Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 91 of 333
Found at i:28628510 original size:101 final size:101
Alignment explanation
Indices: 28628335--28628715 Score: 369
Period size: 101 Copynumber: 3.8 Consensus size: 101
28628325 ATCTAGTCCG
* * *
28628335 CATAGTAGCCTTCACTTAGTACTGA-ACATGCGACC--AACAATCTGGTACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACTTAGTACT-ACACATGCGACCTAAACTATCTGGTACACATAGTAGCCTAC
* * * * *
28628397 ACTTAGTACTACACACGTGA-TTGAAGTTGTCAGGTACG
65 ACTTAGTACTACACACGTGACCT-AA-CTATCTGGTACA
* * *
28628435 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AACTATCTGGTATACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACTATCTGGTACACATAGTAGCCTACA
* *
28628499 CTTAGTACTACACACGTGACCTAACCATCTGATACA
66 CTTAGTACTACACACGTGACCTAACTATCTGGTACA
* * * * ** * * ** *
28628535 CGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTATGCATAGTAGCTTAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AAACTATCTGGTACACATAGTAGCCTAC
* **
28628599 ACTTTGTACTACACATATGACCTAACTATCTGGTACA
65 ACTTAGTACTACACACGTGACCTAACTATCTGGTACA
* * *** *
28628636 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACCATCTTAAACACATAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AAACTATCTGGTACACATAGTAGCCTAC
*
28628701 ACATAGTACTACACA
65 ACTTAGTACTACACA
28628716 TGTGTTCTCA
Statistics
Matches: 229, Mismatches: 46, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
99 2 0.01
100 68 0.30
101 128 0.56
102 31 0.14
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (101 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACTATCTGGTACACATAGTAGCCTACA
CTTAGTACTACACACGTGACCTAACTATCTGGTACA
Found at i:28628565 original size:151 final size:151
Alignment explanation
Indices: 28628335--28628715 Score: 550
Period size: 151 Copynumber: 2.5 Consensus size: 151
28628325 ATCTAGTCCG
* * * * *
28628335 CATAGTAGCCTTCACTTAGTACTGA-ACATGCGACC-AACAATCTGGTACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACTTAGTACT-ACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCA
*
28628398 CTTAGTACTACACACGTGATTGAAGTTGTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACA
65 CTTAGTACTACACACGTGATTGAAGTTGTCAGGTACGCATAGTAGCCTACACTTAGTACTACACA
* *
28628463 TGCGACCTAACTATCTGGTATA
130 TACGACCTAACTATCTGGTACA
* *
28628485 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCAC
* * * *
28628550 TTAGTACTACACACGTGATTGAAGTTGTCGGGTATGCATAGTAGCTTACACTTTGTACTACACAT
66 TTAGTACTACACACGTGATTGAAGTTGTCAGGTACGCATAGTAGCCTACACTTAGTACTACACAT
*
28628615 ATGACCTAACTATCTGGTACA
131 ACGACCTAACTATCTGGTACA
* * *
28628636 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACCATCTTAAACACATAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGATACACGTAGTAGCCTGC
*
28628701 ACATAGTACTACACA
64 ACTTAGTACTACACA
28628716 TGTGTTCTCA
Statistics
Matches: 206, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
149 1 0.00
150 29 0.14
151 138 0.67
153 38 0.18
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (151 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCAC
TTAGTACTACACACGTGATTGAAGTTGTCAGGTACGCATAGTAGCCTACACTTAGTACTACACAT
ACGACCTAACTATCTGGTACA
Found at i:28628714 original size:26 final size:26
Alignment explanation
Indices: 28628632--28628716 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
28628622 AACTATCTGG
*
28628632 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
** **
28628658 TACACAT-GT-GACCTAAAACCATCTTA-
1 TACACATAGTAG-CCT-GCA-CATAGTAC
*
28628684 AACACATAGTAGCCTGCACATAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
28628710 TACACAT
1 TACACAT
28628717 GTGTTCTCAC
Statistics
Matches: 42, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
24 1 0.02
25 10 0.24
26 21 0.50
27 9 0.21
28 1 0.02
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACATAGTAC
Found at i:28635216 original size:50 final size:50
Alignment explanation
Indices: 28635096--28635474 Score: 311
Period size: 50 Copynumber: 7.6 Consensus size: 50
28635086 ATCTGGTACG
* * * ** **
28635096 CATAATAGCCTGCACTTAGTACTACACATGCGACC-AAAAATCCGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACA
* * *
28635145 CGTAGCAGCCTGCA-TTAGTACTACACACATGACCTAACCATTTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACA
* * * * * *
28635194 CATAGTAGCCTGCACTTAGTACTACAAATGTGACCTAACTATCTGGTAGA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACA
** * * *
28635244 TGTAGTAGCGTACACTTAGTACTATACACGTGACCTAACCATTTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACA
* * * * * *
28635294 CGTGGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA--GTTGTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AACCATT-T--GATACA
* * * * *
28635345 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACA
* * * *
28635395 CGTAGTAGCCTACACTTAGTACTACACACGTAACCTAAAACCATCTT-AAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCAT-TTGATACA
* *
28635447 CATGGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
28635475 TGTGTTCTCA
Statistics
Matches: 258, Mismatches: 60, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
48 19 0.07
49 35 0.14
50 133 0.52
51 35 0.14
52 34 0.13
53 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACA
Found at i:28635380 original size:151 final size:152
Alignment explanation
Indices: 28635194--28635474 Score: 440
Period size: 151 Copynumber: 1.8 Consensus size: 152
28635184 ATTTGATACA
* * * *
28635194 CATAGTAGCCTGCACTTAGTACTACAAATGTGACCTAACTATCTGGTAGATGTAGTAGCGTACAC
1 CATAGTAGCCTGCACTTAGTACTACAAATGCGACCTAACTATCTGGTACACGTAGTAGCCTACAC
* * * * *
28635259 TTAGTACTATACACGTGACCT-AACCAT-TTGATACACGTGGTAGCCTGCACTTAGTACTACACA
66 TTAGTACTACACACGTAACCTAAACCATCTT-AAACACATGGTAGCCTGCACATAGTACTACACA
28635322 CGTGATTGAAGTTGTCGGGTACG
130 CGTGATTGAAGTTGTCGGGTACG
*
28635345 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACTTAGTACTACAAATGCGACCTAACTATCTGGTACACGTAGTAGCCTACAC
28635410 TTAGTACTACACACGTAACCTAAAACCATCTTAAACACATGGTAGCCTGCACATAGTACTACACA
66 TTAGTACTACACACGTAACCT-AAACCATCTTAAACACATGGTAGCCTGCACATAGTACTACACA
28635475 TGTGTTCTCA
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
151 79 0.68
153 36 0.31
154 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (152 bp):
CATAGTAGCCTGCACTTAGTACTACAAATGCGACCTAACTATCTGGTACACGTAGTAGCCTACAC
TTAGTACTACACACGTAACCTAAACCATCTTAAACACATGGTAGCCTGCACATAGTACTACACAC
GTGATTGAAGTTGTCGGGTACG
Found at i:28635395 original size:101 final size:99
Alignment explanation
Indices: 28635101--28635432 Score: 339
Period size: 101 Copynumber: 3.3 Consensus size: 99
28635091 GTACGCATAA
* * ** * * * *
28635101 TAGCCTGCACTTAGTACTACACATGCGACC-AAAAATCCGATACACGTAGCAGCCTGCA-TTAGT
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACTATCGGGTAGA-GTAGTAGCCTGCACTTAGT
* *
28635164 ACTACACACATGACCTAACCATTTGATACACATAG
65 ACTACACACGTGACCTAACCATTTGATACACGTAG
* * * * *
28635199 TAGCCTGCACTTAGTACTACAAATGTGACCTAACTATCTGGTAGATGTAGTAGCGTACACTTAGT
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACTATCGGGTAGA-GTAGTAGCCTGCACTTAGT
* *
28635264 ACTATACACGTGACCTAACCATTTGATACACGTGG
65 ACTACACACGTGACCTAACCATTTGATACACGTAG
* * *
28635299 TAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTACGCA-TAGTAGCCTGCACTT
1 TAGCCTGCACTTAGTACTACACACGTGACCT-AA-CTATCGGGTA-G-AGTAGTAGCCTGCACTT
* * * * *
28635362 AGTACTACACATGCGACCTAACTATCTGGTACACGTAG
62 AGTACTACACACGTGACCTAACCATTTGATACACGTAG
* *
28635400 TAGCCTACACTTAGTACTACACACGTAACCTAA
1 TAGCCTGCACTTAGTACTACACACGTGACCTAA
28635433 AACCATCTTA
Statistics
Matches: 194, Mismatches: 33, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
98 28 0.14
99 20 0.10
100 64 0.33
101 79 0.41
102 2 0.01
103 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGCCTGCACTTAGTACTACACACGTGACCTAACTATCGGGTAGAGTAGTAGCCTGCACTTAGTA
CTACACACGTGACCTAACCATTTGATACACGTAG
Found at i:28637127 original size:29 final size:28
Alignment explanation
Indices: 28637080--28637137 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
28637070 TAGAACTTTT
28637080 TCATGGATATCAAATAATCATAAAATAA
1 TCATGGATATCAAATAATCATAAAATAA
*
28637108 TCATGGATCATTAAATAATCATAAAATAA
1 TCATGGAT-ATCAAATAATCATAAAATAA
