Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 73 of 173
Found at i:22383210 original size:37 final size:37
Alignment explanation
Indices: 22383143--22383213 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
22383133 TTACTATTTA
*
22383143 ATTATTTATTATTATATTATACTTGTTTATTATTATT
1 ATTATTTATTATTATATAATACTTGTTTATTATTATT
*
22383180 ATTATTTATTATTAT-TAATA-TTG-TAATTATTATT
1 ATTATTTATTATTATATAATACTTGTTTATTATTATT
22383214 TTCGTGTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 10 0.31
35 3 0.09
36 4 0.12
37 15 0.47
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (37 bp):
ATTATTTATTATTATATAATACTTGTTTATTATTATT
Found at i:22386277 original size:6 final size:6
Alignment explanation
Indices: 22386266--22386298 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
22386256 TGTCAAGGAT
*
22386266 AGGGGA AGGGGA AGGGGA AGGGGA AGGGAA AGG
1 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGG
22386299 AAAATTTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:22386963 original size:28 final size:25
Alignment explanation
Indices: 22386909--22386979 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 25
22386899 AAATCATAGT
22386909 TTACTTATGATAATTTA--TTTAAAA
1 TTACTTA-GATAATTTATTTTTAAAA
22386933 TTACTTAGATAATTTATTGTTTAGATAA
1 TTACTTAGATAATTTATT-TTTA-A-AA
*
22386961 TTATTTAGATAAATTTATT
1 TTACTTAGAT-AATTTATT
22386980 AAGAATATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 9 0.22
24 7 0.17
26 4 0.10
27 1 0.03
28 11 0.28
29 8 0.20
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (25 bp):
TTACTTAGATAATTTATTTTTAAAA
Found at i:22386969 original size:12 final size:13
Alignment explanation
Indices: 22386917--22386979 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 13
22386907 GTTTACTTAT
22386917 GATAATTTATTTA
1 GATAATTTATTTA
*
22386930 -A-AA-TTACTTA
1 GATAATTTATTTA
22386940 GATAATTTATTGTTTA
1 GATAATTTA---TTTA
22386956 GATAA-TTATTTA
1 GATAATTTATTTA
22386968 GATAAATTTATT
1 GAT-AATTTATT
22386980 AAGAATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
10 6 0.15
11 3 0.08
12 10 0.25
13 5 0.12
14 5 0.12
15 3 0.08
16 8 0.20
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (13 bp):
GATAATTTATTTA
Found at i:22387571 original size:16 final size:16
Alignment explanation
Indices: 22387544--22387583 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
22387534 ATTTGAAAAT
22387544 AATATA-TTTATTACA
1 AATATATTTTATTACA
*
22387559 AATATATTTTATTTCA
1 AATATATTTTATTACA
*
22387575 ATTATATTT
1 AATATATTT
22387584 GCTTTGTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (16 bp):
AATATATTTTATTACA
Found at i:22388091 original size:34 final size:35
Alignment explanation
Indices: 22388047--22388113 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
22388037 CTGTAAAATG
22388047 TTTTCCGTAAAATGAATT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
* *
22388081 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTT
22388114 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
Found at i:22389488 original size:27 final size:27
Alignment explanation
Indices: 22389458--22389527 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
22389448 AATAATCAAT
*
22389458 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
22389485 TCAATATCTAACCAATTCAAGACATATA
1 TCAATATCCAA-CAATTCAAAACATATA
*
22389513 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
22389528 CTAAAATCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:22393798 original size:6 final size:6
Alignment explanation
Indices: 22393787--22393817 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
22393777 AATATTTCCC
*
22393787 ACAGAA ACAGAA ACAGAA ACAAAA ACAGAA A
1 ACAGAA ACAGAA ACAGAA ACAGAA ACAGAA A
22393818 ATACAAACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.71, C:0.16, G:0.13, T:0.00
Consensus pattern (6 bp):
ACAGAA
Found at i:22403069 original size:106 final size:106
Alignment explanation
Indices: 22402897--22403105 Score: 325
Period size: 106 Copynumber: 2.0 Consensus size: 106
22402887 CATAGCATTG
* * *
22402897 AAGAAGACCATATCGTGTAAGATAGTAACTGATGGGTTATGACATCATATGTGAAGAAGTCTATA
1 AAGAAGACCATATCGTGTAAGATAGTAACTGATAGGTTATGACATCATATGTGAAGAAGACCATA
**
22402962 TCATGTAAGACTATAACTGGTGGGTTATGGCATCATATATA
66 TCATGTAAGACTATAACTGGTGGGTTATGAAATCATATATA
22403003 AAGAAGACCATATCGTGTAAGACT-GTAACT-AGTAGGTTATGACATCATATG-GAAAGAAGACC
1 AAGAAGACCATATCGTGTAAGA-TAGTAACTGA-TAGGTTATGACATCATATGTG-AAGAAGACC
22403065 ATATCATGTAAGACTATAACTGGTGGGTTATGAAATCATAT
63 ATATCATGTAAGACTATAACTGGTGGGTTATGAAATCATAT
22403106 GGGGAAGTTT
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
105 2 0.02
106 92 0.97
107 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (106 bp):
AAGAAGACCATATCGTGTAAGATAGTAACTGATAGGTTATGACATCATATGTGAAGAAGACCATA
TCATGTAAGACTATAACTGGTGGGTTATGAAATCATATATA
Found at i:22403107 original size:53 final size:53
Alignment explanation
Indices: 22402897--22403107 Score: 282
Period size: 53 Copynumber: 4.0 Consensus size: 53
22402887 CATAGCATTG
* *
22402897 AAGAAGACCATATCGTGTAAGA-TAGTAACTGATGGGTTATGACATCATATGTG-
1 AAGAAGACCATATCATGTAAGACTA-TAACTGGTGGGTTATGACATCATATG-GA
* * * **
22402950 AAGAAGTCTATATCATGTAAGACTATAACTGGTGGGTTATGGCATCATATATA
1 AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGGA
* * * *
22403003 AAGAAGACCATATCGTGTAAGACTGTAACTAGTAGGTTATGACATCATATGGA
1 AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGGA
*
22403056 AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGAAATCATATGG
1 AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGG
22403108 GGAAGTTTAA
Statistics
Matches: 135, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 133 0.99
54 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (53 bp):
AAGAAGACCATATCATGTAAGACTATAACTGGTGGGTTATGACATCATATGGA
Found at i:22404410 original size:20 final size:20
Alignment explanation
Indices: 22404385--22404424 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22404375 AACCTAATAA
*
22404385 AAGGTATTGATACTTTTTGT
1 AAGGTACTGATACTTTTTGT
*
22404405 AAGGTACTGATATTTTTTGT
1 AAGGTACTGATACTTTTTGT
22404425 GAAAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (20 bp):
AAGGTACTGATACTTTTTGT
Found at i:22406531 original size:3 final size:3
Alignment explanation
Indices: 22406523--22406577 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
22406513 TGGCCCAAAC
* * * *
22406523 TAT TAT TAT TAT TAT CAT TAC TAC TAT TAT TAAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
22406569 TAT TAT TAT
1 TAT TAT TAT
22406578 CTTTTTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 43 0.96
4 2 0.04
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:22406942 original size:23 final size:24
Alignment explanation
Indices: 22406889--22406942 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
22406879 CTTGATCTTG
* *
22406889 GAAAAATTTTAGTTTTTTTAAAAG
1 GAAAAATTTTAGTATTTTTAAAAA
*
22406913 GAGAAATTTTAG-ATTTTTAAAAA
1 GAAAAATTTTAGTATTTTTAAAAA
*
22406936 TAAAAAT
1 GAAAAAT
22406943 ATGATTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTAGTATTTTTAAAAA
Found at i:22407253 original size:50 final size:49
Alignment explanation
Indices: 22407103--22407255 Score: 129
Period size: 50 Copynumber: 3.1 Consensus size: 49
22407093 AAAATATGTT
* *
22407103 TTTTTTAGTCATTCTAAAGGAAAGTTTAAAATTTTAAAACAATG-TAGTGA
1 TTTTTTAGTCATTTTAAAGGAAAGTTT-AAATTTTAAAACAAAGTTA-TGA
* * * * **
22407153 TTTTTTA---A-ATAAAAGGGAAAGTTTAGACTTTTAAAAATAAAAATAT-A
1 TTTTTTAGTCATTTTAAA-GGAAAGTTTA-AATTTT-AAAACAAAGTTATGA
*
22407200 TTTTTTAGTCATTTTAAAGGAAAGTTTAAATGTTTAAAACAAAGTTTTGA
1 TTTTTTAGTCATTTTAAAGGAAAGTTTAAAT-TTTAAAACAAAGTTATGA
22407250 TTTTTT
1 TTTTTT
22407256 TAAAATATTT
Statistics
Matches: 79, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
46 4 0.05
47 23 0.29
48 7 0.09
49 13 0.16
50 28 0.35
51 4 0.05
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.42
Consensus pattern (49 bp):
TTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTAAAACAAAGTTATGA
Found at i:22407262 original size:99 final size:98
Alignment explanation
Indices: 22407073--22407255 Score: 271
Period size: 97 Copynumber: 1.9 Consensus size: 98
22407063 AAAAAAAGAG
* * *
22407073 AGTTTTGATTTTTAAAAATAAAAATATGTTTTTTTTAGTCATTCTAAAGGAAAGTTTAAAATTTT
1 AGTTTAGACTTTTAAAAATAAAAATA-GTATTTTTTAGTCATTCTAAAGGAAAGTTTAAAATTTT
*
22407138 AAAACAATGTAGTGATTTTTTAAATAAAAGGGAA
65 AAAACAAAGTAGTGATTTTTTAAATAAAAGGGAA
*
22407172 AGTTTAGACTTTTAAAAATAAAAATA-TATTTTTTAGTCATTTTAAAGGAAAGTTT-AAATGTTT
1 AGTTTAGACTTTTAAAAATAAAAATAGTATTTTTTAGTCATTCTAAAGGAAAGTTTAAAAT-TTT
**
22407235 AAAACAAAGTTTTGATTTTTT
65 AAAACAAAGTAGTGATTTTTT
22407256 TAAAATATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
96 4 0.05
97 48 0.63
99 24 0.32
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.43
Consensus pattern (98 bp):
AGTTTAGACTTTTAAAAATAAAAATAGTATTTTTTAGTCATTCTAAAGGAAAGTTTAAAATTTTA
AAACAAAGTAGTGATTTTTTAAATAAAAGGGAA
Found at i:22407415 original size:159 final size:156
Alignment explanation
Indices: 22407163--22407470 Score: 474
Period size: 159 Copynumber: 1.9 Consensus size: 156
22407153 TTTTTTAAAT
*
22407163 AAAAGGGAAAGTTTAGACTTTTAAAAATAAAAATATATTTTTTAGTCATTTTAAAGGAAAGTTTA
1 AAAAGAGAAAGTTTAGACTTTTAAAAATAAAAATATATTTTTTAGTCATTTTAAAGGAAAGTTTA
*
22407228 AATGTTTAAAACAAAGTTTTGATTTTTTTAAAATATTTCGAAATAAAAGCTTTAA-TCTTTAAGA
66 AATGTTTAAAACAAAGTTTTGATCTTTTTAAAATATTTCGAAATAAAA-CTTTAATTCTTTAAGA
*
22407292 AAAGTAGTGAATTTTTTAAAAGAAGAAA
130 AAAGTAGCG-ATTTTTTAAAAGAAGAAA
* *
22407320 AAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGTAAAGTT
1 AAAAGAGAAAGTTTAGACTTTTAAAAATAAAAATAT-ATTTTTTAGTCATTTTAAAGG-AAAGTT
* * * * *
22407385 TAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAACTTTAATTTTTTTTA
64 TAAATGTTTAAAACAAAGTTTTGATCTTTTTAAAATATTTCGAAATAAAACTTTAA-TTCTTTAA
22407450 GAAAAGTAGCGATTTTTTAAA
128 GAAAAGTAGCGATTTTTTAAA
22407471 GGAAATTTTG
Statistics
Matches: 137, Mismatches: 10, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
157 34 0.25
158 26 0.19
159 62 0.45
160 15 0.11
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (156 bp):
AAAAGAGAAAGTTTAGACTTTTAAAAATAAAAATATATTTTTTAGTCATTTTAAAGGAAAGTTTA
