AAAAT-TTAAATACA
1 TAAATTG-CATTAAAATAAAAATATTAAATAAA
*
17984247 TAAA-TGCATTAAATTAAAAATATTAAATAAA
1 TAAATTGCATTAAAATAAAAATATTAAATAAA
17984278 TAAATT
1 TAAATT
17984284 ATTTACTAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 7 0.23
30 7 0.23
31 16 0.52
32 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (32 bp):
TAAATTGCATTAAAATAAAAATATTAAATAAA
Found at i:17984442 original size:2 final size:2
Alignment explanation
Indices: 17984435--17984459 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17984425 TTAATATTTA
17984435 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17984460 CTCTGTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17999272 original size:19 final size:19
Alignment explanation
Indices: 17999250--17999293 Score: 81
Period size: 18 Copynumber: 2.4 Consensus size: 19
17999240 CGTAAATCTC
17999250 AAAAAATTATTTAAAATAA
1 AAAAAATTATTTAAAATAA
17999269 AAAAAA-TATTTAAAATAA
1 AAAAAATTATTTAAAATAA
17999287 AAAAAAT
1 AAAAAAT
17999294 CGAACAACCG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAAATTATTTAAAATAA
Found at i:18004678 original size:26 final size:26
Alignment explanation
Indices: 18004648--18004705 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
18004638 CATCCTCAAA
*
18004648 CTATAATCTAGATATTAAATTGGTCT
1 CTATAATCAAGATATTAAATTGGTCT
*
18004674 CTATAATCAAGATTTTAAATTGGTCT
1 CTATAATCAAGATATTAAATTGGTCT
18004700 CTATAA
1 CTATAA
18004706 ATTTTGATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (26 bp):
CTATAATCAAGATATTAAATTGGTCT
Found at i:18005204 original size:34 final size:34
Alignment explanation
Indices: 18005151--18005216 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
18005141 CAAACACCAG
*
18005151 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTAC-GAAAAGT
18005186 AAAATATTTTCCAG-AAATCATTTTACGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACGAAAA
18005217 ACATTTTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.35
Consensus pattern (34 bp):
AAAATATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:18011189 original size:13 final size:13
Alignment explanation
Indices: 18011173--18011218 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
18011163 CGTAAAAACA
18011173 AAGATTAAACAAT
1 AAGATTAAACAAT
* *
18011186 AAGATTCATC-AT
1 AAGATTAAACAAT
18011198 -AGATTAAACAAT
1 AAGATTAAACAAT
*
18011210 GAGATTAAA
1 AAGATTAAA
18011219 ATATATTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
11 7 0.26
12 4 0.15
13 16 0.59
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (13 bp):
AAGATTAAACAAT
Found at i:18011793 original size:53 final size:53
Alignment explanation
Indices: 18011724--18011834 Score: 222
Period size: 53 Copynumber: 2.1 Consensus size: 53
18011714 ACTCATGGAT
18011724 TTGCACCTTAATGTTTTTGTCATCAATCACCTCCACCCTATAGTACTTCCCTA
1 TTGCACCTTAATGTTTTTGTCATCAATCACCTCCACCCTATAGTACTTCCCTA
18011777 TTGCACCTTAATGTTTTTGTCATCAATCACCTCCACCCTATAGTACTTCCCTA
1 TTGCACCTTAATGTTTTTGTCATCAATCACCTCCACCCTATAGTACTTCCCTA
18011830 TTGCA
1 TTGCA
18011835 ATTTTCTACT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.23, C:0.32, G:0.08, T:0.38
Consensus pattern (53 bp):
TTGCACCTTAATGTTTTTGTCATCAATCACCTCCACCCTATAGTACTTCCCTA
Found at i:18015397 original size:22 final size:21
Alignment explanation
Indices: 18015362--18015402 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
18015352 ACTTATACTT
18015362 TTAAATTCTACAAATATAAAGA
1 TTAAATTCTACAAA-ATAAAGA
18015384 TTAAATTCCT-CAAAATAAA
1 TTAAATT-CTACAAAATAAA
18015403 AAAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 11 0.61
23 2 0.11
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (21 bp):
TTAAATTCTACAAAATAAAGA
Found at i:18018422 original size:13 final size:13
Alignment explanation
Indices: 18018404--18018428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18018394 TAATTTATAT
18018404 GTGTGAAAATTTC
1 GTGTGAAAATTTC
18018417 GTGTGAAAATTT
1 GTGTGAAAATTT
18018429 TATCGTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:18048983 original size:16 final size:17
Alignment explanation
Indices: 18048937--18048983 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
18048927 TAACATATAT
*
18048937 AATAAGAAGTTATAATAA
1 AATAA-AAGTTAAAATAA
* *
18048955 AATTAATGTTAAAATAA
1 AATAAAAGTTAAAATAA
18048972 AA-AAAAGTTAAA
1 AATAAAAGTTAAA
18048984 TTAATTACAC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 8 0.33
17 12 0.50
18 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (17 bp):
AATAAAAGTTAAAATAA
Found at i:18050651 original size:349 final size:348
Alignment explanation
Indices: 18050012--18050706 Score: 1356
Period size: 349 Copynumber: 2.0 Consensus size: 348
18050002 CTTTTTAATA