28637137 T
1 T
28637138 TATTTCTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (28 bp):
TCATGGATATCAAATAATCATAAAATAA
Found at i:28648776 original size:10 final size:10
Alignment explanation
Indices: 28648761--28648787 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
28648751 ACTAAAATCC
28648761 TAATTAAGCT
1 TAATTAAGCT
28648771 TAATTAAGCT
1 TAATTAAGCT
28648781 TAATTAA
1 TAATTAA
28648788 TCATTTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (10 bp):
TAATTAAGCT
Found at i:28655135 original size:26 final size:23
Alignment explanation
Indices: 28655073--28655135 Score: 56
Period size: 26 Copynumber: 2.5 Consensus size: 23
28655063 GAAACTAAAG
*
28655073 AATTTAA-TTTTTTTTATTTATT
1 AATTTAACTATTTTTTATTTATT
28655095 AATTTGATACTTATTTTTTATTTGAGTT
1 AATTT-A-AC-TATTTTTTATTT-A-TT
28655123 AAATTTAACTATT
1 -AATTTAACTATT
28655136 AATTTTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
22 5 0.15
23 1 0.03
24 1 0.03
26 15 0.45
27 3 0.09
28 3 0.09
29 5 0.15
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (23 bp):
AATTTAACTATTTTTTATTTATT
Found at i:28655293 original size:9 final size:9
Alignment explanation
Indices: 28655275--28655328 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 9
28655265 ATTAAAAAAT
28655275 AATT-TAAA
1 AATTATAAA
28655283 AATTATAAA
1 AATTATAAA
28655292 AATTA-AAA
1 AATTATAAA
28655300 AGA-TATATAA
1 A-ATTATA-AA
28655310 AATTGATAAA
1 AATT-ATAAA
28655320 AATTA-AAA
1 AATTATAAA
28655328 A
1 A
28655329 TAAAGTAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
8 14 0.35
9 13 0.32
10 10 0.25
11 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (9 bp):
AATTATAAA
Found at i:28655310 original size:28 final size:28
Alignment explanation
Indices: 28655265--28655328 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
28655255 TATATATCAC
*
28655265 ATTAAAAAATAATTTAAAAATT-ATAAAA
1 ATTAAAAAATAATAT-AAAATTGATAAAA
28655293 ATTAAAAAGAT-ATATAAAATTGATAAAA
1 ATTAAAAA-ATAATATAAAATTGATAAAA
28655321 ATTAAAAA
1 ATTAAAAA
28655329 TAAAGTAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 6 0.18
28 25 0.76
29 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (28 bp):
ATTAAAAAATAATATAAAATTGATAAAA
Found at i:28663341 original size:4 final size:4
Alignment explanation
Indices: 28663334--28663369 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
28663324 TTAATTTAGA
28663334 AATT AATT AATT AATTT AA-T AATT AATT AATT AATT
1 AATT AATT AATT AA-TT AATT AATT AATT AATT AATT
28663370 TTTTTAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
4 23 0.77
5 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:28663347 original size:20 final size:20
Alignment explanation
Indices: 28663324--28663370 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
28663314 AAAAATTTAT
28663324 TTAATTTAGA-AATTAATTAA
1 TTAATTTA-ATAATTAATTAA
28663344 TTAATTTAATAATTAATTAA
1 TTAATTTAATAATTAATTAA
28663364 TTAATTT
1 TTAATTT
28663371 TTTTAAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTAATTTAATAATTAATTAA
Found at i:28667222 original size:22 final size:20
Alignment explanation
Indices: 28667182--28667222 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
28667172 CGTACCCTAA
*
28667182 TTTTTGAAATTGTTGATGAT
1 TTTTTGAAATTATTGATGAT
28667202 TTTTTGAAATTCCATTGATGA
1 TTTTTGAAATT--ATTGATGA
28667223 ATCCATGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
22 7 0.39
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.51
Consensus pattern (20 bp):
TTTTTGAAATTATTGATGAT
Found at i:28667895 original size:43 final size:42
Alignment explanation
Indices: 28667847--28667998 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 42
28667837 ATAGAGTTAC
*
28667847 GATTACATGTAAGACCATGTCTGGGACATTGGTATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGTATCGTATT-T
* * *
28667890 GATTACGTGTAAGACCATGTCTGGGACATTGGTATCGTTAATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGTATCG-TATTT
* * * * * *
28667933 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGTATCG-TATTT
* *
28667976 GATAACATGTAAGACCATATCTG
1 GATTACATGTAAGACCATGTCTG
28667999 AGATATGGTA
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 88 0.97
44 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGTATCGTATTT
Found at i:28671968 original size:22 final size:22
Alignment explanation
Indices: 28671940--28671984 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
28671930 TGCCAAAGAC
28671940 TGCTTTTAGAATGAGGTACGGG
1 TGCTTTTAGAATGAGGTACGGG
28671962 TGCTTTTAGAATGAGGTACGGG
1 TGCTTTTAGAATGAGGTACGGG
28671984 T
1 T
28671985 ATTATGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.36, T:0.33
Consensus pattern (22 bp):
TGCTTTTAGAATGAGGTACGGG
Found at i:28674425 original size:34 final size:34
Alignment explanation
Indices: 28674382--28674454 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
28674372 CGTATCAGCA
*
28674382 ACAGT-TCAGTTTCAGT-TAGGGCCTTAGCCCAAT
1 ACAGTATCAGTATCAGTGT-GGGCCTTAGCCCAAT
28674415 ACAGTATCAGTATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTATCAGTATCAGTGTGGGCCTTAGCCCAAT
*
28674449 TCAGTA
1 ACAGTA
28674455 GTGGTCACAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 5 0.14
34 30 0.83
35 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (34 bp):
ACAGTATCAGTATCAGTGTGGGCCTTAGCCCAAT
Found at i:28680564 original size:9 final size:9
Alignment explanation
Indices: 28680550--28680578 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
28680540 TTACCTCAAC
28680550 TTTTACAAT
1 TTTTACAAT
28680559 TTTTACAAT
1 TTTTACAAT
28680568 TTTTACAAT
1 TTTTACAAT
28680577 TT
1 TT
28680579 AGTCCCTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTTACAAT
Found at i:28686926 original size:40 final size:40
Alignment explanation
Indices: 28686725--28686918 Score: 300
Period size: 40 Copynumber: 4.9 Consensus size: 40
28686715 ATTCGGATTG
28686725 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
28686764 ATATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
28686804 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
28686844 ATAACCGGGCTAAGTCCCAAAGGCAATTGTGCGTGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
28686884 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
28686919 AAGCTATATC
Statistics
Matches: 139, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 12 0.09
40 127 0.91
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:28692315 original size:40 final size:40
Alignment explanation
Indices: 28692220--28692439 Score: 223
Period size: 40 Copynumber: 5.5 Consensus size: 40
28692210 ACCCAAGTAT
** * *
28692220 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
28692258 CTTCGGGTCTTAGCCCGGATATTGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
28692298 CTTTGGGACTTATCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
28692338 CTTC-AGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
28692377 CTTCGGGTTTTGGCCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
28692418 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
28692440 CATTCGAATA
Statistics
Matches: 149, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 46 0.31
40 62 0.42
41 29 0.19
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:28692375 original size:79 final size:80
Alignment explanation
Indices: 28692270--28692421 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 80
28692260 TCGGGTCTTA
* * * * * *
28692270 GCCCGGATATTGTCACTAGCATAAATGCCTTTGGGACTTATCCCGGATATAGTCGC-TAGCACAA
1 GCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAA
*
28692334 ATGCCTTCAGTTTTG
66 AAGCCTTCAGTTTTG
* ** *
28692349 GCCCGGATATAGTAACTCGCACAAATGCCTTCGGGTTTTGGCCCGGATATAGTCACTTAGCACAA
1 GCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAA
28692414 AAGCCTTC
66 AAGCCTTC
28692422 GGGACTTAGC
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
79 46 0.75
80 15 0.25
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (80 bp):
GCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAA
AAGCCTTCAGTTTTG
Found at i:28697136 original size:29 final size:29
Alignment explanation