AATGTTTAAAACAAAGTTTTGATCTTTTTAAAATATTTCGAAATAAAACTTTAATTCTTTAAGAA
AAGTAGCGATTTTTTAAAAGAAGAAA
Found at i:22407475 original size:253 final size:250
Alignment explanation
Indices: 22406907--22407403 Score: 645
Period size: 253 Copynumber: 1.9 Consensus size: 250
22406897 TTAGTTTTTT
* * *** *
22406907 TAAAAGGAGAAATTTTAGATTTTTAAAAATAAAAATATGATTTTTTAGTCATTTTAAGGGAAAGT
1 TAAAAGGA-AAACTTTAGACTTTT-AAAATAAAAATAT-A--TGCGAGTCATTTTAAAGGAAAGT
* * * * * *
22406972 TTAAATTTTTAAAACAAAGTTCTAATTTTTTTCAACTATTTTGAAATAAAAGCTTTGATTTTTAA
61 TTAAATGTTTAAAACAAAGTTCTAATTTTTTTAAAATATTTCGAAATAAAAGCTTTAATCTTTAA
* * *
22407037 GAAAAGTAGTGATTTTTGAAATGAAAAAAAAAAGAGAGTTTTGATTTTTAAAAATAAAAATATGT
126 GAAAAGTAGTGATTTTTGAAAAGAAAAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGT
*
22407102 TTTTTTTAGTCATTCTAAAGGAAAGTTTAAAATTTTAAAACAATGTAGTGATTTTTTAAA
191 TTTTTTTAGTCATTCTAAAGGAAAGTTTAAAATTTTAAAACAAAGTAGTGATTTTTTAAA
* * ***
22407162 TAAAAGGGAAAGTTTAGACTTTTAAAAATAAAAATATATTTTTTAGTCATTTTAAAGGAAAGTTT
1 TAAAAGGAAAACTTTAGACTTTT-AAAATAAAAATATA--TGCGAGTCATTTTAAAGGAAAGTTT
* *
22407227 AAATGTTTAAAACAAAGTTTTGATTTTTTTAAAATATTTCGAAATAAAAGCTTTAATCTTTAAGA
63 AAATGTTTAAAACAAAGTTCTAATTTTTTTAAAATATTTCGAAATAAAAGCTTTAATCTTTAAGA
*
22407292 AAAGTAGTGAATTTTTTAAAAGAAGAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATG
128 AAAGTAGTG-ATTTTTGAAAAGAA-AAAAAAA-AGAAAGTTTAGATTTTTAAAAATAAAAATATG
* *
22407357 -TTTTTTTAGTCATTTTAAAGGTAAAGTTTAAATTTTTAAAACAAAGT
190 TTTTTTTTAGTCATTCTAAAGG-AAAGTTTAAAATTTTAAAACAAAGT
22407404 TTTGATCTTT
Statistics
Matches: 219, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
253 93 0.42
254 39 0.18
255 34 0.16
256 53 0.24
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.40
Consensus pattern (250 bp):
TAAAAGGAAAACTTTAGACTTTTAAAATAAAAATATATGCGAGTCATTTTAAAGGAAAGTTTAAA
TGTTTAAAACAAAGTTCTAATTTTTTTAAAATATTTCGAAATAAAAGCTTTAATCTTTAAGAAAA
GTAGTGATTTTTGAAAAGAAAAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTT
TTAGTCATTCTAAAGGAAAGTTTAAAATTTTAAAACAAAGTAGTGATTTTTTAAA
Found at i:22409493 original size:23 final size:24
Alignment explanation
Indices: 22409455--22409500 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
22409445 GTTTGAGAGC
*
22409455 TAGATTTTTTAGTATTTGTGCATAT
1 TAGATTTTTTA-TATTCGTGCATAT
22409480 TAGATTTTTT-TATTCGTGCAT
1 TAGATTTTTTATATTCGTGCAT
22409501 TAATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
25 10 0.50
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.57
Consensus pattern (24 bp):
TAGATTTTTTATATTCGTGCATAT
Found at i:22410715 original size:35 final size:36
Alignment explanation
Indices: 22410665--22410738 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 36
22410655 TTTGTTTAAT
* *
22410665 TATGTAATTAATGATATTTAAA-TATAATTTATATTA
1 TATGTAATTAATGATAATTAAATTATAA-TGATATTA
*
22410701 TATG-AATTTATGATAATTAAATTATAATGATATTA
1 TATGTAATTAATGATAATTAAATTATAATGATATTA
22410736 TAT
1 TAT
22410739 TATTAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 25 0.74
36 9 0.26
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.49
Consensus pattern (36 bp):
TATGTAATTAATGATAATTAAATTATAATGATATTA
Found at i:22410730 original size:25 final size:23
Alignment explanation
Indices: 22410686--22410746 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
22410676 TGATATTTAA
*
22410686 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
22410710 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
22410735 ATATTATTAAAT
1 ATATAATTAAAT
22410747 AAATCAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:22412077 original size:3 final size:3
Alignment explanation
Indices: 22412045--22412097 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
22412035 GTGAGGTAAG
* * * * *
22412045 TAT TAA TAT TAG TAT TAG TAA TAG TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22412093 TAT TA
1 TAT TA
22412098 GTGGGAATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:22415848 original size:46 final size:46
Alignment explanation
Indices: 22415697--22415859 Score: 143
Period size: 46 Copynumber: 3.5 Consensus size: 46
22415687 TCTGTATAGT
* **
22415697 TTGCAGACTCAAGAATATAGGAATAGGTTGTGAGCTCTTGCATATG
1 TTGCAGACTCGAGAATATAGGAATAGGTTCCGAGCTCTTGCATATG
* * * * * * * *
22415743 TTGC-GAACTCGAGAACACAAGAATAGGTTTCGAGCTCCTACATCTA
1 TTGCAG-ACTCGAGAATATAGGAATAGGTTCCGAGCTCTTGCATATG
* * *
22415789 TTGCGGAC-CTGAGAATTTAGGTATAGGTTCCGAGCTCTTGCATATG
1 TTGCAGACTC-GAGAATATAGGAATAGGTTCCGAGCTCTTGCATATG
*
22415835 TTGCAGACTTGAGAATACT-GGAATA
1 TTGCAGACTCGAGAATA-TAGGAATA
22415860 TTAAGCCCTA
Statistics
Matches: 88, Mismatches: 24, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
45 2 0.02
46 84 0.95
47 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (46 bp):
TTGCAGACTCGAGAATATAGGAATAGGTTCCGAGCTCTTGCATATG
Found at i:22416705 original size:27 final size:27
Alignment explanation
Indices: 22416651--22416706 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
22416641 CATCATATAT
* *
22416651 ATATACACACATAACATAGCATTTATC
1 ATATACACACATAACATAGCACTCATC
*
22416678 ATATATACACATAACATAGCACTCATC
1 ATATACACACATAACATAGCACTCATC
22416705 AT
1 AT
22416707 TAACATGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.29
Consensus pattern (27 bp):
ATATACACACATAACATAGCACTCATC
Found at i:22417888 original size:13 final size:13
Alignment explanation
Indices: 22417858--22417882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22417848 TATTTGGTTA
22417858 TTCAAATGACCAC
1 TTCAAATGACCAC
22417871 TTCAAATGACCA
1 TTCAAATGACCA
22417883 TATCAACTCC
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCAAATGACCAC
Found at i:22419181 original size:25 final size:25
Alignment explanation
Indices: 22419152--22419216 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
22419142 TCTTGTACAT
*
22419152 GTATGCTCATATGAGCTATGAACCG
1 GTATGCTCATATGAGCTATAAACCG
* **
22419177 GTATGCTC-TCACGAGCTATAAATTG
1 GTATGCTCAT-ATGAGCTATAAACCG
*
22419202 GTAAGCTCATATGAG
1 GTATGCTCATATGAG
22419217 TTGAGAATCG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (25 bp):
GTATGCTCATATGAGCTATAAACCG
Found at i:22419250 original size:24 final size:24
Alignment explanation
Indices: 22419222--22419272 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
22419212 ATGAGTTGAG
*
22419222 AATCGGTAAACTTTAACGAGCTGA
1 AATCGGTAAACTCTAACGAGCTGA
* *
22419246 AATCGGTAAGCTCTCACGAGCTGA
1 AATCGGTAAACTCTAACGAGCTGA
22419270 AAT
1 AAT
22419273 AAAAAATCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (24 bp):
AATCGGTAAACTCTAACGAGCTGA
Found at i:22421254 original size:44 final size:44
Alignment explanation
Indices: 22421205--22421293 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
22421195 ATTCCCATAC
*
22421205 TTAAAGATAAACTCAAATGTATATAACTCAATTTACTTTTCAAA
1 TTAAAGATAAACTCAAATGCATATAACTCAATTTACTTTTCAAA
*
22421249 TTAAAGATAAGCTCAAATGCATATAACTCAATTTACTTTTCAAA
1 TTAAAGATAAACTCAAATGCATATAACTCAATTTACTTTTCAAA
22421293 T
1 T
22421294 GAATAACTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.36
Consensus pattern (44 bp):
TTAAAGATAAACTCAAATGCATATAACTCAATTTACTTTTCAAA
Found at i:22425874 original size:20 final size:22
Alignment explanation
Indices: 22425849--22425896 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
22425839 CGAATCTGTA
22425849 AAAAATAA-T-CAAAATTCACT
1 AAAAATAATTGCAAAATTCACT
* *
22425869 AAAAATAATTGTAAAATTGACT
1 AAAAATAATTGCAAAATTCACT
22425891 AAAAAT
1 AAAAAT
22425897 TAACATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 15 0.62
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAATAATTGCAAAATTCACT
Found at i:22425949 original size:18 final size:20
Alignment explanation
Indices: 22425920--22425959 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
22425910 TTTTTAATAC
22425920 AATTTAATTATTTTAT-AAA
1 AATTTAATTATTTTATGAAA
22425939 AATTT-ATTATTTTATGAAA
1 AATTTAATTATTTTATGAAA
22425958 AA
1 AA
22425960 AATTCTATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AATTTAATTATTTTATGAAA
Found at i:22431223 original size:62 final size:62
Alignment explanation
Indices: 22431126--22431249 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
22431116 AGTATAAGAG
22431126 AAGAATTCCCTTCTTGTGGCTCCAATCTGGACAAGTGATCTGCTACTTGATTTTTGACTCCC
1 AAGAATTCCCTTCTTGTGGCTCCAATCTGGACAAGTGATCTGCTACTTGATTTTTGACTCCC
22431188 AAGAATTCCCTTCTTGTGGCTCCAATCTGGACAAGTGATCTGCTACTTGATTTTTGACTCCC
1 AAGAATTCCCTTCTTGTGGCTCCAATCTGGACAAGTGATCTGCTACTTGATTTTTGACTCCC
22431250 TTTCGATATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (62 bp):
AAGAATTCCCTTCTTGTGGCTCCAATCTGGACAAGTGATCTGCTACTTGATTTTTGACTCCC
Found at i:22435619 original size:10 final size:11
Alignment explanation
Indices: 22435606--22435674 Score: 51
Period size: 10 Copynumber: 6.8 Consensus size: 11
22435596 TTAAAAACTA
22435606 GAAAA-AAAAG
1 GAAAATAAAAG
22435616 GAAAATAAAA-
1 GAAAATAAAAG
*
22435626 TAAAATAAAA-
1 GAAAATAAAAG
*
22435636 TAAAATAAAA-
1 GAAAATAAAAG
*
22435646 TAAAATAAAA-
1 GAAAATAAAAG
*
22435656 TAAAATAAAA-
1 GAAAATAAAAG
*
22435666 TAAAATAAA
1 GAAAATAAA
22435675 GTTCTAATGC
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
10 53 0.93
11 4 0.07
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (11 bp):
GAAAATAAAAG
Found at i:22435627 original size:5 final size:5
Alignment explanation
Indices: 22435617--22435674 Score: 116
Period size: 5 Copynumber: 11.6 Consensus size: 5
22435607 AAAAAAAAGG
22435617 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
22435667 AAAAT AAA
1 AAAAT AAA
22435675 GTTCTAATGC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:22436652 original size:14 final size:14
Alignment explanation
Indices: 22436633--22436662 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22436623 AGTGAGAGAG
*
22436633 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
22436647 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
22436661 GA
1 GA
22436663 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:22437063 original size:20 final size:22
Alignment explanation
Indices: 22437038--22437087 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
22437028 CGAATCTGTC
22437038 AAAAATAA-T-AAAAATTCACT
1 AAAAATAATTGAAAAATTCACT
* *
22437058 AAAAATAATTGTAAAATTGACT