18050012 CATTTATTAATTTTATAGACTTTAGTTTTTTTATTTATAATTTATATTCAATTAATAGTTAATAA
1 CATTTATTAATTTTATAGACTTTAGTTTTTTTATTTATAATTTATATTCAATTAATAGTTAATAA
18050077 CTATAATTATTTCGATGAATTTCTAAGCGTATGGAGAATAATAATCGATTATTTAATATATAACT
66 CTATAATTATTTCGATGAATTTCTAAGCGTATGGAGAATAATAATCGATTATTTAATATATAACT
18050142 AAAGAATTCTTGCGACTTATTTTATTTTAATAAATTTCTATAAATCATGGTTTGGGATAATTATT
131 AAAGAATTCTTGCGACTTATTTTA-TTTAATAAATTTCTATAAATCATGGTTTGGGATAATTATT
18050207 CTTTAGGTATGTCTAATAACATCTCGGATTAAAAATAAAACATTTTTATATATTTTAATTTTAAT
195 CTTTAGGTATGTCTAATAACATCTCGGATTAAAAATAAAACATTTTTATATATTTTAATTTTAAT
18050272 ATGTACATTTTATTATTTAAATTCATTGATTAAATATATATAATAATTAATTTGTAGATATGATA
260 ATGTACATTTTATTATTTAAATTCATTGATTAAATATATATAATAATTAATTTGTAGATATGATA
18050337 AATCAACTTTGCTAAATGTTCATG
325 AATCAACTTTGCTAAATGTTCATG
18050361 CATTTATTAATTTTATAGACTTTAGTTTTTTTATTTATAATTTATATTCAATTAATAGTTAATAA
1 CATTTATTAATTTTATAGACTTTAGTTTTTTTATTTATAATTTATATTCAATTAATAGTTAATAA
18050426 CTATAATTATTTCGATGAATTTCTAAGCGTATGGAGAATAATAATCGATTATTTAATATATAACT
66 CTATAATTATTTCGATGAATTTCTAAGCGTATGGAGAATAATAATCGATTATTTAATATATAACT
18050491 AAAGAATTCTTGCGACATTTATTTTA-TTAATAAATTTCTATAAATCATGGTTTGGGATAATTAT
131 AAAGAATTCTTGCGAC--TTATTTTATTTAATAAATTTCTATAAATCATGGTTTGGGATAATTAT
18050555 TCTTTAGGTATGTCTAATAACATCTCGGATTAAAAATAAAACATTTTTATATATTTTAATTTTAA
194 TCTTTAGGTATGTCTAATAACATCTCGGATTAAAAATAAAACATTTTTATATATTTTAATTTTAA
18050620 TATGTACATTTTATTATTTAAATTCATTGATTAAATATATATAATAATTAATTTGTAGATATGAT
259 TATGTACATTTTATTATTTAAATTCATTGATTAAATATATATAATAATTAATTTGTAGATATGAT
18050685 AAATCAACTTTGCTAAATGTTC
324 AAATCAACTTTGCTAAATGTTC
18050707 GTGTAACACT
Statistics
Matches: 344, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
349 336 0.98
351 8 0.02
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.46
Consensus pattern (348 bp):
CATTTATTAATTTTATAGACTTTAGTTTTTTTATTTATAATTTATATTCAATTAATAGTTAATAA
CTATAATTATTTCGATGAATTTCTAAGCGTATGGAGAATAATAATCGATTATTTAATATATAACT
AAAGAATTCTTGCGACTTATTTTATTTAATAAATTTCTATAAATCATGGTTTGGGATAATTATTC
TTTAGGTATGTCTAATAACATCTCGGATTAAAAATAAAACATTTTTATATATTTTAATTTTAATA
TGTACATTTTATTATTTAAATTCATTGATTAAATATATATAATAATTAATTTGTAGATATGATAA
ATCAACTTTGCTAAATGTTCATG
Found at i:18053583 original size:12 final size:12
Alignment explanation
Indices: 18053559--18053659 Score: 56
Period size: 12 Copynumber: 8.7 Consensus size: 12
18053549 TTTTTTACTT
18053559 TTATCATTATTA
1 TTATCATTATTA
18053571 TTAT-ATTATTTA
1 TTATCATTA-TTA
18053583 TTATCACTTATTA
1 TTATCA-TTATTA
18053596 TT-TC-TATATT-
1 TTATCAT-TATTA
*
18053606 TATACGCA-TA-TA
1 T-TA-TCATTATTA
18053618 -TAT-ATTATTA
1 TTATCATTATTA
* *
18053628 TTATTATTATTG
1 TTATCATTATTA
* *
18053640 TTGTTATTATTA
1 TTATCATTATTA
18053652 TTATCATT
1 TTATCATT
18053660 TATATTTTTG
Statistics
Matches: 69, Mismatches: 7, Indels: 26
0.68 0.07 0.25
Matches are distributed among these distances:
8 1 0.01
9 2 0.03
10 6 0.09
11 13 0.19
12 37 0.54
13 7 0.10
14 3 0.04
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (12 bp):
TTATCATTATTA
Found at i:18053605 original size:25 final size:24
Alignment explanation
Indices: 18053559--18053659 Score: 72
Period size: 24 Copynumber: 4.3 Consensus size: 24
18053549 TTTTTTACTT
18053559 TTATCATTATTATTATATTATTTA
1 TTATCATTATTATTATATTATTTA
*
18053583 TTATCACTTATTATT-TCTATATTTA
1 TTATCA-TTATTATTATAT-TATTTA
*
18053608 -TACGCA-TA-TA-TATATTA-TTA
1 TTA-TCATTATTATTATATTATTTA
* * *
18053628 TTATTATTATTGTTGTTATTA-TTA
1 TTATCATTATTATT-ATATTATTTA
18053652 TTATCATT
1 TTATCATT
18053660 TATATTTTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
20 4 0.07
21 7 0.12
22 5 0.08
23 3 0.05
24 25 0.42
25 16 0.27
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (24 bp):
TTATCATTATTATTATATTATTTA
Found at i:18053628 original size:3 final size:3
Alignment explanation
Indices: 18053620--18053655 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
18053610 CGCATATATA
* *
18053620 TAT TAT TAT TAT TAT TAT TGT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18053656 CATTTATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18053665 original size:18 final size:18
Alignment explanation
Indices: 18053625--18053659 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18053615 ATATATATTA
**
18053625 TTATTATTATTATTGTTG
1 TTATTATTATTATCATTG
18053643 TTATTATTATTATCATT
1 TTATTATTATTATCATT
18053660 TATATTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (18 bp):
TTATTATTATTATCATTG
Found at i:18058651 original size:29 final size:29
Alignment explanation
Indices: 18058618--18058684 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
18058608 TTTTTAACCG
*
18058618 TTAACCGAACTGAAATTTTTTCAAAAAAA
1 TTAACCGAACTGAAATTTTTGCAAAAAAA