Indices: 28697094--28697154 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
28697084 TGTGGTGATG
28697094 AGGCATGAAGATGAGTCAAGTTTCGGCTA
1 AGGCATGAAGATGAGTCAAGTTTCGGCTA
28697123 AGGCATGAAGATGAGTCAAGTTTCGGCTA
1 AGGCATGAAGATGAGTCAAGTTTCGGCTA
28697152 AGG
1 AGG
28697155 TGGATTTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.13, G:0.33, T:0.23
Consensus pattern (29 bp):
AGGCATGAAGATGAGTCAAGTTTCGGCTA
Found at i:28698308 original size:40 final size:40
Alignment explanation
Indices: 28698027--28698300 Score: 451
Period size: 40 Copynumber: 6.9 Consensus size: 40
28698017 ATTCGGATTG
*
28698027 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
28698066 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
28698106 ATAACCAGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
28698146 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
28698186 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
28698226 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
28698266 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAG
28698301 AAGCTATATT
Statistics
Matches: 221, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
39 13 0.06
40 208 0.94
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:28704554 original size:28 final size:28
Alignment explanation
Indices: 28704489--28704639 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
28704479 GAGATTGGCG
* * * *
28704489 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
* *
28704518 CTAAATGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
28704546 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
28704574 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
28704602 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
28704629 CTGAGTGTGCG
1 CTAAGTGTGCG
28704640 GACTTAATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 24 0.22
28 73 0.66
29 14 0.13
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:28712690 original size:28 final size:28
Alignment explanation
Indices: 28712625--28712775 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
28712615 GAGATTGGCG
* * * *
28712625 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
28712654 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
28712682 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
28712710 CTAAGTGTGCAAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
28712738 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
28712765 CTGAGTGTGCG
1 CTAAGTGTGCG
28712776 GACTTAATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 24 0.22
28 72 0.65
29 15 0.14
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:28726384 original size:101 final size:101
Alignment explanation
Indices: 28726228--28726439 Score: 227
Period size: 101 Copynumber: 2.1 Consensus size: 101
28726218 CATGGCCCTG
* *
28726228 CCATGGTCTTACATTAGTAGTGCCATAACCCAGTTATGGTTTTATTGTCAGAATGCCATAGCCCA
1 CCATGGTCTTACATTAGAAGTGCCATAACCCAGTTATGGTTTTATTGTCAAAATGCCATAGCCCA
* * **
28726293 ACTATGGTTTTACATATAATTACTGTC-ATGGTCCAA
66 ACTATCGTCTTACATATAAACACTG-CAATGGTCCAA
* *
28726329 CCATGGTCTTACGTTCA-AAGTGCTATAACCCAGTTATGGTCTTTCCA-T-T-AAAATGCCATAG
1 CCATGGTCTTACATT-AGAAGTGCCATAACCCAGTTATGGT-TTT--ATTGTCAAAATGCCATAG
** * * *
28726390 CGTAGCTATCGTCTTATATGTAAACACTGCAATGGTCCAA
62 CCCAACTATCGTCTTACATATAAACACTGCAATGGTCCAA
28726430 CCATGGTCTT
1 CCATGGTCTT
28726440 TTTCGTCAAT
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
100 1 0.01
101 85 0.91
102 5 0.05
103 1 0.01
104 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (101 bp):
CCATGGTCTTACATTAGAAGTGCCATAACCCAGTTATGGTTTTATTGTCAAAATGCCATAGCCCA
ACTATCGTCTTACATATAAACACTGCAATGGTCCAA
Found at i:28729412 original size:22 final size:22
Alignment explanation
Indices: 28729385--28729428 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
28729375 TATAACTTTG
28729385 TTGCTTTGATGCTGAAATGAAT
1 TTGCTTTGATGCTGAAATGAAT
28729407 TTGCTTTGATGCTGAAATGAAT
1 TTGCTTTGATGCTGAAATGAAT
28729429 CACTTTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (22 bp):
TTGCTTTGATGCTGAAATGAAT
Found at i:28730337 original size:115 final size:115
Alignment explanation
Indices: 28730135--28730365 Score: 435
Period size: 115 Copynumber: 2.0 Consensus size: 115
28730125 ACTGATAGGA
*
28730135 AAGAGCTGATCACGGTACTGCTCTTTCCCATGGATGATCCACCTTGAATGATAGTCATTCCACAC
1 AAGAGCTGATCACAGTACTGCTCTTTCCCATGGATGATCCACCTTGAATGATAGTCATTCCACAC
28730200 CAATTTCATTTGTTGGCCTTTGCTATAGTGTTGAAATCAAGGATTCACAT
66 CAATTTCATTTGTTGGCCTTTGCTATAGTGTTGAAATCAAGGATTCACAT
*
28730250 AAGAGCTGATCACAGTACTGCTCTTTCCCATGGATGATCCACCTTGAATGATGGTCATTCCACAC
1 AAGAGCTGATCACAGTACTGCTCTTTCCCATGGATGATCCACCTTGAATGATAGTCATTCCACAC
*
28730315 CAATTTCATTTGTTGGCCTTTGCTATAGTGTTGAAATCAAGGATTTACAT
66 CAATTTCATTTGTTGGCCTTTGCTATAGTGTTGAAATCAAGGATTCACAT
28730365 A
1 A
28730366 TTCCACCTTG
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (115 bp):
AAGAGCTGATCACAGTACTGCTCTTTCCCATGGATGATCCACCTTGAATGATAGTCATTCCACAC
CAATTTCATTTGTTGGCCTTTGCTATAGTGTTGAAATCAAGGATTCACAT
Found at i:28733832 original size:55 final size:56
Alignment explanation
Indices: 28733771--28733980 Score: 191
Period size: 55 Copynumber: 3.8 Consensus size: 56
28733761 ATTAGGGTTT
* * *
28733771 AAGGATACCATATAAGATCATACCAAGGCATGACAATTGGTAAGGTTT-T-TAAGGC-
1 AAGGATACCATGTAAGATCATGCCAAGGCATGGC-ATTGGTAA-GTTTCTATAAGGCA
* * *
28733826 AAGGATATCATGTAAGATCATGCCAAGACATGGCATTGATAAGTTTCTATAAGGCA
1 AAGGATACCATGTAAGATCATGCCAAGGCATGGCATTGGTAAGTTTCTATAAGGCA
* * * * *
28733882 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TT-GATAAGAC-
1 AAGGATACCATGTAAGATCATGCCAAGGCATGGCATTGGTAAGTTTCTATAAGGCA
* * * * * * *
28733934 AATGATGCCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTC
1 AAGGATACCATGTAAGATCATGCCAAGGCATGGCATTGGTAAGTTTC
28733981 AAAAGGATAC
Statistics
Matches: 128, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
52 3 0.02
53 42 0.33
54 12 0.09
55 67 0.52
56 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (56 bp):
AAGGATACCATGTAAGATCATGCCAAGGCATGGCATTGGTAAGTTTCTATAAGGCA
Found at i:28733954 original size:53 final size:54
Alignment explanation
Indices: 28733834--28733978 Score: 166
Period size: 53 Copynumber: 2.7 Consensus size: 54
28733824 GCAAGGATAT
* * * * *
28733834 CATGTAAGATCATGCCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAG-TTCGATAAGACAAAGATCC
* * * *
28733889 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-GATAAGACAATGATGC
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCGATAAGACAAAGATCC
* * *
28733942 CATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
28733979 TCAAAAGGAT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 43 0.57
54 2 0.03
55 31 0.41
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCGATAAGACAAAGATCC
Found at i:28745814 original size:28 final size:28
Alignment explanation
Indices: 28745774--28745912 Score: 142
Period size: 28 Copynumber: 5.0 Consensus size: 28
28745764 ATCCACATAC
* *
28745774 CTTT-ATATAGCCCATTAGGCCCAATCT
1 CTTTCATATGGCCCATTAGGCCCAATCA
28745801 CTTTCATATGGCCCATTAGGCCCAAATCA
1 CTTTCATATGGCCCATTAGGCCC-AATCA
* *
28745830 CATTCATACGG-CCATTAGGCCCAATCA
1 CTTTCATATGGCCCATTAGGCCCAATCA
* *
28745857 CATTT-GTGTGGCCCATTAGGCCCAAATCA
1 C-TTTCATATGGCCCATTAGGCCC-AATCA
** *
28745886 AATTCATACGG-CCATTAGGCCCAATCA
1 CTTTCATATGGCCCATTAGGCCCAATCA
28745913 TATTTACAGT
Statistics
Matches: 93, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
27 18 0.19
28 54 0.58
29 21 0.23
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (28 bp):
CTTTCATATGGCCCATTAGGCCCAATCA
Found at i:28745846 original size:56 final size:56
Alignment explanation
Indices: 28745785--28745918 Score: 207
Period size: 56 Copynumber: 2.4 Consensus size: 56
28745775 TTTATATAGC
* *
28745785 CCATTAGGCCCAATCTC-TTTCATATGGCCCATTAGGCCCAAATCACATTCATACGG
1 CCATTAGGCCCAATCACATTT-ATATGGCCCATTAGGCCCAAATCAAATTCATACGG
* *
28745841 CCATTAGGCCCAATCACATTTGTGTGGCCCATTAGGCCCAAATCAAATTCATACGG
1 CCATTAGGCCCAATCACATTTATATGGCCCATTAGGCCCAAATCAAATTCATACGG
*
28745897 CCATTAGGCCCAATCATATTTA
1 CCATTAGGCCCAATCACATTTA