1 AAAAATAATTGAAAAATTCACT
22437080 AAAAATAA
1 AAAAATAA
22437088 CATGTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 1 0.04
22 17 0.65
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (22 bp):
AAAAATAATTGAAAAATTCACT
Found at i:22437137 original size:18 final size:20
Alignment explanation
Indices: 22437108--22437147 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
22437098 TTTTTAATAC
22437108 AATTTAATTATTTTAT-AAA
1 AATTTAATTATTTTATGAAA
22437127 AATTT-ATTATTTTATGAAA
1 AATTTAATTATTTTATGAAA
22437146 AA
1 AA
22437148 ATTTCTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AATTTAATTATTTTATGAAA
Found at i:22438673 original size:12 final size:12
Alignment explanation
Indices: 22438656--22438681 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22438646 TTGGAGCAAA
22438656 TGCCCAATTATG
1 TGCCCAATTATG
22438668 TGCCCAATTATG
1 TGCCCAATTATG
22438680 TG
1 TG
22438682 TAATCCATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (12 bp):
TGCCCAATTATG
Found at i:22447503 original size:40 final size:40
Alignment explanation
Indices: 22447448--22448476 Score: 1057
Period size: 40 Copynumber: 25.8 Consensus size: 40
22447438 CGAGTACCAG
* * * * * * *
22447448 AGTACTAACAAGGGCACGTATGTGCTTTTAGGTGTACCAA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* *
22447488 AGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * *
22447528 AGTACAAATAGGGGCACGTATGTTCATTCAGGGGTACTGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * * * * *
22447568 AGTACAAATAAGGGCACATATGTGAATTTAGGGGTATCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
*
22447608 AGTACAAACAGGGGGACGTGTGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
*
22447648 AGTACAAACAGGGGCACTTGTGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* *
22447688 AGTATAAACAGGGGCACGTGTGTGCATTCAGGGGTACTGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
22447728 AGTACAAACAGGGGAACTTGTGTTCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
22447768 AGTACAAACAAGGGCACATGTGTGCATTCAGGGGTACTGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
22447808 AGTACAAATAGGGGCACGTCTGTGCATTCAAGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
22447848 AGTAAAAACAGGGGCAAGTGTGTGCATTCAGGGGTA-CTA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * * *
22447887 AGTACAAACCA-GGGCACATAG-GTGAATTTAGAGGTATCGA
1 AGTACAAA-CAGGGGCACGT-GTGTGCATTCAGGGGTACCGA
* * * * *
22447927 AGTACAAATAGGGGGACGTGTGTGCATTTAGGGGTATCAA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
22447967 AGTACAAACAGGGGGATGTGTGTGCATTCAGGGGTATCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
*
22448007 AGTACAAAAAGGGGCACGTGTGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
22448047 AGTACAAATAGGGGCACATGTGTACATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * *
22448087 AGTACAAACAGGTGCACGTCTGTGCATTTAGGGGTACTGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * * * *
22448127 AGTACAAATAAGGGCACGTCTTTGCATTTAGAGGGTA-CTA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAG-GGGTACCGA
* * * * **
22448167 AGTACGAACAAGGGCACATCTGTGCATTCAGGGGTATTGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * ** * * *
22448207 AGTACAAAAAAGGGCATATGTGTG-ATTTAGGGGTATCAA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
*
22448246 AGTACAAATAGGGGCACGTGTGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
** * * *
22448286 AGTAC-AACTATTGGCATGTGTGTGCATTTAGGGGTATCGA
1 AGTACAAAC-AGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * ** *
22448326 AGCAC-AACAGGAGCATGCATGTGCATTCAAGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * *
22448365 AGTACAAACAGGGGCATGTATGTGGATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
* * * **
22448405 AGTACAAATAAGGGCATGCATGTGCATTCCA-GGGTACCGA
1 AGTACAAACAGGGGCACGTGTGTGCATT-CAGGGGTACCGA
* * * *
22448445 AGTACAGACAAGGGCATGTATGTGCATTCAGG
1 AGTACAAACAGGGGCACGTGTGTGCATTCAGG
22448477 TAATAATTAT
Statistics
Matches: 841, Mismatches: 136, Indels: 24
0.84 0.14 0.02
Matches are distributed among these distances:
39 97 0.12
40 737 0.88
41 7 0.01
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTGTGTGCATTCAGGGGTACCGA
Found at i:22447659 original size:20 final size:20
Alignment explanation
Indices: 22447636--22447777 Score: 56
Period size: 20 Copynumber: 7.1 Consensus size: 20
22447626 TGTGTGCATT
22447636 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * **
22447656 CAGGGGCACTTG-TGTGCATT
1 CAGGGGTAC-CGAAGTACAAA
*
22447676 CAGGGGTACCGAAGTATAAA
1 CAGGGGTACCGAAGTACAAA
* ** * **
22447696 CAGGGGCA-CGTGTGTGCATT
1 CAGGGGTACCG-AAGTACAAA
*
22447716 CAGGGGTACTGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * **
22447736 CAGGGGAACTTG-TGTTCATT
1 CAGGGGTAC-CGAAGTACAAA
22447756 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
22447776 CA
1 CA
22447778 AGGGCACATG
Statistics
Matches: 78, Mismatches: 38, Indels: 12
0.61 0.30 0.09
Matches are distributed among these distances:
19 4 0.05
20 70 0.90
21 4 0.05
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:22448098 original size:20 final size:20
Alignment explanation
Indices: 22448035--22448098 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
22448025 TGTGTGCATT
22448035 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * **
22448055 TAGGGGCACATG-TGTACATT
1 CAGGGGTAC-CGAAGTACAAA
22448075 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
22448095 CAGG
1 CAGG
22448099 TGCACGTCTG
Statistics
Matches: 30, Mismatches: 12, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:22449178 original size:8 final size:7
Alignment explanation
Indices: 22449154--22449193 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
22449144 AAAATATTTT
22449154 AAAATTA
1 AAAATTA
22449161 AAAATTA
1 AAAATTA
22449168 AAAATTA
1 AAAATTA
* *
22449175 AAAAATC
1 AAAATTA
*
22449182 AAAATAA
1 AAAATTA
22449189 AAAAT
1 AAAAT
22449194 ATATTTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAATTA
Found at i:22455920 original size:46 final size:46
Alignment explanation
Indices: 22455870--22455972 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 46
22455860 TGCAAAATCA
* **
22455870 AGAATATAGGAATAGGTTCTAAGCTCCAACATATGTTGTGGACTTG
1 AGAATATAGGAATAGGTTCCAAGCTCCAACATATGTTGCAGACTTG
* * * * ** *
22455916 AGAATATATGTATTGGTTCCGAGCTCTTACATATGTTGCAGAGTTG
1 AGAATATAGGAATAGGTTCCAAGCTCCAACATATGTTGCAGACTTG
22455962 AGAATATAGGA
1 AGAATATAGGA
22455973 CAAAGCCCTG
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (46 bp):
AGAATATAGGAATAGGTTCCAAGCTCCAACATATGTTGCAGACTTG
Found at i:22461696 original size:30 final size:30
Alignment explanation
Indices: 22461599--22461875 Score: 234
Period size: 30 Copynumber: 9.4 Consensus size: 30
22461589 TCAGCTATCG
* *
22461599 AATTATGAAAAGGGATTGTGATGACCATCA
1 AATTATGAAAAGGGATGGTGACGACCATCA
22461629 ACA--ATG-AAAGGGATGGTGACGACCATCA
1 A-ATTATGAAAAGGGATGGTGACGACCATCA
*
22461657 ACA--ATGAAAAGGGATTGTGACGACCATCA
1 A-ATTATGAAAAGGGATGGTGACGACCATCA
* * *
22461686 AATTATGAAAAGGGATGGCT-TCGGCTATCA
1 AATTATGAAAAGGGATGG-TGACGACCATCA
* * *
22461716 AATTATGAAAAGGGATGGCT-TCGACTATCG
1 AATTATGAAAAGGGATGG-TGACGACCATCA
* * * * *
22461746 AATTATAAAAATGGATAGCT-TCGACTATCA
1 AATTATGAAAAGGGAT-GGTGACGACCATCA
*
22461776 AATTATGAAAAGGGATGTTGACGACCATC-
1 AATTATGAAAAGGGATGGTGACGACCATCA
* * *
22461805 AATAATGAAAAGGGATCGTGATGACCATCA
1 AATTATGAAAAGGGATGGTGACGACCATCA
** *
22461835 ACA--ATGAGCAGGGATGGTGATGACCATCA
1 A-ATTATGAAAAGGGATGGTGACGACCATCA
22461864 AATTATGAAAAG
1 AATTATGAAAAG
22461876 AGTTTGCTTT
Statistics
Matches: 209, Mismatches: 27, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
28 28 0.13
29 76 0.36
30 101 0.48
31 4 0.02
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (30 bp):
AATTATGAAAAGGGATGGTGACGACCATCA
Found at i:22462797 original size:20 final size:20
Alignment explanation
Indices: 22462772--22462820 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
22462762 GGGTCATACG
22462772 GCCAAGCCGCACGTCCTTGT
1 GCCAAGCCGCACGTCCTTGT
22462792 GCCAAGCCGCACGTCCTTGT
1 GCCAAGCCGCACGTCCTTGT
22462812 GCCAAGCCG
1 GCCAAGCCG
22462821 TGTACCCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.41, G:0.27, T:0.16
Consensus pattern (20 bp):
GCCAAGCCGCACGTCCTTGT
Found at i:22479450 original size:12 final size:12
Alignment explanation
Indices: 22479435--22479459 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22479425 GATCCTTATG
22479435 AAGAAAGTGATC
1 AAGAAAGTGATC
22479447 AAGAAAGTGATC
1 AAGAAAGTGATC
22479459 A
1 A
22479460 TTCATCTGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.24, T:0.16
Consensus pattern (12 bp):
AAGAAAGTGATC
Found at i:22489330 original size:15 final size:15
Alignment explanation
Indices: 22489310--22489340 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22489300 GTAGGATGGG
22489310 GGATTGGGTTGAGGA
1 GGATTGGGTTGAGGA
*
22489325 GGATTGGGTTGGGGA
1 GGATTGGGTTGAGGA
22489340 G
1 G
22489341 AGGAAGGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.58, T:0.26
Consensus pattern (15 bp):
GGATTGGGTTGAGGA
Found at i:22497877 original size:20 final size:20
Alignment explanation
Indices: 22497801--22497876 Score: 109
Period size: 20 Copynumber: 3.8 Consensus size: 20
22497791 AAGCTTATGC
22497801 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
*
22497821 TAAGTAAAT-GAAGTAGAAAG
1 TAAGTAAATGGAA-TGGAAAG
* *
22497841 TAAGTAAATAGAATGGTAAG
1 TAAGTAAATGGAATGGAAAG
22497861 TAAGTAAATGGAATGG
1 TAAGTAAATGGAATGG
22497877 TTCATCATCT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.06
20 44 0.88
21 3 0.06
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:22502132 original size:43 final size:45
Alignment explanation
Indices: 22502027--22502133 Score: 119
Period size: 43 Copynumber: 2.4 Consensus size: 45
22502017 AAGAATTGGT
*
22502027 GCTTCAATCTACTCCACTACAATATCAAGGAGATAGGACTTACAA
1 GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
* * * * * **
22502072 TCTTCAACCTATTCCACTGCTA-ATCAAGGAGATATGA-TTACTG
1 GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
*
22502115 GCTTCAATGTACTCCACTG
1 GCTTCAATCTACTCCACTG
22502134 TAACCACAGG
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
43 19 0.38
44 14 0.28
45 17 0.34