***
18058647 TTAACCGAACTGAAATTTTTGGTTAAAAA
1 TTAACCGAACTGAAATTTTTGCAAAAAAA
18058676 TTAACCGAA
1 TTAACCGAA
18058685 TTAACCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (29 bp):
TTAACCGAACTGAAATTTTTGCAAAAAAA
Found at i:18058688 original size:9 final size:9
Alignment explanation
Indices: 18058674--18058776 Score: 127
Period size: 9 Copynumber: 11.4 Consensus size: 9
18058664 TTTGGTTAAA
18058674 AATTAACCG
1 AATTAACCG
*
18058683 AATTAACCA
1 AATTAACCG
*
18058692 AATTACCCG
1 AATTAACCG
*
18058701 AATTAACTG
1 AATTAACCG
18058710 AATTATA-CG
1 AATTA-ACCG
18058719 AATTAACCG
1 AATTAACCG
18058728 AATTAACCG
1 AATTAACCG
18058737 AATTAACCG
1 AATTAACCG
* *
18058746 AATTACCCA
1 AATTAACCG
*
18058755 AATTACCCG
1 AATTAACCG
*
18058764 AATTTACCG
1 AATTAACCG
18058773 AATT
1 AATT
18058777 GAATCACTAC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
8 1 0.01
9 79 0.98
10 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:18058895 original size:18 final size:18
Alignment explanation
Indices: 18058872--18058925 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
18058862 AATTTTTATG
18058872 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
*
18058890 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGGTA
*
18058908 CTTGGGTTGGGATTGGGT
1 ATTGGGTTGGG-TTGGGT
18058926 TTAGGTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 27 0.84
19 5 0.16
ACGTcount: A:0.11, C:0.02, G:0.48, T:0.39
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:18059764 original size:20 final size:20
Alignment explanation
Indices: 18059736--18059789 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
18059726 ACTAGGGAGT
* *
18059736 ACCATAGTGCAAACATGGGC
1 ACCAAAGTGCAAACAGGGGC
*
18059756 ACCAAAGTGCAAAAAGGGGC
1 ACCAAAGTGCAAACAGGGGC
*
18059776 ACCAAAGTGAAAAC
1 ACCAAAGTGCAAAC
18059790 TATAAGTATC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (20 bp):
ACCAAAGTGCAAACAGGGGC
Found at i:18064699 original size:19 final size:19
Alignment explanation
Indices: 18064663--18064700 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18064653 AAGAAGGACG
*
18064663 GGAAAAATAAGAGAAAAGA
1 GGAAAAATAAGAAAAAAGA
18064682 GGAAAAA-AAGAAAGAAAGA
1 GGAAAAATAAGAAA-AAAGA
18064701 AAAGATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (19 bp):
GGAAAAATAAGAAAAAAGA
Found at i:18064701 original size:24 final size:24
Alignment explanation
Indices: 18064674--18064723 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
18064664 GAAAAATAAG
*
18064674 AGAAAAGAGGAAAAAAA-GAAAGAA
1 AGAAAAGA-GAAAAAAATGAAAAAA
*
18064698 AGAAAAGATAAAAAAATGAAAAAA
1 AGAAAAGAGAAAAAAATGAAAAAA
18064722 AG
1 AG
18064724 TTACACTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (24 bp):
AGAAAAGAGAAAAAAATGAAAAAA
Found at i:18066243 original size:24 final size:24
Alignment explanation
Indices: 18066213--18066271 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
18066203 TGCATCGATG
**
18066213 TATGAGAGCCCCTTGTGTGGGACA
1 TATGAGAGCCCCTTGTGCAGGACA
* * *
18066237 TTTGAGACCCCCTTGTGCAGGACG
1 TATGAGAGCCCCTTGTGCAGGACA
18066261 TATGAGAGCCC
1 TATGAGAGCCC
18066272 TTAGTGGGAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (24 bp):
TATGAGAGCCCCTTGTGCAGGACA
Found at i:18066390 original size:26 final size:26
Alignment explanation
Indices: 18066321--18066393 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 26
18066311 ATATTCGTGA
18066321 GAAGTTCGTCAAGACTATCTAGTGTGG
1 GAAG-TCGTCAAGACTATCTAGTGTGG
*
18066348 GAAGTCGATCAAAACTATCTAGTGT-G
1 GAAGTCG-TCAAGACTATCTAGTGTGG
*
18066374 GAAGTCCGTCAGGACTATCT
1 GAAGT-CGTCAAGACTATCT
18066394 TGTAAATGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (26 bp):
GAAGTCGTCAAGACTATCTAGTGTGG
Found at i:18066904 original size:28 final size:28
Alignment explanation
Indices: 18066864--18066931 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
18066854 AGGTGTTCCG
* *
18066864 TGTCACGACATCCCTGGCAGTTTACTGT
1 TGTCGCGACATCCCTGGCAGTTTACCGT
18066892 TGTCGCGACATCCCTGGCAGTTTACCGT
1 TGTCGCGACATCCCTGGCAGTTTACCGT
*
18066920 TGTCGTGACATC
1 TGTCGCGACATC
18066932 GAAAGAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.16, C:0.29, G:0.24, T:0.31
Consensus pattern (28 bp):
TGTCGCGACATCCCTGGCAGTTTACCGT
Found at i:18071386 original size:54 final size:54
Alignment explanation
Indices: 18071286--18071392 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
18071276 ATTGAAAACC
* *
18071286 TTGTTCTAGAAAACACCATTATTCAAAAGGAAGCTACTATTAAGGGGGAGACTG
1 TTGTTCTAGAAAACACAATTATTCAAAAGGAAGCTACTATTAAGGGGAAGACTG
* *
18071340 TTGTTCTAGAAAACACAATTGTTCAAAAGGAAGCTACTGA-TCAGGGGAAGACT
1 TTGTTCTAGAAAACACAATTATTCAAAAGGAAGCTACT-ATTAAGGGGAAGACT