28745919 CAGTTATGCT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
56 68 0.96
57 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (56 bp):
CCATTAGGCCCAATCACATTTATATGGCCCATTAGGCCCAAATCAAATTCATACGG
Found at i:28747387 original size:16 final size:16
Alignment explanation
Indices: 28747363--28747394 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
28747353 AAAATTGAGA
28747363 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
28747379 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
28747395 GTGTTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:28753649 original size:28 final size:28
Alignment explanation
Indices: 28753618--28753729 Score: 172
Period size: 28 Copynumber: 4.0 Consensus size: 28
28753608 AGGCCCAATC
*
28753618 TGGCCCATTCGGCCCAATCACATTTATA
1 TGGCCCATTAGGCCCAATCACATTTATA
*
28753646 TGGCCCATTAGGCCCAAATCACATTCATA
1 TGGCCCATTAGGCCC-AATCACATTTATA
* *
28753675 CGG-CCATTAGGCCCAATCACATTTATG
1 TGGCCCATTAGGCCCAATCACATTTATA
28753702 TGGCCCATTAGGCCCAATCACATTTATA
1 TGGCCCATTAGGCCCAATCACATTTATA
28753730 GTTATGCTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 13 0.17
28 48 0.64
29 14 0.19
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTTATA
Found at i:28756654 original size:43 final size:42
Alignment explanation
Indices: 28756606--28756740 Score: 107
Period size: 43 Copynumber: 3.2 Consensus size: 42
28756596 TTGGACGTGA
* *
28756606 TCTTACATATAACTCAATATCGATGCCTCTGTCCCAGACAGGG
1 TCTTACATA-AACTCAATATCGATGCCTATGTCCCAGACACGG
* * * *
28756649 TCTTACACGAAA-TCAAATAT-GATGCCGATGTCCCAGAAATGG
1 TCTTACA-TAAACTC-AATATCGATGCCTATGTCCCAGACACGG
* * *
28756691 TCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACACGG
1 TC-T-TACATAAA-CTCAATATCGATGCCTATGTCCCAGACACGG
28756734 TCTTACA
1 TCTTACA
28756741 CGATTCTCAG
Statistics
Matches: 72, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
41 3 0.04
42 25 0.35
43 38 0.53
44 4 0.06
45 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (42 bp):
TCTTACATAAACTCAATATCGATGCCTATGTCCCAGACACGG
Found at i:28756682 original size:42 final size:42
Alignment explanation
Indices: 28756621--28756743 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 42
28756611 CATATAACTC
* *
28756621 AATATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAATC-A
1 AATAT-GATGCC-GTGTCCCAGACACGGTCTTACACGAAATCTA
* * * *
28756664 AATATGATGCCGATGTCCCAGAAATGGTCTTATACGTAAATCTC
1 AATATGATGCCG-TGTCCCAGACACGGTCTTACACG-AAATCTA
* *
28756708 AAT-CGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 AATATGATGCC-GTGTCCCAGACACGGTCTTACACGA
28756744 TTCTCAGACA
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
42 27 0.41
43 35 0.53
44 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (42 bp):
AATATGATGCCGTGTCCCAGACACGGTCTTACACGAAATCTA
Found at i:28756956 original size:8 final size:8
Alignment explanation
Indices: 28756943--28756967 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
28756933 ACGGAACGAG
28756943 TCGACTAT
1 TCGACTAT
28756951 TCGACTAT
1 TCGACTAT
28756959 TCGACTAT
1 TCGACTAT
28756967 T
1 T
28756968 TTAGACTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (8 bp):
TCGACTAT
Found at i:28761201 original size:42 final size:42
Alignment explanation
Indices: 28761143--28761270 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 42
28761133 TAGGGTTATT
* *
28761143 GAGATTATGTGTAAGACCATATCTGGGATATGGCATTGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATAC
* *
28761185 GAGACTT-CGTGTAAGACCATAGCTGGGTTATTGGCATTGATAC
1 GAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATTGATAC
* * * * *
28761228 GAGATTACATGTAAGACCATATTTGAGATATAGCATTGGTAC
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATAC
28761270 G
1 G
28761271 GTACTGTGTG
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 37 0.51
43 35 0.49
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.31
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATAC
Found at i:28761241 original size:43 final size:42
Alignment explanation
Indices: 28761143--28761248 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 42
28761133 TAGGGTTATT
* * *
28761143 GAGATTATGTGTAAGACCATATCTGGGATATGGCATTGATAT
1 GAGATTACGTGTAAGACCATAGCTGGGATATGGCATTGATAC
*
28761185 GAGACTT-CGTGTAAGACCATAGCTGGGTTATTGGCATTGATAC
1 GAGA-TTACGTGTAAGACCATAGCTGGGATA-TGGCATTGATAC
*
28761228 GAGATTACATGTAAGACCATA
1 GAGATTACGTGTAAGACCATA
28761249 TTTGAGATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
42 26 0.46
43 30 0.54
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATAGCTGGGATATGGCATTGATAC
Found at i:28763242 original size:17 final size:19
Alignment explanation
Indices: 28763196--28763242 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 19
28763186 CGTTAAAGGT
28763196 CGAT-AAATGA-AAGTGCC
1 CGATCAAATGATAAGTGCC
*
28763213 CGATC-AATTATAA-TGCC
1 CGATCAAATGATAAGTGCC
28763230 CGA-CAAATGATAA
1 CGATCAAATGATAA
28763243 ACGATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.04
17 22 0.88
18 2 0.08
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (19 bp):
CGATCAAATGATAAGTGCC
Found at i:28765089 original size:20 final size:20
Alignment explanation
Indices: 28765064--28765101 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
28765054 CTGCACCTTG
28765064 GAAAAATTTTAAAAAGTCAT
1 GAAAAATTTTAAAAAGTCAT
*
28765084 GAAAAATTTTCAAAAGTC
1 GAAAAATTTTAAAAAGTC
28765102 TCGATTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.29
Consensus pattern (20 bp):
GAAAAATTTTAAAAAGTCAT
Found at i:28775817 original size:22 final size:22
Alignment explanation
Indices: 28775770--28775819 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
28775760 CTCTAAGGAC
* *
28775770 TATGCGGTCTGAGCTAATGAGT
1 TATGTGGTCTAAGCTAATGAGT
*
28775792 TATGTGGTCTAAGCTCATGA-T
1 TATGTGGTCTAAGCTAATGAGT
28775813 ATATGTG
1 -TATGTG
28775820 ACACATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (22 bp):
TATGTGGTCTAAGCTAATGAGT
Found at i:28784609 original size:23 final size:23
Alignment explanation
Indices: 28784583--28784630 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
28784573 TAGAAGTATG
*
28784583 ACAATGAATTGATAGCAAAGTGA
1 ACAATGAATTGATAGCAAAGCGA
28784606 ACAATGAATTGATAGCAAAGCGA
1 ACAATGAATTGATAGCAAAGCGA
28784629 AC
1 AC
28784631 TATGTGTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.19
Consensus pattern (23 bp):
ACAATGAATTGATAGCAAAGCGA
Found at i:28786677 original size:27 final size:29
Alignment explanation
Indices: 28786638--28786693 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
28786628 GTTTTTGATG
*
28786638 AAATCGAGCTTTT-TGGACTAAATTGTGC
1 AAATCGAGCTTTTAAGGACTAAATTGTGC
*
28786666 AAAT-GAGGTTTTGAAGGACTAAATTGTG
1 AAATCGAGCTTTT-AAGGACTAAATTGTG
28786694 AATTAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.29
28 4 0.17
29 13 0.54
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (29 bp):
AAATCGAGCTTTTAAGGACTAAATTGTGC
Found at i:28797877 original size:46 final size:46
Alignment explanation
Indices: 28797824--28797950 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 46
28797814 TTTGGGCATT
* * *
28797824 CGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGAGAATGTC
1 CGAGCTCGTTGAGTCGAGTACGAGTTCACTTATGGATGAGAAAGCC
* * *
28797870 CGAGCTCGTTGAGTTGAGTACAAGTTCACTTATGGATGCGAAAGCC
1 CGAGCTCGTTGAGTCGAGTACGAGTTCACTTATGGATGAGAAAGCC
* *
28797916 CGAGCTCGTTGAG-CTGAGTTCGAGTTCGCTTATGG
1 CGAGCTCGTTGAGTC-GAGTACGAGTTCACTTATGG
28797951 GTGGGTTACA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (46 bp):
CGAGCTCGTTGAGTCGAGTACGAGTTCACTTATGGATGAGAAAGCC
Found at i:28805953 original size:40 final size:40
Alignment explanation
Indices: 28805891--28806066 Score: 241
Period size: 40 Copynumber: 4.4 Consensus size: 40
28805881 AAACCAAGTA
* * *
28805891 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
28805930 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
28805970 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
28806010 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
28806050 CCTTTGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
28806067 CGTTATCATC
Statistics