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (45 bp):
GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
Found at i:22502292 original size:132 final size:132
Alignment explanation
Indices: 22502108--22502964 Score: 1507
Period size: 132 Copynumber: 6.5 Consensus size: 132
22502098 AGGAGATATG
* *
22502108 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCAATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* *
22502173 CCACTACTGCATAGGGAGATAAGATCTGAAATCTTCAGTCTATTCCACTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
22502238 GA
131 GA
22502240 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
*
22502305 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
22502370 GA
131 GA
* *
22502372 ATTACTAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
*
22502437 CCACTACTGCTTAGGGAGATAAGATCTGAAGTCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
22502502 GA
131 GA
* * *
22502504 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCGTCATCTTCAATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* * *
22502569 CCACTACTGGTTAGGGAGATAAGATATGAAATCTTCAATCTATTCCACTGTTGTTCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
22502634 GA
131 GA
*
22502636 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* *
22502701 CCACAACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
22502766 GA
131 GA
* *
22502768 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
*
22502833 CCACTACTGCTTAGGGAGATAAGATCTGAAGTCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
22502898 GA
131 GA
* * *
22502900 ATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATTCGTCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
22502965 TCGCTGTCAA
Statistics
Matches: 687, Mismatches: 38, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 687 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
GA
Found at i:22502352 original size:44 final size:44
Alignment explanation
Indices: 22502159--22502881 Score: 173
Period size: 44 Copynumber: 16.4 Consensus size: 44
22502149 AAAATCCGCC
*
22502159 ATCTTCAATCTGCTCCACTACTGCAT-AGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGC-TCAGGGAGATAAGATCTGAA
* * **
22502203 ATCTTCAGTCTATTCCACTGTTG-TCCAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCT-CAGGGAGA-TAAG-A-T-CTGAA
* * * * * * * **
22502247 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCTGAA
* * *
22502291 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
* ** * *
22502335 ATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT-AGAAT-T-ACT
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGA-TAAG-ATCTGA-A
* * * * * * * **
22502378 AGCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCTGAA
* *
22502423 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
* * **
22502467 GTCTTCAATCTATTCCACTGTTG-TCCAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCT-CAGGGAGA-TAAG-A-T-CTGAA
* * * * * * **
22502511 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAAT-TCGTC
1 ATCTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCT-GAA
* * * *
22502555 ATCTTCAATCTGCTCCACTACTGGTTAGGGAGATAAGATATGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
* ** *
22502599 ATCTTCAATCTATTCCACTGTTGTTCAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGA-TAAG-A-T-CTGAA
* * * * * * **
22502643 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCTGCC
1 ATCTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCTGAA
* * * *
22502687 ATCTTCGATCTGCTCCACAACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
* ** *
22502731 ATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGA-TAAG-A-T-CTGAA
* * * * * * * *
22502775 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATC-CACC
1 ATCTTCAATCTACTCCACTACT--GCTCAGGGAGATAAGATCTGA-A
* *
22502819 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
* *
22502863 GTCTTCAATCTATTCCACT
1 ATCTTCAATCTACTCCACT
22502882 GTTGTCCAGG
Statistics
Matches: 472, Mismatches: 140, Indels: 134
0.63 0.19 0.18
Matches are distributed among these distances:
41 1 0.00
42 14 0.03
43 96 0.20
44 256 0.54
45 89 0.19
46 16 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGAA
Found at i:22509858 original size:22 final size:21
Alignment explanation
Indices: 22509823--22509918 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
22509813 AAAGGGTATC
* *
22509823 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
22509844 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
22509867 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
22509886 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
22509905 TGCATATCATATCT
1 TACAAATCATATCT
22509919 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 34 0.54
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:22509866 original size:23 final size:22
Alignment explanation
Indices: 22509823--22509880 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
22509813 AAAGGGTATC
* *
22509823 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
22509844 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
22509867 TGCATATCATATCT
1 TACAAATCATATCT
22509881 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:22509883 original size:19 final size:19
Alignment explanation
Indices: 22509859--22509931 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
22509849 AATCATATCT
22509859 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
22509878 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
22509897 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
22509916 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22509932 CCTAAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22519022 original size:33 final size:33
Alignment explanation
Indices: 22518985--22519127 Score: 82
Period size: 33 Copynumber: 4.2 Consensus size: 33
22518975 TGCTGTGTGT
22518985 TGATTCCCCGATTCATTGGTGGTTGCTAAGTGC
1 TGATTCCCCGATTCATTGGTGGTTGCTAAGTGC
* *
22519018 TGATTCCACCGTATTTTAAATGTGAAAGGCGGTTGCTAAGTGC
1 TGATTCC-CCG-A--TT-CAT-T----GGTGGTTGCTAAGTGC
* ** *
22519061 TGATTCCCC----CA-AGG-GGTTGCTGTGTGT
1 TGATTCCCCGATTCATTGGTGGTTGCTAAGTGC
* *
22519088 TGATTCCCCTATTCATTGGTGGTTGCTAAGTGT
1 TGATTCCCCGATTCATTGGTGGTTGCTAAGTGC
22519121 TGATTCC
1 TGATTCC
22519128 ACCGCATCTG
Statistics
Matches: 84, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
27 19 0.23
28 2 0.02
31 2 0.02
32 2 0.02
33 25 0.30
34 4 0.05
35 1 0.01
37 2 0.02
38 2 0.02
39 1 0.01
42 2 0.02
43 22 0.26
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (33 bp):
TGATTCCCCGATTCATTGGTGGTTGCTAAGTGC
Found at i:22519091 original size:27 final size:28
Alignment explanation
Indices: 22519043--22519096 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
22519033 TTAAATGTGA
22519043 AAGGCGGTTGCTAAGTGCTGATTCCCCC
1 AAGGCGGTTGCTAAGTGCTGATTCCCCC
** *
22519071 AAGG-GGTTGCTGTGTGTTGATTCCCC
1 AAGGCGGTTGCTAAGTGCTGATTCCCC
22519097 TATTCATTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.15, C:0.24, G:0.31, T:0.30
Consensus pattern (28 bp):
AAGGCGGTTGCTAAGTGCTGATTCCCCC
Found at i:22519093 original size:103 final size:102
Alignment explanation
Indices: 22518968--22519233 Score: 415
Period size: 102 Copynumber: 2.6 Consensus size: 102
22518958 ATTGCATATA
* *
22518968 AAGGGGTTGCTGTGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTGTGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
*
22519033 TTAAATGTGAAAGGCGGTTGCTAAGTGCTGATTCCCCC
66 TGAAATGTG-AAGGCGGTTGCTAAGTGCTGATTCCCCC
* *
22519071 AAGGGGTTGCTGTGTGTTGATTCCCCTATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGCATC
1 AAGGGGTTGCTGTGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
* *
22519136 TGAAATGTGAAGGGGGTTGCTAAGTGTTGATTCCCCC
66 TGAAATGTGAAGGCGGTTGCTAAGTGCTGATTCCCCC
* * * * *
22519173 AAGGGGTTGCTGTGTGATGATTCTCTGATTCATTGGTGGTTGCTAAGTGCGGAATCCACCG
1 AAGGGGTTGCTGTGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
22519234 ATAACGGTTA
Statistics
Matches: 149, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
102 80 0.54
103 69 0.46
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (102 bp):
AAGGGGTTGCTGTGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
TGAAATGTGAAGGCGGTTGCTAAGTGCTGATTCCCCC
Found at i:22526161 original size:17 final size:17
Alignment explanation
Indices: 22526109--22526161 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
22526099 ATTTTTCAGG
*
22526109 ACTCGAATTTATTATAA
1 ACTCAAATTTATTATAA
* *
22526126 ACTCAAGCTTT-CT-TAA
1 ACTCAA-ATTTATTATAA
22526142 ACTCAAATTTATTATAA
1 ACTCAAATTTATTATAA
22526159 ACT
1 ACT
22526162 TGGGTTATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 3 0.11
16 10 0.36
17 12 0.43
18 3 0.11
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.40
Consensus pattern (17 bp):
ACTCAAATTTATTATAA
Found at i:22542861 original size:12 final size:12
Alignment explanation
Indices: 22542844--22542868 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22542834 GCTTCAATAG
22542844 ATGATGATGATA
1 ATGATGATGATA
22542856 ATGATGATGATA
1 ATGATGATGATA
22542868 A
1 A
22542869 AGCCGATGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
ATGATGATGATA
Found at i:22551231 original size:43 final size:43
Alignment explanation
Indices: 22551173--22551366 Score: 137
Period size: 43 Copynumber: 4.6 Consensus size: 43
22551163 AAATTCAGTG
**
22551173 ATACGGGGAATCAACACATAGCAACC-CCTTTCACGGTCAAAA
1 ATACGGGGAATCAACACATAGCAACCACCTTTCACAATCAAAA
* * * * * * **
22551215 ATACGGTGGATTCAACACTTGGAAACCACCTTT-ATATTCAGTA
1 ATACGG-GGAATCAACACATAGCAACCACCTTTCACAATCAAAA
* * * *
22551258 ATACAGGGAATCAGCACATATCAACC-CCTTTCACAATCAAAG
1 ATACGGGGAATCAACACATAGCAACCACCTTTCACAATCAAAA
* * *
22551300 ATACGGTGGAATCAGCACTTAGCAACCACCTTT-A-AAGTCAATA
1 ATACGG-GGAATCAACACATAGCAACCACCTTTCACAA-TCAAAA
* * * *
22551343 ATTCAGGGAATCAGCACTTAGCAA
1 ATACGGGGAATCAACACATAGCAA
22551367 TCCCTTTTTA
Statistics
Matches: 118, Mismatches: 28, Indels: 12
0.75 0.18 0.08
Matches are distributed among these distances:
41 5 0.04
42 50 0.42
43 53 0.45
44 10 0.08
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (43 bp):
ATACGGGGAATCAACACATAGCAACCACCTTTCACAATCAAAA
Found at i:22551283 original size:85 final size:85