18071393 ACTATTTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 47 0.98
55 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (54 bp):
TTGTTCTAGAAAACACAATTATTCAAAAGGAAGCTACTATTAAGGGGAAGACTG
Found at i:18081073 original size:22 final size:23
Alignment explanation
Indices: 18081035--18081081 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
18081025 ATCGCGTTTA
*
18081035 TTCTATTTTCATTTTTATTTTTT
1 TTCTATTTTCATTTTTATTTGTT
*
18081058 TTCTCTTTT-ATTTTTATTTGTT
1 TTCTATTTTCATTTTTATTTGTT
18081080 TT
1 TT
18081082 GTGAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.79
Consensus pattern (23 bp):
TTCTATTTTCATTTTTATTTGTT
Found at i:18083804 original size:19 final size:19
Alignment explanation
Indices: 18083780--18083824 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18083770 AACGTCTCTT
*
18083780 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
18083799 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
18083818 TATGCAT
1 TTTGCAT
18083825 AAAAAGTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:18087327 original size:21 final size:21
Alignment explanation
Indices: 18087303--18087345 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
18087293 AATCTGATAA
18087303 AGAAGAGTCTAAATTAAGACT
1 AGAAGAGTCTAAATTAAGACT
18087324 AGAAGAGTCTAAATTAAGACT
1 AGAAGAGTCTAAATTAAGACT
18087345 A
1 A
18087346 TCCCTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (21 bp):
AGAAGAGTCTAAATTAAGACT
Found at i:18088963 original size:89 final size:89
Alignment explanation
Indices: 18087989--18088936 Score: 1439
Period size: 89 Copynumber: 10.7 Consensus size: 89
18087979 GAAAGATAAT
* * * * *
18087989 AGATCTTGTTTTCATGTACTGGCGTGAAGTAGATTAGAGATACCAGATCTTGCCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
* * **
18088054 GTGGCGAAGCAGATCAAAGAAAGT
66 GTGGCGAAGTAGATCGAAGAAAAC
* * * * * * *
18088078 AGATATTGTCTTCATATACTGGCGTGGAGTAGATCAAAGATAACAGATCTTGCCTTCTCAGACTA
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
* * *
18088143 GTGGTGAAGCAGATC-AAAAAAAGC
66 GTGGCGAAGTAGATCGAAGAAAA-C
* * *
18088167 AGATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGATAATAGATCTTGTCTTTCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
** * *
18088232 GTGGCGAAACAGATTGAAGAAAGC
66 GTGGCGAAGTAGATCGAAGAAAAC
* * *
18088256 AGATATTGCCTTCATGTACTGGTGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
**
18088321 GTGGCGAAACAGATCGAAGAAAAC
66 GTGGCGAAGTAGATCGAAGAAAAC
* *
18088345 AGATCTTGTATTCATGTACTGGCGTAAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
18088410 GTGGCGAAGTAGATCGAAGAAAAC
66 GTGGCGAAGTAGATCGAAGAAAAC
* *
18088434 AGATCTTGTCTTCATGTACTGGAGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
18088499 GTGGCGAAGTAGATCGAAGAAAAC
66 GTGGCGAAGTAGATCGAAGAAAAC
* *
18088523 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATATTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
18088588 GTGGCGAAGTAGATCGAAGAAAAC
66 GTGGCGAAGTAGATCGAAGAAAAC
* * * *
18088612 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAACATATATTGTTTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
*
18088677 GTGGCGAAGTAGATCAAAGAAAAC
66 GTGGCGAAGTAGATCGAAGAAAAC
* *
18088701 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCCTATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
18088766 GTGGCGAAGTAGATCGAAGAAAAC
66 GTGGCGAAGTAGATCGAAGAAAAC
*
18088790 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
*
18088855 GTGGCGAAGTAGATCGAAGAAAAT
66 GTGGCGAAGTAGATCGAAGAAAAC
* * *
18088879 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATTAAAGATAGCAGATCTTGCCTTCC
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCC
18088937 TATATAGACA
Statistics
Matches: 788, Mismatches: 69, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
88 5 0.01
89 778 0.99
90 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (89 bp):
AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
GTGGCGAAGTAGATCGAAGAAAAC
Found at i:18089075 original size:44 final size:44
Alignment explanation
Indices: 18089018--18089114 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
18089008 CCAGTAATTC
* * *
18089018 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTATAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATCGAAGATGACAGATCT
* * *
18089062 TATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGACAGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATCGAAGATGACAGATCT
*
18089106 TACCTCCCT
1 TATCTCCCT
18089115 GAGGTTACAG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAATAGATCGAAGATGACAGATCT
Found at i:18090383 original size:21 final size:21
Alignment explanation
Indices: 18090359--18090399 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18090349 TGCATTTTTT