Matches: 124, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 14 0.11
40 110 0.89
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:28813992 original size:40 final size:39
Alignment explanation
Indices: 28813929--28814130 Score: 273
Period size: 40 Copynumber: 5.1 Consensus size: 39
28813919 TGGGATTTAA
*
28813929 CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
28813969 CCGGATATAGTAGTTCGCACAAATGCCTTTGGGACTTAGC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
28814009 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
28814049 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
* * *
28814089 CC-GAAATTAGTCACTAGCACAAATGCCTTTGGGACTTAGC
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
28814129 CC
1 CC
28814131 CGTTATCATC
Statistics
Matches: 150, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
39 5 0.03
40 144 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:28816425 original size:46 final size:47
Alignment explanation
Indices: 28816342--28816503 Score: 154
Period size: 46 Copynumber: 3.5 Consensus size: 47
28816332 GATGAGTGCT
* *
28816342 AGTGTAAGA-CATGTCTAGGACATGCATCAGC-GTCGAGACATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTG-CGAGACATAAGCC
* * *
28816388 AGTGTAAGA-CATGTCTGGGACATGCGTCGGCTGCGAGATGAT-AGGC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTGCGAGA-CATAAGCC
* * * * **
28816434 AATGTAAGACCATGTCTGGGACATGGCTTCGACT-TGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTGCGAGACATAAGCC
*
28816481 AGTGTAAGACCGTGTCTGGGACA
1 AGTGTAAGACCATGTCTGGGACA
28816504 CGGTATCGGC
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
46 45 0.46
47 45 0.46
48 7 0.07
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTGCGAGACATAAGCC
Found at i:28816458 original size:47 final size:47
Alignment explanation
Indices: 28816344--28816503 Score: 143
Period size: 47 Copynumber: 3.4 Consensus size: 47
28816334 TGAGTGCTAG
* * ** *
28816344 TGTAAGA-CATGTCTAGGACAT-GCATC-AGCGTCGAGACATAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCGTCGA-C-TCGAGATGTAAGCCAA
* *
28816390 TGTAAGA-CATGTCTGGGACAT-GCGTCGGCTGCGAGATG-ATAGGCAA
1 TGTAAGACCATGTCTGGGACATGGCGTCGACT-CGAGATGTA-AGCCAA
* * *
28816436 TGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGATGTAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCGTCGACTCGAGATGTAAGCCAA
*
28816483 TGTAAGACCGTGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
28816504 CGGTATCGGC
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.02
46 41 0.43
47 44 0.46
48 8 0.08
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCGTCGACTCGAGATGTAAGCCAA
Found at i:28816649 original size:71 final size:71
Alignment explanation
Indices: 28816533--28816674 Score: 221
Period size: 71 Copynumber: 2.0 Consensus size: 71
28816523 CACGTTCGAG
* * *
28816533 GCTATGGTATATCTGATAGCACTCCGAATGGTTCAACGTGGAAGTTCTGATTTCTAGTTAATGAG
1 GCTATGGTATATCCGATAACACTCCGAATGGTTCAACGTGGAAGTTCTGATTTCCAGTTAATGAG
28816598 GAAAGT
66 GAAAGT
* * * *
28816604 GCTATGGTATATCCGATAACATTCTGAATGGTTCAATGTGGAAGTTTTGATTTCCAGTTAATGAG
1 GCTATGGTATATCCGATAACACTCCGAATGGTTCAACGTGGAAGTTCTGATTTCCAGTTAATGAG
28816669 GAAAGT
66 GAAAGT
28816675 ATAACCGTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.34
Consensus pattern (71 bp):
GCTATGGTATATCCGATAACACTCCGAATGGTTCAACGTGGAAGTTCTGATTTCCAGTTAATGAG
GAAAGT
Found at i:28817730 original size:22 final size:22
Alignment explanation
Indices: 28817705--28817759 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
28817695 TTGGAATGGT
* *
28817705 CACACGGGTGTGTTTCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
28817727 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
28817749 CACACGGGCGT
1 CACACGGGCGT
28817760 ATGCCTTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.11, C:0.42, G:0.27, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:28824137 original size:47 final size:46
Alignment explanation
Indices: 28824021--28824137 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 46
28824011 GATGAGTGCT
*
28824021 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCC
* * * * *
28824067 AGTGAAAGACATGTCTGGGACATGCGTCGG-CT-ATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACAT-A-AGCC
28824113 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
28824138 GCTTTGACTT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
44 5 0.08
45 3 0.05
46 38 0.62
47 15 0.25
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACATAAGCC
Found at i:28824151 original size:47 final size:47
Alignment explanation
Indices: 28824061--28824182 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 47
28824051 CCTCAAGACA
* *
28824061 TAAGCCAGTGAAAGA-CATGTCTGGGACATGCGTCGGCTATGAGATG
1 TAAGCCAGTGTAAGACCATGTCTGGGACATGCGTCGACTATGAGATG
* * *
28824107 -ATAGTCAGTGTAAGACCATGTCTGGGACATGGCTTTGACT-TGAGATG
1 TA-AGCCAGTGTAAGACCATGTCTGGGACAT-GCGTCGACTATGAGATG
* **
28824154 TAAGCCAGTATAAGACTGTGTCTGGGACA
1 TAAGCCAGTGTAAGACCATGTCTGGGACA
28824183 CAACATCGGC
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 1 0.02
46 11 0.17
47 44 0.70
48 7 0.11
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (47 bp):
TAAGCCAGTGTAAGACCATGTCTGGGACATGCGTCGACTATGAGATG
Found at i:28830789 original size:16 final size:17
Alignment explanation
Indices: 28830759--28830793 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
28830749 TATATGTGGT
28830759 AAGGAAATATGACATGA
1 AAGGAAATATGACATGA
*
28830776 AAGG-AATATTACATGA
1 AAGGAAATATGACATGA
28830792 AA
1 AA
28830794 TACAAGAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.54, C:0.06, G:0.20, T:0.20
Consensus pattern (17 bp):
AAGGAAATATGACATGA
Found at i:28832413 original size:35 final size:35
Alignment explanation
Indices: 28832292--28832415 Score: 126
Period size: 35 Copynumber: 3.5 Consensus size: 35
28832282 TCCCAATCTT
* *
28832292 TCTATCCCAACCTTTTT-GAGGTTACCTTAGACTTA-
1 TCTATCCCAACCTTTTTAG-GGTTGCCTTAGAC-GAG
***
28832327 TCTATCCCAACCTTTTTAAAATTGCCTTAGACGAG
1 TCTATCCCAACCTTTTTAGGGTTGCCTTAGACGAG
* ** *
28832362 TATATCTTAACCTTTTTAGGGTTGCCTTAGACGGG
1 TCTATCCCAACCTTTTTAGGGTTGCCTTAGACGAG
*
28832397 TCTATCCCAACTTTTTTAG
1 TCTATCCCAACCTTTTTAG
28832416 AGTCATCTTT
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
34 1 0.01
35 70 0.99
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (35 bp):
TCTATCCCAACCTTTTTAGGGTTGCCTTAGACGAG
Found at i:28832571 original size:28 final size:28
Alignment explanation
Indices: 28832539--28832592 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
28832529 TGGCCTTGAC
28832539 TATGTTTTTGCCAACCCTTTAATAAAGG
1 TATGTTTTTGCCAACCCTTTAATAAAGG
28832567 TATGTTTTTGCCAACCCTTTAATAAA
1 TATGTTTTTGCCAACCCTTTAATAAA
28832593 AGTCGACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (28 bp):
TATGTTTTTGCCAACCCTTTAATAAAGG
Found at i:28833826 original size:5 final size:6
Alignment explanation
Indices: 28833809--28833833 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
28833799 TGGTGTATAA
28833809 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
28833834 TGTGAGGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:28838175 original size:5 final size:5
Alignment explanation
Indices: 28838165--28838207 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
28838155 TAAATTTTAT
28838165 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
28838208 AATGAATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:28839321 original size:17 final size:17
Alignment explanation
Indices: 28839299--28839335 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
28839289 TGGGATATGT
28839299 GTAAAAGATGATG-TGGA
1 GTAAAAGAT-ATGATGGA
28839316 GTAAAAGATATGATGGA
1 GTAAAAGATATGATGGA
28839333 GTA
1 GTA
28839336 TCATTGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.24
Consensus pattern (17 bp):
GTAAAAGATATGATGGA
Found at i:28839511 original size:34 final size:34
Alignment explanation
Indices: 28839468--28839582 Score: 119
Period size: 34 Copynumber: 3.4 Consensus size: 34
28839458 CTACGGTGCC
28839468 TTGGTGTGGTGTAGTTATTGCTCTATCT-A-TCCAT
1 TTGGTGTGGTGTAGTTATTGCTCTAT-TAAGT-CAT