Alignment explanation
Indices: 22551134--22551373 Score: 311
Period size: 85 Copynumber: 2.8 Consensus size: 85
22551124 ATCCGTTACT
* * * *
22551134 CGGTGGATTCAACACTTAGCAAGCACC-TTAAATTCAGTGATACGGGGAATCAACACATAGCAAC
1 CGGTGGATTCAACACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAAC
**
22551198 CCCTTTCACGGTCAAAAATA
66 CCCTTTCACAATCAAAAATA
* * * *
22551218 CGGTGGATTCAACACTTGGAAACCACCTTTATATTCAGTAATACAGGGAATCAGCACATATCAAC
1 CGGTGGATTCAACACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAAC
*
22551283 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATCAAAAATA
* * * * * * *
22551303 CGGTGGAATCAGCACTTAGCAACCACCTTTAAAGTCAATAATTCAGGGAATCAGCACTTAGCAAT
1 CGGTGGATTCAACACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAAC
22551368 CCCTTT
66 CCCTTT
22551374 TTATTCAATG
Statistics
Matches: 133, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 24 0.18
85 109 0.82
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (85 bp):
CGGTGGATTCAACACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAAC
CCCTTTCACAATCAAAAATA
Found at i:22551360 original size:42 final size:41
Alignment explanation
Indices: 22551146--22551366 Score: 144
Period size: 42 Copynumber: 5.2 Consensus size: 41
22551136 GTGGATTCAA
* * * * *
22551146 CACTTAGCAAGCACC-TTAAATTCAGTGATACGGGGAATCAA
1 CACTTAGCAACCACCTTTAAA-TCAATAATACAGGGAATCAG
* ** * * * *
22551187 CACATAGCAACC-CCTTTCACGGTCAAAAATACGGTGGATTCAA
1 CACTTAGCAACCACCTTT-A-AATCAATAATACAG-GGAATCAG
* * * *
22551230 CACTTGGAAACCACCTTTATATTCAGTAATACAGGGAATCAG
1 CACTTAGCAACCACCTTTA-AATCAATAATACAGGGAATCAG
* * *
22551272 CACATATCAACC-CCTTTCACAATCAA-AGATACGGTGGAATCAG
1 CACTTAGCAACCACCTTT-A-AATCAATA-ATACAG-GGAATCAG
*
22551315 CACTTAGCAACCACCTTTAAAGTCAATAATTCAGGGAATCAG
1 CACTTAGCAACCACCTTTAAA-TCAATAATACAGGGAATCAG
22551357 CACTTAGCAA
1 CACTTAGCAA
22551367 TCCCTTTTTA
Statistics
Matches: 138, Mismatches: 31, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
40 2 0.01
41 18 0.13
42 54 0.39
43 53 0.38
44 11 0.08
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (41 bp):
CACTTAGCAACCACCTTTAAATCAATAATACAGGGAATCAG
Found at i:22558824 original size:54 final size:54
Alignment explanation
Indices: 22558754--22558863 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
22558744 CTAACCTAAG
*
22558754 TATGCTCAAAATTAAATTAAACATATAATAATTAAATATGAAACTTTTAAGAGT
1 TATGCTCAAAAGTAAATTAAACATATAATAATTAAATATGAAACTTTTAAGAGT
*
22558808 TATGCTCAAAAGTAAATTAAACATATAATAATTAAATATGCAACTTTTAAGAGT
1 TATGCTCAAAAGTAAATTAAACATATAATAATTAAATATGAAACTTTTAAGAGT
22558862 TA
1 TA
22558864 ATCACAATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (54 bp):
TATGCTCAAAAGTAAATTAAACATATAATAATTAAATATGAAACTTTTAAGAGT
Found at i:22564444 original size:27 final size:27
Alignment explanation
Indices: 22564398--22564550 Score: 155
Period size: 27 Copynumber: 5.7 Consensus size: 27
22564388 ACATGCTAGA
*** *
22564398 AAAAGGAAGCCTTCACGGTGATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
* * *
22564425 AAGAGGAAGCCTTTGTGGTGATCTATA
1 AAAAGGAAGCCTTTGTGGCGATCTATG
** *
22564452 AAAAGGAAGCCTTCATAGCGATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
* * *
22564479 -AAAGGAAATCCTTTGTGGCAATTTATG
1 AAAAGG-AAGCCTTTGTGGCGATCTATG
* *
22564506 AAAAAGAAGCCTTCGTGGCGATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
22564533 AAAAGGAAGCCTTTGTGG
1 AAAAGGAAGCCTTTGTGG
22564551 AAATTGATGA
Statistics
Matches: 100, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
26 5 0.05
27 91 0.91
28 4 0.04
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (27 bp):
AAAAGGAAGCCTTTGTGGCGATCTATG
Found at i:22564479 original size:54 final size:54
Alignment explanation
Indices: 22564396--22564550 Score: 197
Period size: 54 Copynumber: 2.9 Consensus size: 54
22564386 GAACATGCTA
* * **
22564396 GAAAAAGGAAGCCTTCACGGTGATCTATGAAGAGGAAGCCTTTGTGGTGATCTAT
1 GAAAAAGGAAGCCTTCATGGCGATCTATGAA-AGGAAGCCTTTGTGGCAATCTAT
* * *
22564451 -AAAAAGGAAGCCTTCATAGCGATCTATGAAAGGAAATCCTTTGTGGCAATTTAT
1 GAAAAAGGAAGCCTTCATGGCGATCTATGAAAGG-AAGCCTTTGTGGCAATCTAT
*
22564505 GAAAAA-GAAGCCTTCGTGGCGATCTATGAAAAGGAAGCCTTTGTGG
1 GAAAAAGGAAGCCTTCATGGCGATCTATG-AAAGGAAGCCTTTGTGG
22564551 AAATTGATGA
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
53 3 0.03
54 74 0.85
55 10 0.11
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (54 bp):
GAAAAAGGAAGCCTTCATGGCGATCTATGAAAGGAAGCCTTTGTGGCAATCTAT
Found at i:22564560 original size:27 final size:26
Alignment explanation
Indices: 22564421--22564580 Score: 106
Period size: 27 Copynumber: 5.9 Consensus size: 26
22564411 CACGGTGATC
* **
22564421 TATGAAGAGGAAGCCTTTGTGGTGAT
1 TATGAAAAGGAAGCCTTTGTGGCAAT
* ** * *
22564447 CTATAAAAAGGAAGCCTTCATAGCGAT
1 -TATGAAAAGGAAGCCTTTGTGGCAAT
*
22564474 CTATG-AAAGGAAATCCTTTGTGGCAATT
1 -TATGAAAAGG-AAGCCTTTGTGGCAA-T
* * *
22564502 TATGAAAAAGAAGCCTTCGTGGCGAT
1 TATGAAAAGGAAGCCTTTGTGGCAAT
*
22564528 CTATGAAAAGGAAGCCTTTGTGGAAAT
1 -TATGAAAAGGAAGCCTTTGTGGCAAT
* * *
22564555 TGATGATAAAGAAATCCTATGTGGCA
1 T-ATGA-AAAGGAAGCCTTTGTGGCA
22564581 CTCTCTAAAA
Statistics
Matches: 103, Mismatches: 24, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
26 7 0.07
27 76 0.74
28 20 0.19
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (26 bp):
TATGAAAAGGAAGCCTTTGTGGCAAT
Found at i:22564591 original size:81 final size:81
Alignment explanation
Indices: 22564418--22564580 Score: 184
Period size: 81 Copynumber: 2.0 Consensus size: 81
22564408 CTTCACGGTG
* * * * ** *
22564418 ATCTATGAAGAGGAAGCCTTTGTGGTGATCTATAAAAAGGAAGCCTTCATAGCGATCTATGAAAG
1 ATCTATGAAAAAGAAGCCTTCGTGGCGATCTATAAAAAGGAAGCCTTCATAGAAATCTATGAAAA
*
22564483 GAAATCCTTTGTGGCA
66 GAAATCCTATGTGGCA
* * ** *
22564499 ATTTATGAAAAAGAAGCCTTCGTGGCGATCTATGAAAAGGAAGCCTTTGTGGAAAT-TGATGATA
1 ATCTATGAAAAAGAAGCCTTCGTGGCGATCTATAAAAAGGAAGCCTTCATAGAAATCT-ATGA-A
22564563 AAGAAATCCTATGTGGCA
64 AAGAAATCCTATGTGGCA
22564581 CTCTCTAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
80 1 0.01
81 49 0.73
82 17 0.25
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (81 bp):
ATCTATGAAAAAGAAGCCTTCGTGGCGATCTATAAAAAGGAAGCCTTCATAGAAATCTATGAAAA
GAAATCCTATGTGGCA
Found at i:22580145 original size:42 final size:42
Alignment explanation
Indices: 22579995--22580129 Score: 236
Period size: 42 Copynumber: 3.2 Consensus size: 42
22579985 ACCAGCACTT
*
22579995 AGCCTGCTAAACA-AATAGTCTGAAATTGTTTCACCGGCATTA
1 AGCCTGCTAGACATAA-AGTCTGAAATTGTTTCACCGGCATTA
22580037 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
*
22580079 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACTGGCATTA
1 AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
22580121 AGCCTGCTA
1 AGCCTGCTA
22580130 AGCGCTAAGC
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
42 88 0.98
43 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (42 bp):
AGCCTGCTAGACATAAAGTCTGAAATTGTTTCACCGGCATTA
Found at i:22585401 original size:35 final size:33
Alignment explanation
Indices: 22585344--22585502 Score: 117
Period size: 35 Copynumber: 4.7 Consensus size: 33
22585334 AATTGACAGA
* * *
22585344 TAAGACCATGGTTGGACCATGGCAATGTTTATATG
1 TAAGACCATAGTTGGGCTATGGCAAT-TTTA-ATG
*
22585379 TAACACCATAGTTGGGCTATGGC-ATTTTAATG
1 TAAGACCATAGTTGGGCTATGGCAATTTTAATG
* ** * * * **
22585411 AAAAGACCATAACTGGGTTATGGCACTTTGAACC
1 -TAAGACCATAGTTGGGCTATGGCAATTTTAATG
* *
22585445 TGAGACCA-AGTTGGACTATGGCAGTATTTATAA-G
1 TAAGACCATAGTTGGGCTATGGCA--ATTT-TAATG
22585479 TAAGACCATAGTTGGGCTATGGCA
1 TAAGACCATAGTTGGGCTATGGCA
22585503 TTCTGATGAT
Statistics
Matches: 94, Mismatches: 24, Indels: 12
0.72 0.18 0.09
Matches are distributed among these distances:
32 14 0.15
33 28 0.30
34 17 0.18
35 35 0.37
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (33 bp):
TAAGACCATAGTTGGGCTATGGCAATTTTAATG
Found at i:22585527 original size:100 final size:100
Alignment explanation
Indices: 22585354--22585537 Score: 287
Period size: 100 Copynumber: 1.8 Consensus size: 100
22585344 TAAGACCATG
* * *
22585354 GTTGGACCATGGCAATGTTTATATGTAACACCATAGTTGGGCTATGGCATTTTAATGAAAAGACC
1 GTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAATGAAAAGACC
22585419 ATAACTGGGTTATGGCACTTTGAACCTGAGACCAA
66 ATAACTGGGTTATGGCACTTTGAACCTGAGACCAA
* * * * * *
22585454 GTTGGACTATGGCAGTATTTATAAGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAATACC
1 GTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAATGAAAAGACC
22585519 ATAACTGGGTTATGGCACT
66 ATAACTGGGTTATGGCACT
22585538 ACGAATGTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 75 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (100 bp):
GTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAATGAAAAGACC
ATAACTGGGTTATGGCACTTTGAACCTGAGACCAA
Found at i:22585551 original size:100 final size:101
Alignment explanation
Indices: 22585344--22585553 Score: 278
Period size: 100 Copynumber: 2.1 Consensus size: 101
22585334 AATTGACAGA
* * * *
22585344 TAAGACCATGGTTGGACCATGGCAATGTTTATATGTAACACCATAGTTGGGCTATGGCATTTTAA
1 TAAGACCATAGTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAA
**
22585409 TGAAAAGACCATAACTGGGTTATGGCACTTTGAACC
66 TGAAAAGACCATAACTGGGTTATGGCACTACGAACC
* * * * *
22585445 TGAGACCA-AGTTGGACTATGGCAGTATTTATAAGTAAGACCATAGTTGGGCTATGGCATTCTGA
1 TAAGACCATAGTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAA
* * **
22585509 TGATAATACCATAACTGGGTTATGGCACTACGAATG
66 TGAAAAGACCATAACTGGGTTATGGCACTACGAACC
22585545 TAAGACCAT
1 TAAGACCAT
22585554 GACTAGGTCA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
100 85 0.92
101 7 0.08
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (101 bp):
TAAGACCATAGTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAA
TGAAAAGACCATAACTGGGTTATGGCACTACGAACC
Found at i:22589744 original size:54 final size:54
Alignment explanation
Indices: 22589664--22589770 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
22589654 TTTAGATGTC
*
22589664 TTTTTGTCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGCT
1 TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGCT
22589718 TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGC
1 TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGC
22589771 CATGTTCATC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (54 bp):
TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGCT
Found at i:22615870 original size:22 final size:21
Alignment explanation
Indices: 22615840--22615898 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
22615830 ATGCAATCGT
*
22615840 AGATTTGATATGTAATCTTAGG
1 AGATTTGATTTGTAATCTTA-G
*
22615862 AGATATGATTTTGTAAATCTTAG
1 AGATTTGA-TTTGT-AATCTTAG
22615885 AGATTTGATTTGTA
1 AGATTTGATTTGTA
22615899 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.03
22 12 0.38
23 12 0.38
24 7 0.22
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.44
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:22621013 original size:22 final size:21
Alignment explanation
Indices: 22620983--22621041 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
22620973 ATACAATCGT
*
22620983 AGATTTGATATGTAATCTTAGG
1 AGATTTGATTTGTAATCTTA-G
*
22621005 AGATATGATTTTGTAAATCTTAG
1 AGATTTGA-TTTGT-AATCTTAG
22621028 AGATTTGATTTGTA
1 AGATTTGATTTGTA
22621042 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.03
22 12 0.38
23 12 0.38
24 7 0.22
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.44
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:22621807 original size:15 final size:15
Alignment explanation
Indices: 22621787--22621819 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22621777 ATATAAAATA
22621787 TTAACTAAATATTAT
1 TTAACTAAATATTAT
*
22621802 TTAACTAAATATTGT
1 TTAACTAAATATTAT
22621817 TTA
1 TTA
22621820 CCAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (15 bp):
TTAACTAAATATTAT
Found at i:22623889 original size:16 final size:17
Alignment explanation
Indices: 22623868--22623901 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22623858 TTAAAATTAA
22623868 AATTTTATTA-TTTATT
1 AATTTTATTATTTTATT
*
22623884 AATTTTTTTATTTTATT
1 AATTTTATTATTTTATT
22623901 A
1 A
22623902 TTGTTGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTTTATTATTTTATT
Found at i:22630815 original size:50 final size:50
Alignment explanation
Indices: 22630746--22630890 Score: 152
Period size: 50 Copynumber: 2.9 Consensus size: 50
22630736 TATTGAGGTT
* * *
22630746 ATGAGAGGTCACACATAAGACCATGTCTCGGGCATA-GCATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATATCT-GGGCATATGCATTGGCACCGAG
* * * * *
22630796 ATGAGAGGTCCCCCGTAAGACAATATCT-GGCACATGACATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGCATATG-CATTGGCACCGAG
* *
22630846 ATGAGAGCTCCCATGTAAGACCATATCTGGG-ATATGGCATTGGCA
1 ATGAGAGGTCCCACGTAAGACCATATCTGGGCATAT-GCATTGGCA
22630891 TTTTAGGAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
48 5 0.06
49 1 0.01
50 68 0.88
51 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATATCTGGGCATATGCATTGGCACCGAG
Found at i:22631166 original size:20 final size:20
Alignment explanation
Indices: 22631141--22631179 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22631131 AGAGTTATTT
22631141 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
22631161 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
22631180 GAAGAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:22638359 original size:50 final size:50
Alignment explanation
Indices: 22638305--22638432 Score: 125
Period size: 50 Copynumber: 2.6 Consensus size: 50
22638295 TATTGAGGTT
* * * *
22638305 ATGAGAGGTCACAC-ATAAGACTATGTCTCGGACATAGCATTGGCACCGAG
1 ATGAGAGGTC-CACTATAAGACAATATCTAGGACATAGCATGGGCACCGAG
* * * *
22638355 ATGAGAGGTCCCCTGTAAGACAATATCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCACTATAAGACAATATCTAGGACATAGCATGGGCACCGAG
** *
22638405 ATGAGAACTCC-CATATAAGACCATATCT
1 ATGAGAGGTCCAC-TATAAGACAATATCT
22638433 GGGATCTGGC
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
49 3 0.05
50 61 0.95
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCACTATAAGACAATATCTAGGACATAGCATGGGCACCGAG
Found at i:22638444 original size:50 final size:50
Alignment explanation
Indices: 22638319--22638432 Score: 129
Period size: 50 Copynumber: 2.3 Consensus size: 50
22638309 GAGGTCACAC
* * * * * ** *
22638319 ATAAGACTATGTCTCGGACATAGCATTGGCACCGAGATGAGAGGTCCCCT
1 ATAAGACAATATCTAGGACATGGCATGGGCACCGAGATGAGAACTCCCAT
* *
22638369 GTAAGACAATATCTAGGACATGGCATGGGCACCGATATGAGAACTCCCAT
1 ATAAGACAATATCTAGGACATGGCATGGGCACCGAGATGAGAACTCCCAT
*
22638419 ATAAGACCATATCT
1 ATAAGACAATATCT
22638433 GGGATCTGGC
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (50 bp):
ATAAGACAATATCTAGGACATGGCATGGGCACCGAGATGAGAACTCCCAT
Found at i:22638725 original size:20 final size:20
Alignment explanation
Indices: 22638700--22638748 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
22638690 TGAGTTATTT
*
22638700 AAGTAAGCAAGTAATTAAAC
1 AAGTAAGCAAGTAACTAAAC
*
22638720 AAGTAAG-AGAGTAACTAAAG
1 AAGTAAGCA-AGTAACTAAAC
22638740 AAG-AAGCAA
1 AAGTAAGCAA
22638749 AGACCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.57, C:0.08, G:0.20, T:0.14
Consensus pattern (20 bp):
AAGTAAGCAAGTAACTAAAC
Found at i:22645095 original size:26 final size:26
Alignment explanation
Indices: 22645060--22645110 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
22645050 AATGTGAAAG
*
22645060 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
22645086 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
22645111 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:22645122 original size:103 final size:104
Alignment explanation
Indices: 22644982--22645204 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
22644972 TGTATATAAA
** * *
22644982 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
22645046 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
22645085 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
22645150 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
22645189 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
22645205 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.80
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:22645256 original size:71 final size:72
Alignment explanation
Indices: 22645123--22645274 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
22645113 TCATTGGTGG
* *
22645123 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
22645188 GAGGGGT
66 GAGGGGT
***
22645195 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
22645259 GAGGGGT
66 GAGGGGT
22645266 TGCTAAGTG
1 TGCTAAGTG
22645275 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:22650958 original size:104 final size:104
Alignment explanation
Indices: 22650778--22651001 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
22650768 TGTATATAAA
** * *
22650778 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
22650843 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
22650882 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
22650946 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
22650986 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
22651002 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:22651053 original size:71 final size:72
Alignment explanation
Indices: 22650920--22651071 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
22650910 TCATTGGTGG
* *
22650920 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
22650985 GAGGGGT
66 GAGGGGT
***
22650992 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
22651056 GAGGGGT
66 GAGGGGT
22651063 TGCTAAGTG
1 TGCTAAGTG
22651072 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:22653060 original size:40 final size:40
Alignment explanation
Indices: 22652975--22653215 Score: 225
Period size: 40 Copynumber: 6.0 Consensus size: 40
22652965 AATGTGTGAC
* * * *
22652975 CAGGGGCACCAAAGTACAAACAGGGGCAT-AAATGTGCATT
1 CAGGGGTACCAAAGTACAAACAAGGGCATGTAA-GTGCAAT
* ** * *
22653015 TAGGGGTACTGAAGTACAAACAAGGGCACGTAAGTGTAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCATGTAAGTGCAAT
* * *
22653055 CAGGGGTACCAAAGCACAAACAAGGGCATGTAACTGAAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCATGTAAGTGCAAT
* * *
22653095 CAGGGGTACCAAAGTACAAACAAGGGCATGCACGTCCAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCATGTAAGTGCAAT
* * * * *
22653135 CAGGGG-GCCGAAGTAGAAACAGGGGCAGGTAAGTGCAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCATGTAAGTGCAAT
* *** * *
22653174 TAGGGGTTTTAAAATACAAACAGGGGCATGTAAGTGCAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCATGTAAGTGCAAT
22653214 CA
1 CA
22653216 TTCAATAATT
Statistics
Matches: 160, Mismatches: 39, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
39 30 0.19
40 128 0.80
41 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.16
Consensus pattern (40 bp):
CAGGGGTACCAAAGTACAAACAAGGGCATGTAAGTGCAAT
Found at i:22654339 original size:21 final size:21
Alignment explanation
Indices: 22654313--22654368 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
22654303 ATTTTCTAAA
*
22654313 ATCACTTGACCTTGGGGTCTT
1 ATCACTTGACCTTAGGGTCTT
22654334 ATCACTTGACCTTAGGGTCTT
1 ATCACTTGACCTTAGGGTCTT
* *
22654355 ACCACTTGAACTTA
1 ATCACTTGACCTTA
22654369 ATAAATCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (21 bp):
ATCACTTGACCTTAGGGTCTT
Found at i:22670496 original size:182 final size:182
Alignment explanation
Indices: 22670189--22670547 Score: 637
Period size: 182 Copynumber: 2.0 Consensus size: 182
22670179 TTACGGCCGA
*
22670189 ATCTGACATGTCACATAAAAGTGTTTTACGAAACCAAAGTCTGATGGGGAAATTCGTCCAATAAA
1 ATCTGACATGTCACATAAAAGTGTTTGACGAAACCAAAGTCTGATGGGGAAATTCGTCCAATAAA
22670254 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
66 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
* * * *
22670319 ACGATTTGTTATTGTAGGTTTACAATTTGCTGAAGCTACTCCATATAAAAAT
131 ACGATTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATAAAAAT
* *
22670371 ATCTGACATGTCACATGAAAGTGTTTGACGAAACCAAAGTCTGATGGGGAAATTCGTTCAATAAA
1 ATCTGACATGTCACATAAAAGTGTTTGACGAAACCAAAGTCTGATGGGGAAATTCGTCCAATAAA
*
22670436 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAGGTTTTAAAAAACAAACCACACGGTAAA
66 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
*
22670501 ACGGTTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATA
131 ACGATTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATA
22670548 CTGATATCTT