18090359 TTTAAAATTATTACTATATTA
1 TTTAAAATTATTACTATATTA
** *
18090380 TTTATTATTATTCCTATATT
1 TTTAAAATTATTACTATATT
18090400 TATACACGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTAAAATTATTACTATATTA
Found at i:18102474 original size:35 final size:35
Alignment explanation
Indices: 18102408--18102474 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
18102398 CAAACACCAG
*
18102408 AAAATATTTTCCAGTAAATCATTTTACAAAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAAAAAAGT
* *
18102443 AAAACATTTTTCAG-AAATCATTTTACGAAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAAAAAA
18102475 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAAAAAAGT
Found at i:18102750 original size:21 final size:20
Alignment explanation
Indices: 18102700--18102750 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
18102690 ATTCAAAAAC
*
18102700 TAAATAAAATTATAAAAATTA
1 TAAAT-AAATTACAAAAATTA
*
18102721 -ATAACAAATTACAGAAAATTA
1 TA-AATAAATTACA-AAAATTA
18102742 TAAATAAAT
1 TAAATAAAT
18102751 ACCATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
20 8 0.33
21 15 0.62
22 1 0.04
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (20 bp):
TAAATAAATTACAAAAATTA
Found at i:18104256 original size:18 final size:18
Alignment explanation
Indices: 18104229--18104264 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18104219 AATTATTCCC
18104229 TTTTTCTTGAAATTTTTA
1 TTTTTCTTGAAATTTTTA
* *
18104247 TTTTTTTTGAGATTTTTA
1 TTTTTCTTGAAATTTTTA
18104265 CAAGTAGGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.08, T:0.69
Consensus pattern (18 bp):
TTTTTCTTGAAATTTTTA
Found at i:18105097 original size:42 final size:42
Alignment explanation
Indices: 18105024--18105175 Score: 121
Period size: 42 Copynumber: 3.6 Consensus size: 42
18105014 TCGTGTTTAC
*
18105024 TTTCCGTTTAGCTCTCACGAGCTTCTATTTAACTCA-TATGAG
1 TTTCCGTTCAGCTCTCACGAGCTTCTATTTAAC-CATTATGAG
* * * *
18105066 TTTCCGTTCAGCTCT-ATTGAGTTTCTGTTTAACCATTATGGG
1 TTTCCGTTCAGCTCTCA-CGAGCTTCTATTTAACCATTATGAG
* * * * * * *
18105108 TTTCCATTAAGCTTTTATGAGCTTCTATTCAACCCTTA-GAGG
1 TTTCCGTTCAGCTCTCACGAGCTTCTATTTAACCATTATGA-G
* * *
18105150 TTTCTGTTTAGCTCTCATGAGCTTCT
1 TTTCCGTTCAGCTCTCACGAGCTTCT
18105176 GTTCAGCCTT
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 4 0.05
42 83 0.94
43 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTCACGAGCTTCTATTTAACCATTATGAG
Found at i:18109138 original size:16 final size:14
Alignment explanation
Indices: 18109107--18109146 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
18109097 AAACATATTA
18109107 AATTAATTTTAATT
1 AATTAATTTTAATT
18109121 AATTAATTTCTCAATT
1 AATTAATTT-T-AATT
*
18109137 AAATAATTTT
1 AATTAATTTT
18109147 TTAAACCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 12 0.52
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTAATTTTAATT
Found at i:18113915 original size:18 final size:17
Alignment explanation
Indices: 18113889--18113927 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
18113879 TATTTCCAGA
*
18113889 AACATATATCATATCAG
1 AACATATATCAGATCAG
*
18113906 AACATCATATCAGATTAG
1 AACAT-ATATCAGATCAG
18113924 AACA
1 AACA
18113928 AATCCTACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.26
Consensus pattern (17 bp):
AACATATATCAGATCAG
Found at i:18115843 original size:16 final size:16
Alignment explanation
Indices: 18115822--18115854 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18115812 CATTTTACCA
18115822 ATAAAAGCCCATTTCC
1 ATAAAAGCCCATTTCC
18115838 ATAAAAGCCCATTTCC
1 ATAAAAGCCCATTTCC
18115854 A
1 A
18115855 ACTTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.30, G:0.06, T:0.24
Consensus pattern (16 bp):
ATAAAAGCCCATTTCC
Found at i:18116403 original size:9 final size:10
Alignment explanation
Indices: 18116379--18116404 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18116369 GTTAATTTCA
18116379 ATTTTTGAAT
1 ATTTTTGAAT
18116389 ATTTTTGAAT
1 ATTTTTGAAT
18116399 ATTTTT
1 ATTTTT
18116405 TTCATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (10 bp):
ATTTTTGAAT
Found at i:18119534 original size:88 final size:87
Alignment explanation
Indices: 18119470--18119665 Score: 340
Period size: 88 Copynumber: 2.2 Consensus size: 87
18119460 AACTACTTTA
18119470 AAATGAA-TAAAAAAATTAATATTTGTTAACTGTGAGATGAGACAATTAATTAATTTTATAAATT
1 AAATGAATTAAAAAAATTAATATTTGTTAACTGTGAGATGAGACAATTAATTAATTTTATAAATT
18119534 TTAAAAAATTCAAAAAATATAT
66 TTAAAAAATTCAAAAAATATAT
*
18119556 AAATTAATTTAAAAAAATTAATATTTGTTAACTGTGAGATGAGACAATTAATTAATTTTATAAAT
1 AAATGAA-TTAAAAAAATTAATATTTGTTAACTGTGAGATGAGACAATTAATTAATTTTATAAAT
18119621 TTTAAAAAATTCAAAAAATATAT
65 TTTAAAAAATTCAAAAAATATAT
*