* * *
28839502 TTGGTGTGGTGTACTTATCGCTTTATTAAGTCAT
1 TTGGTGTGGTGTAGTTATTGCTCTATTAAGTCAT
* *
28839536 TTGATATGGTGTAGTTATTGCTCTATTAAG-CTAT
1 TTGGTGTGGTGTAGTTATTGCTCTATTAAGTC-AT
* *
28839570 CTAGTGTGGTGTA
1 TTGGTGTGGTGTA
28839583 CTACCTGTAT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
33 2 0.03
34 63 0.95
35 1 0.02
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.46
Consensus pattern (34 bp):
TTGGTGTGGTGTAGTTATTGCTCTATTAAGTCAT
Found at i:28845842 original size:24 final size:24
Alignment explanation
Indices: 28845790--28845842 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
28845780 GCCATAATCG
* *
28845790 GGAAGTTCACAGAGAACCTTGTCA
1 GGAAGTTCACAAAGAACCTTATCA
*
28845814 AGAAGTTCACAAAGAA-CTATATCA
1 GGAAGTTCACAAAGAACCT-TATCA
28845838 GGAAG
1 GGAAG
28845843 CTCCAGATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.19
Consensus pattern (24 bp):
GGAAGTTCACAAAGAACCTTATCA
Found at i:28845951 original size:25 final size:26
Alignment explanation
Indices: 28845886--28845953 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
28845876 GCACTATCGA
**
28845886 GAAGCTCACAAAGAGCCAATTTAACGG
1 GAAGCTCATGAAGAGCC-ATTTAACGG
*
28845913 GAAGTTCATGAAGAGCC-TTTAATCGG
1 GAAGCTCATGAAGAGCCATTTAA-CGG
*
28845939 GATGCTCAT-AAGAGC
1 GAAGCTCATGAAGAGC
28845954 TAAGGTGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 11 0.31
26 10 0.29
27 14 0.40
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (26 bp):
GAAGCTCATGAAGAGCCATTTAACGG
Found at i:28848337 original size:43 final size:42
Alignment explanation
Indices: 28848214--28848380 Score: 149
Period size: 43 Copynumber: 3.9 Consensus size: 42
28848204 TATTGCTCGT
* * * * *
28848214 ACAATGCC-ATATCCCAGATATGGTCATACATGTTATCACATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACATATAATCA-ATA
* * * * * * *
28848256 TCGATGCCACTGTCCCAAATAGGGTCTTACACGA-AATCAATTA
1 ACAATGCCAATGTCCCAGACATGGTCTTACA-TATAATCAA-TA
*
28848299 ACAATGCCAATGTCCCAGACATGGTCTTACATATAATCAAAA
1 ACAATGCCAATGTCCCAGACATGGTCTTACATATAATCAATA
* *
28848341 TACAATGCCAATGTCCCAGGCATGGTCTTACATGTAATCA
1 -ACAATGCCAATGTCCCAGACATGGTCTTACATATAATCA
28848381 CATCTCCGTA
Statistics
Matches: 100, Mismatches: 20, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
42 9 0.09
43 91 0.91
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (42 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACATATAATCAATA
Found at i:28848906 original size:21 final size:21
Alignment explanation
Indices: 28848859--28848906 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
28848849 CATATTTCAC
*
28848859 ATTT-ATTTCACATTTTAACC
1 ATTTAATTTCACATTTTAACA
** *
28848879 ACATAATTTCACATTTTTACA
1 ATTTAATTTCACATTTTAACA
28848900 ATTTAAT
1 ATTTAAT
28848907 CCCTAATTGA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTAATTTCACATTTTAACA
Found at i:28851654 original size:93 final size:93
Alignment explanation
Indices: 28851546--28851716 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
28851536 CGCCCATAAG
* * * *
28851546 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
28851611 ACGAGTTCAGATGCCTAGTTACATTTCA
66 ACGAGTTCAGATGCCTAGTTACATTTCA
* *
28851639 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATACGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
28851704 ACGAGTTCGGATG
66 ACGAGTTCAGATG
28851717 TTCGCATCCA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATTTCA
Found at i:28851761 original size:46 final size:46
Alignment explanation
Indices: 28851539--28851762 Score: 254
Period size: 46 Copynumber: 4.8 Consensus size: 46
28851529 TGTAACCCGC
* * ** *
28851539 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * * *
28851585 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * **
28851631 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
28851678 CCATACGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
28851724 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
28851763 CCCAAATATC
Statistics
Matches: 146, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
45 1 0.01
46 110 0.75
47 33 0.23
48 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:28854720 original size:47 final size:47
Alignment explanation
Indices: 28854669--28854936 Score: 398
Period size: 47 Copynumber: 5.7 Consensus size: 47
28854659 TTAGGATTCT
* * *
28854669 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
28854716 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
28854763 ATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
28854808 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
28854855 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
28854902 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
28854937 TCCCGAAGGG
Statistics
Matches: 203, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
45 44 0.22
46 1 0.00
47 158 0.78
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:28854800 original size:92 final size:92
Alignment explanation
Indices: 28854669--28854936 Score: 387
Period size: 92 Copynumber: 2.9 Consensus size: 92
28854659 TTAGGATTCT
* *
28854669 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATAT--GATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
28854733 GTGTATATATGTGATAAGGCCTAATGGCCG
63 GTGTATATATGTGATAAGGCCTAATGGCCG
*
28854763 ATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 ATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
28854828 TATATATGTGATAAGGCCTAATGGCCG
66 TATATATGTGATAAGGCCTAATGGCCG
* * * * *
28854855 ATGTGATGAATGTGAAAGTGTATATATG-TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAA
1 ATGTGATGAATGTGAAAGTGTATATATGAT-A-A-GGCCTAATGGCCGATGTGATGAATGTGAAA
*
28854919 GTGTATAAATGTGATAAG
63 GTGTATATATGTGATAAG
28854937 TCCCGAAGGG
Statistics
Matches: 160, Mismatches: 10, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
91 1 0.01
92 93 0.58
93 2 0.01
94 64 0.40
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (92 bp):
ATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATGGCCG
Found at i:28854813 original size:139 final size:139
Alignment explanation
Indices: 28854669--28854925 Score: 408
Period size: 139 Copynumber: 1.8 Consensus size: 139
28854659 TTAGGATTCT
*
28854669 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
28854733 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGATAAGGC
65 GTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATATGATAAGGC
28854798 CTAATAGCCG
130 CTAATAGCCG
* *
28854808 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * *
28854873 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
66 TGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA
28854926 AATGTGATAA
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
138 1 0.01
139 106 0.99
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (139 bp):
ATGTGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATATGATAAGGCC
TAATAGCCG
Found at i:28855111 original size:37 final size:37
Alignment explanation
Indices: 28855055--28855133 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
28855045 CCGAGCTCTA
* * * *
28855055 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
* *
28855092 AAGACCTGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
28855129 AAGAC
1 AAGAC
28855134 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:28856710 original size:40 final size:40
Alignment explanation
Indices: 28856347--28856698 Score: 542
Period size: 40 Copynumber: 8.8 Consensus size: 40
28856337 GAGAATTGAG
28856347 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
28856387 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
28856427 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTACT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
28856467 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
28856507 AGTAATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
28856547 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
28856587 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * **
28856627 AGTGATATATCTGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