Statistics
Matches: 168, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
182 168 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (182 bp):
ATCTGACATGTCACATAAAAGTGTTTGACGAAACCAAAGTCTGATGGGGAAATTCGTCCAATAAA
AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
ACGATTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATAAAAAT
Found at i:22671346 original size:27 final size:27
Alignment explanation
Indices: 22671312--22671423 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
22671302 GGGAATTACA
* *
22671312 GTAA-TTTACCCTTCGAGGGTATTTTG
1 GTAATTTTACCCATCGAGGGTATTTCG
22671338 GTAATTTTACCCATCGAGGGTATTTCG
1 GTAATTTTACCCATCGAGGGTATTTCG
* * * *
22671365 GTAATTTTATCTAGT-AAGGGTATTTCA
1 GTAATTTTACCCA-TCGAGGGTATTTCG
* * *
22671392 ATAATTTTACCCATTGGGGGTATTTCG
1 GTAATTTTACCCATCGAGGGTATTTCG
22671419 GTAAT
1 GTAAT
22671424 GTTAACGACA
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
26 5 0.07
27 64 0.91
28 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.41
Consensus pattern (27 bp):
GTAATTTTACCCATCGAGGGTATTTCG
Found at i:22681103 original size:182 final size:182
Alignment explanation
Indices: 22680796--22681154 Score: 637
Period size: 182 Copynumber: 2.0 Consensus size: 182
22680786 TTACGGCCGA
*
22680796 ATCTGACATGTCACATAAAAGTGTTTTACGAAACCAAAGTCTGATGGGGAAATTCGTCCAATAAA
1 ATCTGACATGTCACATAAAAGTGTTTGACGAAACCAAAGTCTGATGGGGAAATTCGTCCAATAAA
22680861 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
66 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
* * * *
22680926 ACGATTTGTTATTGTAGGTTTACAATTTGCTGAAGCTACTCCATATAAAAAT
131 ACGATTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATAAAAAT
* *
22680978 ATCTGACATGTCACATGAAAGTGTTTGACGAAACCAAAGTCTGATGGGGAAATTCGTTCAATAAA
1 ATCTGACATGTCACATAAAAGTGTTTGACGAAACCAAAGTCTGATGGGGAAATTCGTCCAATAAA
*
22681043 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAGGTTTTAAAAAACAAACCACACGGTAAA
66 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
*
22681108 ACGGTTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATA
131 ACGATTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATA
22681155 CTGATATCTT
Statistics
Matches: 168, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
182 168 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (182 bp):
ATCTGACATGTCACATAAAAGTGTTTGACGAAACCAAAGTCTGATGGGGAAATTCGTCCAATAAA
AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
ACGATTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATAAAAAT
Found at i:22681953 original size:27 final size:27
Alignment explanation
Indices: 22681919--22682030 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
22681909 GGGAATTACA
* *
22681919 GTAA-TTTACCCTTCGAGGGTATTTTG
1 GTAATTTTACCCATCGAGGGTATTTCG
22681945 GTAATTTTACCCATCGAGGGTATTTCG
1 GTAATTTTACCCATCGAGGGTATTTCG
* * * *
22681972 GTAATTTTATCTAGT-AAGGGTATTTCA
1 GTAATTTTACCCA-TCGAGGGTATTTCG
* * * *
22681999 ATAATTTTACCCATTGGGGGTATTTCA
1 GTAATTTTACCCATCGAGGGTATTTCG
22682026 GTAAT
1 GTAAT
22682031 GTTAACGACA
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
26 5 0.07
27 65 0.92
28 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (27 bp):
GTAATTTTACCCATCGAGGGTATTTCG
Found at i:22685348 original size:5 final size:5
Alignment explanation
Indices: 22685338--22685376 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
22685328 GCATTGGAAT
22685338 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
22685377 GAGCAGTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:22686698 original size:8 final size:8
Alignment explanation
Indices: 22686673--22686707 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
22686663 GTCAGGCATA
*
22686673 GAAAGAAT
1 GAAAAAAT
22686681 GAAGAAAAT
1 GAA-AAAAT
22686690 GAAAAAAT
1 GAAAAAAT
22686698 GAAAAAAT
1 GAAAAAAT
22686706 GA
1 GA
22686708 TTGGATGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (8 bp):
GAAAAAAT
Found at i:22686698 original size:17 final size:16
Alignment explanation
Indices: 22686673--22686707 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
22686663 GTCAGGCATA
*
22686673 GAAAGAATGAAGAAAAT
1 GAAAAAATGAA-AAAAT
22686690 GAAAAAATGAAAAAAT
1 GAAAAAATGAAAAAAT
22686706 GA
1 GA
22686708 TTGGATGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (16 bp):
GAAAAAATGAAAAAAT
Found at i:22696543 original size:27 final size:25
Alignment explanation
Indices: 22696513--22696581 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
22696503 CGTTCCGACC
22696513 CACAGCTCGTGTGAGCAGACCCATTTT
1 CACAGCTCGTGTGAGCAGACCCA--TT
** **
22696540 CACAGCTCGTGTGAGCATTCTGATT
1 CACAGCTCGTGTGAGCAGACCCATT
22696565 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
22696582 TACATGTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 19 0.50
27 19 0.50
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.26
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCAGACCCATT
Found at i:22703751 original size:29 final size:29
Alignment explanation
Indices: 22703705--22703832 Score: 175
Period size: 29 Copynumber: 4.4 Consensus size: 29
22703695 CCCTCAGATA
* * *
22703705 ATGAAAAAGGATAGCTTCGGTTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
* * *
22703734 ATGAAAAGAGATAACTTCAACTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
*
22703763 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
* *
22703792 ATAAAAAGGGATAGCTTCAGCTATCGATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
22703821 ATGAAAAGGGAT
1 ATGAAAAGGGAT
22703833 GGTGACGACC
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAAT
Found at i:22703799 original size:58 final size:58
Alignment explanation
Indices: 22703705--22703832 Score: 193
Period size: 58 Copynumber: 2.2 Consensus size: 58
22703695 CCCTCAGATA
* * *
22703705 ATGAAAAAGGATAGCTTCGGTTATCGAATATGAAAAGAGATAACTTCAACTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGAGATAACTTCAACTATCGAAT
* * * *
22703763 ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGGGATAGCTTCAGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGAGATAACTTCAACTATCGAAT
22703821 ATGAAAAGGGAT
1 ATGAAAAGGGAT
22703833 GGTGACGACC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.25
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGAGATAACTTCAACTATCGAAT
Found at i:22703852 original size:29 final size:29
Alignment explanation
Indices: 22703814--22703893 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
22703804 AGCTTCAGCT
*
22703814 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
*
22703843 ATC-AACTATGAAAAGAGATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
*
22703872 ATCGAATATTAAAAGGGATGGT
1 ATCGAATATGAAAAGGGATGGT
22703894 TTCAACTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 1 0.02
29 42 0.93
30 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.28, T:0.21
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:22703857 original size:58 final size:58
Alignment explanation
Indices: 22703727--22703861 Score: 157
Period size: 58 Copynumber: 2.3 Consensus size: 58
22703717 AGCTTCGGTT
* * *
22703727 ATCGAATATGAAAAGAGATAACTTCAACTATCGAATATGAAAAGGGATAGCTTCGGCT
1 ATCGAATATGAAAAGAGATAACTTCAACTATCGAATATGAAAAGGGATAGCTACGACC
* * * * * *
22703785 ATCGAATATAAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGGGAT-GGTGACGACC
1 ATCGAATATGAAAAGAGATAACTTCAACTATCGAATATGAAAAGGGATAGCT-ACGACC
22703843 ATC-AACTATGAAAAGAGAT
1 ATCGAA-TATGAAAAGAGAT
22703862 GGTGACGACC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 4 0.06
58 60 0.94
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (58 bp):
ATCGAATATGAAAAGAGATAACTTCAACTATCGAATATGAAAAGGGATAGCTACGACC
Found at i:22706792 original size:23 final size:22
Alignment explanation
Indices: 22706754--22706796 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
22706744 TTATTAATTC
22706754 TAATTATTCTAATTATTTTATT
1 TAATTATTCTAATTATTTTATT
*
22706776 TAATTAATTTTAATTATTTTA
1 TAATT-ATTCTAATTATTTTA
22706797 ATTATCTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TAATTATTCTAATTATTTTATT
Found at i:22707519 original size:7 final size:7
Alignment explanation
Indices: 22707507--22707557 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
22707497 ACAAAATTAA
*
22707507 AACTAAC
1 AACTAAG
22707514 AACTAAG
1 AACTAAG
22707521 AACTAAG
1 AACTAAG
22707528 AACT-A-
1 AACTAAG
*
22707533 AATTAA-
1 AACTAAG
*
22707539 AACTAAC
1 AACTAAG
22707546 AACTAAG
1 AACTAAG
22707553 AACTA
1 AACTA
22707558 GTCAAATTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 3 0.08
6 7 0.18
7 28 0.74
ACGTcount: A:0.59, C:0.18, G:0.06, T:0.18
Consensus pattern (7 bp):
AACTAAG
Found at i:22711460 original size:27 final size:27
Alignment explanation
Indices: 22711386--22711461 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
22711376 ATATGGACAA
* * *
22711386 TCCGCCATCATTCTCGCGGGTGGTGAG
1 TCCGCCAACATTCTCGCGGATGGAGAG
* * * * * *
22711413 TTCGTCAACATTATTGAGGATGGAGGG
1 TCCGCCAACATTCTCGCGGATGGAGAG
22711440 TCCGCCAACATTCTCGCGGATG
1 TCCGCCAACATTCTCGCGGATG
22711462 AACAATCTGC
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.26
Consensus pattern (27 bp):
TCCGCCAACATTCTCGCGGATGGAGAG
Found at i:22718425 original size:21 final size:21
Alignment explanation
Indices: 22718399--22718441 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22718389 TCAGAAGAAA
22718399 GCCCACACTATCCAGCTATTT
1 GCCCACACTATCCAGCTATTT
22718420 GCCCACACTATCCAGCTATTT
1 GCCCACACTATCCAGCTATTT
22718441 G
1 G
22718442 GTAGCTTTTA
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:0.23, C:0.37, G:0.12, T:0.28
Consensus pattern (21 bp):
GCCCACACTATCCAGCTATTT
Found at i:22728424 original size:79 final size:81
Alignment explanation
Indices: 22728288--22728472 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
22728278 TTGAATGATG
* *
22728288 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
22728352 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
22728367 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
22728429 ATTGTGCTAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
22728447 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22728473 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:22728486 original size:40 final size:40