18119644 AAATTAATTTAAAAAAAATTAA
1 AAATGAA-TT-AAAAAAATTAA
18119666 AAGTGTAAAA
Statistics
Matches: 106, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
86 6 0.06
88 89 0.84
89 11 0.10
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.37
Consensus pattern (87 bp):
AAATGAATTAAAAAAATTAATATTTGTTAACTGTGAGATGAGACAATTAATTAATTTTATAAATT
TTAAAAAATTCAAAAAATATAT
Found at i:18123175 original size:9 final size:9
Alignment explanation
Indices: 18123161--18123215 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
18123151 TCATCAATTG
18123161 TTTTATAAT
1 TTTTATAAT
*
18123170 TTTTATAAAG
1 TTTTAT-AAT
*
18123180 TTTTACAAT
1 TTTTATAAT
*
18123189 TTTTTTATAT
1 TTTTATA-AT
*
18123199 TTTTATGAT
1 TTTTATAAT
18123208 TTTTATAA
1 TTTTATAA
18123216 AAAATAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 22 0.61
10 14 0.39
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:18123184 original size:19 final size:18
Alignment explanation
Indices: 18123161--18123286 Score: 80
Period size: 19 Copynumber: 6.8 Consensus size: 18
18123151 TCATCAATTG
18123161 TTTTATAATTTTTATAAA
1 TTTTATAATTTTTATAAA
* * *
18123179 GTTTTACAATTTTTTTATAT
1 -TTTTATAATTTTTATA-AA
*
18123199 TTTTATGATTTTTATAAA
1 TTTTATAATTTTTATAAA
**
18123217 --AAATAATTTTTCATAAA
1 TTTTATAATTTTT-ATAAA
18123234 TTTTA-AATTTTTATTAAAA
1 TTTTATAATTTTTA-T-AAA
*
18123253 TTTAATAA-TTTTATTAAA
1 TTTTATAATTTTTA-TAAA
* *
18123271 ATTTATTATTTATTAT
1 TTTTATAATTT-TTAT
18123287 GGTTTTTAAT
Statistics
Matches: 82, Mismatches: 16, Indels: 18
0.71 0.14 0.16
Matches are distributed among these distances:
16 8 0.10
17 6 0.07
18 17 0.21
19 45 0.55
20 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTATAATTTTTATAAA
Found at i:18124310 original size:14 final size:13
Alignment explanation
Indices: 18124288--18124317 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
18124278 ATTTTTTTTC
18124288 ATTCATTATATCT
1 ATTCATTATATCT
18124301 ATTCACTTATATCT
1 ATTCA-TTATATCT
18124315 ATT
1 ATT
18124318 AATTTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTCATTATATCT
Found at i:18124744 original size:7 final size:7
Alignment explanation
Indices: 18124734--18124766 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
18124724 ACTACATACG
18124734 ATATTAT
1 ATATTAT
*
18124741 ATATAAT
1 ATATTAT
18124748 ATATTAT
1 ATATTAT
18124755 ATATTAT
1 ATATTAT
18124762 ATATT
1 ATATT
18124767 TTGACCAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATATTAT
Found at i:18128501 original size:2 final size:2
Alignment explanation
Indices: 18128494--18128521 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18128484 TCTCAATCCA
18128494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18128522 TTCAATACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18129490 original size:36 final size:37
Alignment explanation
Indices: 18129422--18129492 Score: 92
Period size: 36 Copynumber: 1.9 Consensus size: 37
18129412 TTTTCATAAT
* * *
18129422 TTCACTTTTTCACTTTTAATCACTATTGAATTCAAAA
1 TTCACTTTTTCACATTTAATCAATATTCAATTCAAAA
18129459 TTCAC-TTTTC-CATTTAAGTCAATATTCAATTCAA
1 TTCACTTTTTCACATTTAA-TCAATATTCAATTCAA
18129493 TTCCACACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 6 0.20
36 19 0.63
37 5 0.17
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.45
Consensus pattern (37 bp):
TTCACTTTTTCACATTTAATCAATATTCAATTCAAAA
Found at i:18129523 original size:23 final size:22
Alignment explanation
Indices: 18129480--18129523 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
18129470 ATTTAAGTCA
18129480 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
18129503 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
18129524 TTAATCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:18129697 original size:23 final size:23
Alignment explanation
Indices: 18129622--18129696 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
18129612 ATAAGTGCCA
*
18129622 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGTTAC
18129645 CACTGAAATGTAGCCGAAGTTAC
1 CACTGAAATGTAGCCGAAGTTAC
* *
18129668 CGCTGATATGTAGCCGAAGTTAC
1 CACTGAAATGTAGCCGAAGTTAC
18129691 CACTGA
1 CACTGA
18129697 TCAATAACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGTTAC
Found at i:18135595 original size:19 final size:17
Alignment explanation
Indices: 18135571--18135609 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
18135561 GTTTCCATCA
18135571 TTTTTCCTCTGTTTTCTAT
1 TTTTTCCTCT-TTTTC-AT
*
18135590 TTTTTCTTCTTTTTCAT
1 TTTTTCCTCTTTTTCAT
18135607 TTT
1 TTT
18135610 CTTCTATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTCCTCTTTTTCAT
Found at i:18135603 original size:18 final size:18
Alignment explanation