28856667 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
28856699 ATCATGCTGG
Statistics
Matches: 286, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 286 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:28860604 original size:47 final size:47
Alignment explanation
Indices: 28860553--28860769 Score: 368
Period size: 47 Copynumber: 4.7 Consensus size: 47
28860543 TTAGGATTCT
* * *
28860553 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
28860600 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
28860647 ATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
28860692 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
28860739 ATGTGATGAATGTGAAAGTGTATATATGTGA
1 ATGTGATGAATGTGAAAGTGTATATATGTGA
28860770 CAGGGCCGAG
Statistics
Matches: 162, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
45 44 0.27
46 1 0.01
47 117 0.72
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:28860684 original size:92 final size:92
Alignment explanation
Indices: 28860553--28860766 Score: 367
Period size: 92 Copynumber: 2.3 Consensus size: 92
28860543 TTAGGATTCT
* * *
28860553 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATAT--GATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
28860617 GTGTATATATGTGATAAGGCCTAATGGCCG
63 GTGTATATATGTGATAAGGCCTAATGGCCG
28860647 ATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 ATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
28860712 TATATATGTGATAAGGCCTAATGGCCG
66 TATATATGTGATAAGGCCTAATGGCCG
28860739 ATGTGATGAATGTGAAAGTGTATATATG
1 ATGTGATGAATGTGAAAGTGTATATATG
28860767 TGACAGGGCC
Statistics
Matches: 116, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
92 92 0.79
93 1 0.01
94 23 0.20
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (92 bp):
ATGTGATGAATGTGAAAGTGTATATATGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATGGCCG
Found at i:28872251 original size:16 final size:17
Alignment explanation
Indices: 28872218--28872251 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
28872208 TGTTTTCATA
28872218 TATCATTTGTCATGTAT
1 TATCATTTGTCATGTAT
*
28872235 TATCATTT-TCTTGTAT
1 TATCATTTGTCATGTAT
28872251 T
1 T
28872252 TCAGACGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATCATTTGTCATGTAT
Found at i:28879391 original size:17 final size:18
Alignment explanation
Indices: 28879366--28879405 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
28879356 AAGCCAGATT
*
28879366 GGGCGTGTGGGCT-ACAC
1 GGGCATGTGGGCTCACAC
*
28879383 GGGCATGTGGGCTCACAT
1 GGGCATGTGGGCTCACAC
28879401 GGGCA
1 GGGCA
28879406 CGCTACATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.15, C:0.23, G:0.45, T:0.17
Consensus pattern (18 bp):
GGGCATGTGGGCTCACAC
Found at i:28882651 original size:35 final size:35
Alignment explanation
Indices: 28882612--28882678 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
28882602 GTATGTTTTG
28882612 AAATGACTAAAATTGGTAT-G-TGTTAATGTATCTTT
1 AAATGACTAAAA-TGGTATGGTTGTT-ATGTATCTTT
*
28882647 AAATGGCTAAAATGGTATGGTTGTTATGTATC
1 AAATGACTAAAATGGTATGGTTGTTATGTATC
28882679 AATTATGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 6 0.21
35 19 0.66
36 4 0.14
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (35 bp):
AAATGACTAAAATGGTATGGTTGTTATGTATCTTT
Found at i:28896851 original size:24 final size:25
Alignment explanation
Indices: 28896797--28896858 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 25
28896787 AACAGAAAGC
*
28896797 TCAC-AAGAGCCATAATCGGGAAGT
1 TCACAAAGAACCATAATCGGGAAGT
28896821 TCACAAAGAACCAT-ATCGGGAAGT
1 TCACAAAGAACCATAATCGGGAAGT
*
28896845 TCACAAATAACCAT
1 TCACAAAGAACCAT
28896859 GTCAAGAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 27 0.77
25 8 0.23
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.18
Consensus pattern (25 bp):
TCACAAAGAACCATAATCGGGAAGT
Found at i:28896867 original size:24 final size:24
Alignment explanation
Indices: 28896816--28896867 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
28896806 CCATAATCGG
**
28896816 GAAGTTCACAAAGAACCATATCGG
1 GAAGTTCACAAAGAACCATATCAA
* *
28896840 GAAGTTCACAAATAACCATGTCAA
1 GAAGTTCACAAAGAACCATATCAA
28896864 GAAG
1 GAAG
28896868 CTGCCGATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (24 bp):
GAAGTTCACAAAGAACCATATCAA
Found at i:28910875 original size:31 final size:31
Alignment explanation
Indices: 28910837--28910916 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
28910827 GAACTAGAAT
* * *
28910837 CAGAATTAGAATCATAATCAGTATTAGGTGA
1 CAGAATTAGAATCAGAATCAGTATCAGGTAA
28910868 CAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATTAGAATCAGAATCAGTATCAGGTAA
* *
28910899 CAGAATCAAAATCAGAAT
1 CAGAATTAGAATCAGAAT
28910917 GTAAATGCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.24
Consensus pattern (31 bp):
CAGAATTAGAATCAGAATCAGTATCAGGTAA
Found at i:28914271 original size:47 final size:47
Alignment explanation
Indices: 28914064--28914498 Score: 672
Period size: 47 Copynumber: 9.1 Consensus size: 47
28914054 GAAATGATAG
28914064 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
28914113 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
28914162 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
*
28914213 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
28914260 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
28914307 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
28914354 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
28914401 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
28914448 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
28914495 TAAG
1 TAAG
28914499 TCCCGAAGGG
Statistics
Matches: 362, Mismatches: 22, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
47 228 0.63
49 85 0.23
51 49 0.14
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:28914673 original size:37 final size:37
Alignment explanation
Indices: 28914617--28914695 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
28914607 CCGAGCTCTA
* * *
28914617 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
28914654 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28914691 AAGAC
1 AAGAC
28914696 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:28916268 original size:81 final size:81
Alignment explanation
Indices: 28916140--28916377 Score: 325
Period size: 81 Copynumber: 3.0 Consensus size: 81
28916130 TAAAATGGTA
* * * * *
28916140 ATTT-TACCCCACAAGGTTATCTCGGTAATTCTACCTTATAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCT
28916204 ACAGGGGTATTTAGGT
66 ACAGGGGTATTTAGGT
* *
28916220 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCT
* *
28916285 ATAGGGGTATTTCGGT
66 ACAGGGGTATTTAGGT
* * * * * * *
28916301 ATTTCTACCCTACAGGGGTATTTCGATATTTCTACCCAATAAGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCT
28916366 ACAGGGGTATTT
66 ACAGGGGTATTT
28916378 CGATAATTTT
Statistics
Matches: 138, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 4 0.03
81 134 0.97
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTAGGT
Found at i:28916379 original size:27 final size:27
Alignment explanation
Indices: 28916136--28916385 Score: 293
Period size: 27 Copynumber: 9.3 Consensus size: 27
28916126 GGGGTAAAAT
* * * * *
28916136 GGTAATTTTACCCCACAAGGTTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
28916163 GGTAATTCTACCTTATAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
28916190 AGTAATTCTACCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
28916217 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
28916244 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
28916271 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
28916298 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
28916325 GATATTTCTACCCAATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
28916352 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
28916379 GATAATT
1 GGTAATT
28916386 TTGTAAATCG
Statistics
Matches: 187, Mismatches: 36, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 187 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:28916400 original size:27 final size:27