Alignment explanation
Indices: 22728289--22728472 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
22728279 TGAATGATGT
* * * *
22728289 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
22728329 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
22728369 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
22728407 TCCGGGTTAAGTCCCGAAGGCAATTGTGCTAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
22728448 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
22728473 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:22728494 original size:79 final size:79
Alignment explanation
Indices: 22728341--22728505 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
22728331 GGACTAAGAT
* * **
22728341 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
22728406 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
22728420 CCGAAGGCAATTGTGCTAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
22728483 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
22728499 CCGAAGG
1 CCGAAGG
22728506 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:22730117 original size:50 final size:50
Alignment explanation
Indices: 22730060--22730159 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
22730050 TTACAGGAAG
22730060 CTCTTGGTACGCGGTTGCATTTTAGCACTGCATTTAATCCTCAGACTGAT
1 CTCTTGGTACGCGGTTGCATTTTAGCACTGCATTTAATCCTCAGACTGAT
22730110 CTCTTGGTACGCGGTTGCATTTTAGCACTGCATTTAATCCTCAGACTGAT
1 CTCTTGGTACGCGGTTGCATTTTAGCACTGCATTTAATCCTCAGACTGAT
22730160 GATCAGTCCG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (50 bp):
CTCTTGGTACGCGGTTGCATTTTAGCACTGCATTTAATCCTCAGACTGAT
Found at i:22738581 original size:25 final size:25
Alignment explanation
Indices: 22738543--22738593 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
22738533 TTGCTTTCCC
*
22738543 ACAGATTTGACTGAACATACATTGG
1 ACAGATTCGACTGAACATACATTGG
*
22738568 ACAGATTCGGCTGAACATACATTGG
1 ACAGATTCGACTGAACATACATTGG
22738593 A
1 A
22738594 GCCAATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (25 bp):
ACAGATTCGACTGAACATACATTGG
Found at i:22743098 original size:25 final size:25
Alignment explanation
Indices: 22743064--22743112 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
22743054 GCTTTTCTAC
22743064 AGATTCGGCTGAACATACATTGGAT
1 AGATTCGGCTGAACATACATTGGAT
* *
22743089 AGATTTGGCTGAACTTACATTGGA
1 AGATTCGGCTGAACATACATTGGA
22743113 GCCAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (25 bp):
AGATTCGGCTGAACATACATTGGAT
Found at i:22744177 original size:37 final size:37
Alignment explanation
Indices: 22744127--22744201 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
22744117 TGTGTTGATC
22744127 TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
1 TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
22744164 TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
1 TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
22744201 T
1 T
22744202 GACTTTTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (37 bp):
TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
Found at i:22747086 original size:35 final size:35
Alignment explanation
Indices: 22747040--22747123 Score: 150
Period size: 35 Copynumber: 2.4 Consensus size: 35
22747030 ATAAGTATTT
*
22747040 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCAACTTAGTTAATTA
*
22747075 AGTTGCTGGAATAAATTACTCAACTTAGTTAATTT
1 AGTTGCTGGAATAAATTACTCAACTTAGTTAATTA
22747110 AGTTGCTGGAATAA
1 AGTTGCTGGAATAA
22747124 TTTATTGTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (35 bp):
AGTTGCTGGAATAAATTACTCAACTTAGTTAATTA
Found at i:22751024 original size:28 final size:28
Alignment explanation
Indices: 22750961--22751296 Score: 602
Period size: 28 Copynumber: 12.0 Consensus size: 28
22750951 ATATTAAGTC
* *
22750961 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
22750988 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22751016 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
22751044 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22751072 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22751100 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
22751128 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22751156 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22751184 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
22751212 CGCACACTTAGTGCTATACAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22751240 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22751268 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22751296 C
1 C
22751297 AATACATCTC
Statistics
Matches: 298, Mismatches: 10, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
27 22 0.07
28 276 0.93
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:22759347 original size:28 final size:28
Alignment explanation
Indices: 22759281--22759532 Score: 434
Period size: 28 Copynumber: 9.0 Consensus size: 28
22759271 ATATTAAGTC
* *
22759281 CGCACACTCAGTGCTATATAATCAAA-T
1 CGCACACTTAGTGCTACATAATCAAACT
*
22759308 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
22759336 CGCACCCTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
22759364 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22759392 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22759420 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
22759448 CGCACACTTAGTGCTATACAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22759476 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22759504 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22759532 C
1 C
22759533 AATACATCTC
Statistics
Matches: 214, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
27 25 0.12
28 189 0.88
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:22762328 original size:10 final size:10
Alignment explanation
Indices: 22762315--22762339 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22762305 AAGTTTAGTT
22762315 TGTTTTAATG
1 TGTTTTAATG
22762325 TGTTTTAATG
1 TGTTTTAATG
22762335 TGTTT
1 TGTTT
22762340 GTTAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (10 bp):
TGTTTTAATG
Found at i:22762346 original size:74 final size:76
Alignment explanation
Indices: 22762223--22762372 Score: 214
Period size: 74 Copynumber: 2.0 Consensus size: 76
22762213 ATTAATTTAA
* * *
22762223 CTTATTAAGTCTAATATGTGTTTAAATGTGTTTTCATGTGTTTGTTAATAAATGCTTGTAGGTGA
1 CTTATTAAGTCTAATATGTGTTTAAATGTGTTTTAATGTGTTTGTTAATAAATACTTGCAGGTGA
22762288 CTATTTAGTTG
66 CTATTTAGTTG
* * * * *
22762299 CTTATTAAGTTTAGT-T-TGTTTTAATGTGTTTTAATGTGTTTGTTAATAAATATTTGCAGGTGC
1 CTTATTAAGTCTAATATGTGTTTAAATGTGTTTTAATGTGTTTGTTAATAAATACTTGCAGGTGA
22762362 CTATTTAGTTG
66 CTATTTAGTTG
22762373 GAATCAGTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
74 52 0.79
75 1 0.02
76 13 0.20
ACGTcount: A:0.24, C:0.06, G:0.19, T:0.51
Consensus pattern (76 bp):
CTTATTAAGTCTAATATGTGTTTAAATGTGTTTTAATGTGTTTGTTAATAAATACTTGCAGGTGA
CTATTTAGTTG
Found at i:22764382 original size:21 final size:18
Alignment explanation
Indices: 22764336--22764397 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
22764326 AAAGGAAGCG
*
22764336 AGAAAAAGAAAGTGAAAA
1 AGAAAAAGAGAGTGAAAA
22764354 AGAAAAAGAGAGTGAAAGA
1 AGAAAAAGAGAGTGAAA-A
*
22764373 ATGCAAAAAGAGATTGAAAA
1 A-G-AAAAAGAGAGTGAAAA
*
22764393 TGAAA
1 AGAAA
22764398 TAAAAAGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 19 0.50
19 3 0.08
20 2 0.05
21 14 0.37
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.10
Consensus pattern (18 bp):
AGAAAAAGAGAGTGAAAA
Found at i:22766136 original size:19 final size:19
Alignment explanation
Indices: 22766112--22766169 Score: 98
Period size: 19 Copynumber: 3.1 Consensus size: 19
22766102 AATAAATTTC
*
22766112 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
22766131 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
22766150 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
22766169 T
1 T
22766170 GCTGGAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:22766150 original size:9 final size:9
Alignment explanation
Indices: 22766117--22766169 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
22766107 ATTTCTCATC
22766117 TTAGTTAAT
1 TTAGTTAAT
* *
22766126 TGAGTTCAT
1 TTAGTTAAT
22766135 CTTAGTTAAT
1 -TTAGTTAAT
* *
22766145 TAAGTTCAT
1 TTAGTTAAT
22766154 CTTAGTTAAT
1 -TTAGTTAAT
22766164 TTAGTT
1 TTAGTT
22766170 GCTGGAATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (9 bp):
TTAGTTAAT
Found at i:22766285 original size:10 final size:10
Alignment explanation
Indices: 22766267--22766313 Score: 69
Period size: 10 Copynumber: 4.8 Consensus size: 10
22766257 TAAGTCTAAT
22766267 ATGTGTTTAA
1 ATGTGTTTAA
*
22766277 ATGTATTT-A
1 ATGTGTTTAA
22766286 ATGTGTTTAA
1 ATGTGTTTAA
*
22766296 ATGTGTTTTA
1 ATGTGTTTAA
22766306 ATGTGTTT
1 ATGTGTTT
22766314 GCTAATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
9 8 0.24
10 25 0.76
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (10 bp):
ATGTGTTTAA
Found at i:22766291 original size:19 final size:20
Alignment explanation
Indices: 22766267--22766313 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
22766257 TAAGTCTAAT
22766267 ATGTGTTTAAATGT-ATTTA
1 ATGTGTTTAAATGTGATTTA
*
22766286 ATGTGTTTAAATGTGTTTTA
1 ATGTGTTTAAATGTGATTTA
22766306 ATGTGTTT
1 ATGTGTTT
22766314 GCTAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (20 bp):
ATGTGTTTAAATGTGATTTA
Found at i:22766374 original size:74 final size:74
Alignment explanation
Indices: 22766282--22766420 Score: 233
Period size: 74 Copynumber: 1.9 Consensus size: 74
22766272 TTTAAATGTA
* *
22766282 TTTAATGTGTTTAAATGTGTTTTAATGTGTTTGCTAATAAATGCTTGCAGGTGACTATTTAGTTG
1 TTTAATGTGTTTAAATGTGTTTAAATGTGTTTGCTAATAAATACTTGCAGGTGACTATTTAGTTG
22766347 CTTATTAAG
66 CTTATTAAG
* * *
22766356 TTTAGTGTGTTTAAATGTGTTTAAATGTGTTTGTTAATAAATATTTGCAGGTGACTATTTAGTTG
1 TTTAATGTGTTTAAATGTGTTTAAATGTGTTTGCTAATAAATACTTGCAGGTGACTATTTAGTTG
22766421 GAATCAGTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.48
Consensus pattern (74 bp):
TTTAATGTGTTTAAATGTGTTTAAATGTGTTTGCTAATAAATACTTGCAGGTGACTATTTAGTTG
CTTATTAAG
Done.