Indices: 18135571--18135614 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
18135561 GTTTCCATCA
*
18135571 TTTTTCCTCTGTTTTCTAT
1 TTTTTCTTCTGTTTTC-AT
18135590 TTTTTCTTCT-TTTTCAT
1 TTTTTCTTCTGTTTTCAT
18135607 TTTCTTCT
1 TTT-TTCT
18135615 ATTCTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 9 0.39
19 9 0.39
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTCTTCTGTTTTCAT
Found at i:18139594 original size:29 final size:29
Alignment explanation
Indices: 18139560--18139615 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
18139550 TTAGACACGG
18139560 GCTGGGACACGACCGTGTGAA-ACACACAA
1 GCTGGGACACGACCGTGT-AAGACACACAA
* *
18139589 GCTGGGACATGGCCGTGTAAGACACAC
1 GCTGGGACACGACCGTGTAAGACACAC
18139616 GGGCGTGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.30, C:0.27, G:0.30, T:0.12
Consensus pattern (29 bp):
GCTGGGACACGACCGTGTAAGACACACAA
Found at i:18140106 original size:26 final size:26
Alignment explanation
Indices: 18140070--18140314 Score: 202
Period size: 26 Copynumber: 9.4 Consensus size: 26
18140060 AATAAAGTAA
* *
18140070 TTATCTAGCAGGCTTTGAGTCGGTGT
1 TTATTTAGCAGGCTTTGAGCCGGTGT
* * **
18140096 TTATTTAGCAGGCCTAGAGCCGGTAA
1 TTATTTAGCAGGCTTTGAGCCGGTGT
* *
18140122 TTATTTAGCAGGCTTTGAGTCGGTTT
1 TTATTTAGCAGGCTTTGAGCCGGTGT
* * * *
18140148 TTATGTAGTAGGCTTTTAGCCGGTGA
1 TTATTTAGCAGGCTTTGAGCCGGTGT
* * * * * *
18140174 TTATTTAGTAAGCCTTAAGCCAGTGA
1 TTATTTAGCAGGCTTTGAGCCGGTGT
* * * *
18140200 TTATTTAACAGACTTTGAGCCGATGG
1 TTATTTAGCAGGCTTTGAGCCGGTGT
*
18140226 TCATTTAGCAGGCTTTGAGCCGGTGT
1 TTATTTAGCAGGCTTTGAGCCGGTGT
* * * * *
18140252 TTATTGAGTAGGCTTTAAGCTGGTGG
1 TTATTTAGCAGGCTTTGAGCCGGTGT
* * *
18140278 TTATTTATCAGGCTTTAAGCCGGTAAT
1 TTATTTAGCAGGCTTTGAGCCGGT-GT
18140305 TTATTTAGCA
1 TTATTTAGCA
18140315 AGTACCATGT
Statistics
Matches: 169, Mismatches: 49, Indels: 1
0.77 0.22 0.00
Matches are distributed among these distances:
26 160 0.95
27 9 0.05
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (26 bp):
TTATTTAGCAGGCTTTGAGCCGGTGT
Found at i:18140270 original size:78 final size:77
Alignment explanation
Indices: 18140075--18140299 Score: 225
Period size: 78 Copynumber: 2.9 Consensus size: 77
18140065 AGTAATTATC
* * * * *
18140075 TAGCAGGCTTTGAGTCGGTGTTTATTTAGCAGGCCTAGAGCCGGTAATTATTTAGCAGGCTTTGA
1 TAGCAGGCTTTGAGCCGGTGTTTATTTAGTAGGCTTA-AGCCGGTGATTATTTAACAGGCTTTGA
* * ** *
18140140 GTCGGTTTTTATG
65 GCCGATGGTCATG
* * * * * *
18140153 TAGTAGGCTTTTAGCCGGTGATTATTTAGTAAGCCTTAAGCCAGTGATTATTTAACAGACTTTGA
1 TAGCAGGCTTTGAGCCGGTGTTTATTTAGT-AGGCTTAAGCCGGTGATTATTTAACAGGCTTTGA
*
18140218 GCCGATGGTCATT
65 GCCGATGGTCATG
* * * * *
18140231 TAGCAGGCTTTGAGCCGGTGTTTATTGAGTAGGCTTTAAGCTGGTGGTTATTTATCAGGCTTTAA
1 TAGCAGGCTTTGAGCCGGTGTTTATTTAGTAGGC-TTAAGCCGGTGATTATTTAACAGGCTTTGA
18140296 GCCG
65 GCCG
18140300 GTAATTTATT
Statistics
Matches: 117, Mismatches: 28, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
77 3 0.03
78 109 0.93
79 5 0.04
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (77 bp):
TAGCAGGCTTTGAGCCGGTGTTTATTTAGTAGGCTTAAGCCGGTGATTATTTAACAGGCTTTGAG
CCGATGGTCATG
Found at i:18141411 original size:22 final size:22
Alignment explanation
Indices: 18141386--18141456 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
18141376 ACGGTTTCAA
* *
18141386 CACACGGGTGTGTGGGGGTAGC
1 CACACAGGCGTGTGGGGGTAGC
* *
18141408 CACATAGGCGTGTGGGTGTAGC
1 CACACAGGCGTGTGGGGGTAGC
*
18141430 CACACAGGCGTGT-GGGGTAGT
1 CACACAGGCGTGTGGGGGTAGC
18141451 CACACA
1 CACACA
18141457 CGGGCTAACC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 12 0.29
22 30 0.71
ACGTcount: A:0.20, C:0.21, G:0.41, T:0.18
Consensus pattern (22 bp):
CACACAGGCGTGTGGGGGTAGC
Found at i:18149863 original size:2 final size:2
Alignment explanation
Indices: 18149856--18149897 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
18149846 ACTACAAGTA
18149856 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18149898 TTTTTTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18150037 original size:2 final size:2
Alignment explanation
Indices: 18150030--18150067 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
18150020 TATACAATAG
18150030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18150068 TATTTTCTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18150272 original size:18 final size:17
Alignment explanation
Indices: 18150236--18150283 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
18150226 GTCTTTCAAA
* *
18150236 ATTTATATAATTTTTAT
1 ATTTAGATAATTTTCAT
18150253 ATTTAGATAACTTTTCAT
1 ATTTAGATAA-TTTTCAT
18150271 ATATTA-ATAATTT
1 AT-TTAGATAATTT
18150284 ATATTATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 12 0.44
18 12 0.44
19 3 0.11
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTAGATAATTTTCAT
Found at i:18156877 original size:6 final size:7
Alignment explanation
Indices: 18156860--18156884 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18156850 TTAAAAACCC
18156860 TTTTTAA
1 TTTTTAA
18156867 TTTTTAA
1 TTTTTAA
18156874 TTTTTAA
1 TTTTTAA
18156881 TTTT
1 TTTT
18156885 GCATTATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:18158297 original size:159 final size:158
Alignment explanation
Indices: 18158008--18158318 Score: 444
Period size: 159 Copynumber: 2.0 Consensus size: 158
18157998 AAATATTAAA
*
18158008 ATATTATATCAACAGATATAGATCGATACATATCAATATAAATCGATATTGATCAAAACATATCA
1 ATATTATATCAACAGATAAAGATCGATACATATCAATATAAATCGATATTGATCAAAACATATCA
* * ** *
18158073 ATAAATACATATCTCGAGATACAAAAGTAATTTTTGTTTGCCACATTTTCACAGCTTTTTTTTTT
66 ATAAATACATATATCAAGATACAAAAGTAATTTTTGTTCCCCACATTTTCACAGC-ATTTTTTTT
18158138 TTATTTTGAAAGATGTTTCGCATCATTTT
130 TTATTTTGAAAGATGTTTCGCATCATTTT
* ** * * *
18158167 ATATTGTATCAATGGATAAAGATCGATACTTATCTATATAACTCGATATTGATCAAAACATATCA
1 ATATTATATCAACAGATAAAGATCGATACATATCAATATAAATCGATATTGATCAAAACATATCA
* * * * *
18158232 ATAAATACATATATCAAGATACGAGAA-TGATTTTTGTTCCCCGCATTTTCCCATCATTTTTTTT
66 ATAAATACATATATCAAGATAC-AAAAGTAATTTTTGTTCCCCACATTTTCACAGCATTTTTTTT
18158296 TTATTTTGAAAGATGTTTCGCAT
130 TTATTTTGAAAGATGTTTCGCAT
18158319 ACAATAAGCT
Statistics
Matches: 134, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
158 31 0.23
159 100 0.75
160 3 0.02
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (158 bp):
ATATTATATCAACAGATAAAGATCGATACATATCAATATAAATCGATATTGATCAAAACATATCA
ATAAATACATATATCAAGATACAAAAGTAATTTTTGTTCCCCACATTTTCACAGCATTTTTTTTT
TATTTTGAAAGATGTTTCGCATCATTTT
Found at i:18159375 original size:310 final size:308
Alignment explanation
Indices: 18158701--18159522 Score: 1132
Period size: 310 Copynumber: 2.7 Consensus size: 308
18158691 AAATATTAAA
* ** *
18158701 ATATTGTATCAACGGATACATATCGATACATACATATATAAATCGATATTGATAAAAACATATCA
1 ATATTGTATCAACGGATACAGATCGATACATACCGATATAAATCGATATTGATAAAAACATATAA
* **
18158766 ATAAATATATATCTCGAGATACGAGAATGATTTTTGTTCCCCGCATTTTCTCACCA--TTTTTTT
66 ATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCCGCATTTTCTCTTCATTTTTTTTT
*
18158829 TATTTTGAAAGATATTTCGCATCATTTTATATTGTATCAATGGATACAGATCGATACATACCGAT
131 TATTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAATGGATACAGATCGATACATACCGAT
* *
18158894 AT---T-G--ATCAAAACATACTAATAAATATATATCTTGAGATACGAGAATGATTTTTGTTCCC
196 ATAAATCGATATCAAAACATACTAATAAATACATATCTTGAGATACGAGAATGAGTTTTGTTCCC
* * *
18158953 TGCATTTTCTCATGATTTTTTTTTAATTTTGAAAGATGTTTCGCATCATTTT
261 CGCATTTTCTCATCA---TTTTTT-ATTTTGAAAGATGTTTCGCATCATTTC
** *
18159005 ATATTGTATCAACGGATACAGATAAATACATACCGATATAAATCGATATTGATCAAAACATATAA
1 ATATTGTATCAACGGATACAGATCGATACATACCGATATAAATCGATATTGATAAAAACATATAA
*
18159070 ATAAATACATATCTCGAGATATGAGAATGATTTTTGTTCCCCGCATTTTCTCTTCATTTTTTTTT
66 ATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCCGCATTTTCTCTTCATTTTTTTTT
*
18159135 TATTTTGAAAGATGTTTCGCATGATTTTATATTGTATCAATGGATACAGATC-AGTACATACCGA
131 TATTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAATGGATACAGATCGA-TACATACCGA
*
18159199 TATAAATCGATATTGATAAACACATA-TCAATAAATACATATCTTGAGATACGAGAATGAGTTTT
195 TATAAATCGATA-T--CAAA-ACATACT-AATAAATACATATCTTGAGATACGAGAATGAGTTTT
*
18159263 GTTCCCCGCATTTTCTCATCA-TTTTT-TTTTGAAAGATGTTTCGCATGATTTC
255 GTTCCCCGCATTTTCTCATCATTTTTTATTTTGAAAGATGTTTCGCATCATTTC
* *
18159315 ATATTGTATCAACGGATACAGATCGATACATACCGATATAAATTGATATTGATAAAAACATATTA
1 ATATTGTATCAACGGATACAGATCGATACATACCGATATAAATCGATATTGATAAAAACATATAA
** * *
18159380 ATAAATACATATCTTAAGATACGAGAATAATTTTTGTTCCCTGCATTTT-TCTTATCAATTTTTT
66 ATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCCGCATTTTCTC-T-TC-ATTTTTT
* * * *
18159444 TTTTATTTTAAAAGATGTTCCGCATCATTTTATATTATATCAA-GAGATACAGATCGATGCATAC
128 TTTTATTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAATG-GATACAGATCGATACATAC
* *
18159508 CAATATAAAACGATA
192 CGATATAAATCGATA
18159523 AATACATATA
Statistics
Matches: 462, Mismatches: 37, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
304 110 0.24
305 1 0.00
306 70 0.15
309 3 0.01
310 130 0.28
311 3 0.01
312 81 0.18
313 2 0.00
315 4 0.01
316 58 0.13
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (308 bp):
ATATTGTATCAACGGATACAGATCGATACATACCGATATAAATCGATATTGATAAAAACATATAA
ATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCCGCATTTTCTCTTCATTTTTTTTT
TATTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAATGGATACAGATCGATACATACCGAT
ATAAATCGATATCAAAACATACTAATAAATACATATCTTGAGATACGAGAATGAGTTTTGTTCCC
CGCATTTTCTCATCATTTTTTATTTTGAAAGATGTTTCGCATCATTTC
Done.