Alignment explanation
Indices: 28916377--28916484 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
28916367 CAGGGGTATT
28916377 TCGATAATTTTGTAAATCGAGGGTAAAA
1 TCGATAATTTTGTAAATCGAGGGT-AAA
* *
28916405 T-GATAATTCTGTAAATCAAGGGTAAA
1 TCGATAATTTTGTAAATCGAGGGTAAA
* *
28916431 ACGGTAATTTTGTAAATCGAGGGTGAAA
1 TCGATAATTTTGTAAATCGAGGGT-AAA
* * *
28916459 -CGGTAATTCTATAAATCGAGGGTAAA
1 TCGATAATTTTGTAAATCGAGGGTAAA
28916485 ATGGTAATTC
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.09
27 60 0.86
28 4 0.06
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
TCGATAATTTTGTAAATCGAGGGTAAA
Found at i:28916490 original size:27 final size:27
Alignment explanation
Indices: 28916389--28916505 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
28916379 GATAATTTTG
* * *
28916389 TAAATCGAGGGTAAAATGATAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
* * *
28916416 TAAATCAAGGGTAAAACGGTAATTTTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
28916443 TAAATCGAGGGTGAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
28916470 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
28916497 CAAATCGAG
1 TAAATCGAG
28916506 TGCATTTCAG
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACGGTAATTCTA
Found at i:28916491 original size:54 final size:54
Alignment explanation
Indices: 28916381--28916493 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
28916371 GGTATTTCGA
* *
28916381 TAATTTTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCAAGGGTAAAACGG
1 TAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGG
* * * *
28916435 TAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGG
28916489 TAATT
1 TAATT
28916494 CTACAAATCG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (54 bp):
TAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGG
Found at i:28918490 original size:6 final size:6
Alignment explanation
Indices: 28918481--28918561 Score: 69
Period size: 6 Copynumber: 13.2 Consensus size: 6
28918471 TACCAGAACT
*
28918481 AGAATC AGAATC AGAATTC -GAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAA-TC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
28918530 AGAATC AGTATC AGGTAA-C AGAATC AAAATC A
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC A
28918562 AAATGTAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
5 5 0.08
6 47 0.76
7 8 0.13
8 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:28918521 original size:31 final size:31
Alignment explanation
Indices: 28918486--28918561 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
28918476 GAACTAGAAT
*
28918486 CAGAATCAGAATTC-GAATCAGAATCAGGTGA
1 CAGAATCAGAA-TCAGAATCAGAATCAGGTAA
*
28918517 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
28918548 CAGAATCAAAATCA
1 CAGAATCAGAATCA
28918562 AAATGTAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:28919322 original size:27 final size:27
Alignment explanation
Indices: 28919079--28919328 Score: 284
Period size: 27 Copynumber: 9.3 Consensus size: 27
28919069 GGGGTAAAAT
* * * * *
28919079 GGTAATTTTACCCCACAAGGTTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
28919106 GGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
28919133 AGTAATTCTACCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
28919160 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
28919187 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
28919214 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
28919241 GGTATTTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
28919268 GATATTTCTACCCAATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
28919295 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
28919322 GATAATT
1 GGTAATT
28919329 TTGTAAATCG
Statistics
Matches: 189, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 189 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:28919343 original size:27 final size:27
Alignment explanation
Indices: 28919321--28919428 Score: 153
Period size: 27 Copynumber: 4.0 Consensus size: 27
28919311 AGGGGTATTT
28919321 CGATAATTTTGTAAATCGAGGGTAAAA
1 CGATAATTTTGTAAATCGAGGGTAAAA
* *
28919348 CGATAATTCTGTAAATCAAGGGTAAAA
1 CGATAATTTTGTAAATCGAGGGTAAAA
* *
28919375 CGGTAATTTTGTAAATCGAGGGTGAAA
1 CGATAATTTTGTAAATCGAGGGTAAAA
* * *
28919402 CGGTAATTCTATAAATCGAGGGTAAAA
1 CGATAATTTTGTAAATCGAGGGTAAAA
28919429 TGGTAATTCT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
CGATAATTTTGTAAATCGAGGGTAAAA
Found at i:28919433 original size:27 final size:27
Alignment explanation
Indices: 28919332--28919450 Score: 166
Period size: 27 Copynumber: 4.4 Consensus size: 27
28919322 GATAATTTTG
* *
28919332 TAAATCGAGGGTAAAACGATAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
* * *
28919359 TAAATCAAGGGTAAAACGGTAATTTTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
28919386 TAAATCGAGGGTGAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
28919413 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
28919440 CAAATCGAGGG
1 TAAATCGAGGG
28919451 CATTTCAGTA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.26
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACGGTAATTCTA
Found at i:28927679 original size:42 final size:42
Alignment explanation
Indices: 28927571--28927718 Score: 181
Period size: 42 Copynumber: 3.5 Consensus size: 42
28927561 ATACCAATTG
* *
28927571 CATATCCCAAATATGGTCTTACATGAACTCT-AGTATCGATGC
1 CATATCCCAAATATGGTCTTACACGAAATCTCA-TATCGATGC
* ** * *
28927613 CAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCGCTGC
1 C-ATATCCCAAATATGGTCTTACACGAAATCTCATATCGATGC
* *
28927656 CATATCCCAAATATGGTCTTACACAAAATCTCATATAGATGC
1 CATATCCCAAATATGGTCTTACACGAAATCTCATATCGATGC
*
28927698 CATATCCCATATATGGTCTTA
1 CATATCCCAAATATGGTCTTA
28927719 AACGTAAACT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 55 0.61
43 34 0.38
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
CATATCCCAAATATGGTCTTACACGAAATCTCATATCGATGC
Found at i:28934458 original size:28 final size:27
Alignment explanation
Indices: 28934371--28934460 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
28934361 GTGACAGAGT
*
28934371 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
*** *
28934400 CACCAGAACAGAT-ATACATGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
28934427 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
28934455 CACCAG
1 CACCAG
28934461 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:28934614 original size:28 final size:28
Alignment explanation
Indices: 28934569--28934631 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
28934559 TTAACCCTAG
*
28934569 GGGGTATAAAGGTCATTTTGCACACATA
1 GGGGTATAAAGGTAATTTTGCACACATA
* *
28934597 GGGGTATAATGGTAATTTTGCATACATA
1 GGGGTATAAAGGTAATTTTGCACACATA
28934625 GGGGTAT
1 GGGGTAT
28934632 TCTAGTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.32
Consensus pattern (28 bp):
GGGGTATAAAGGTAATTTTGCACACATA
Found at i:28938978 original size:24 final size:23
Alignment explanation
Indices: 28938951--28939011 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
28938941 AAGAGCTATA
28938951 ATCGAGAAGTTCATAAAGAACC-AT
1 ATCGAGAAGTTCATAAAG--CCAAT
* *
28938975 ATCGAGAAGCTTCGTATAGCCAAT
1 ATCGAGAAG-TTCATAAAGCCAAT
28938999 ATCGAGAAGTTCA
1 ATCGAGAAGTTCA
28939012 AGTGAGAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 5 0.16
24 20 0.62
25 7 0.22
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (23 bp):
ATCGAGAAGTTCATAAAGCCAAT
Found at i:28941116 original size:15 final size:16
Alignment explanation
Indices: 28941096--28941125 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28941086 TTTAACAAAG
28941096 TAAAAT-AAATAAAAA
1 TAAAATAAAATAAAAA
28941111 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
28941126 GTTTCAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:28942502 original size:16 final size:15
Alignment explanation
Indices: 28942461--28942502 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
28942451 GATGTATTAA
*
28942461 TAAAGGTTAAAATAG
1 TAAAGATTAAAATAG
28942476 TAAA-ATGTAAAATAAG
1 TAAAGAT-TAAAAT-AG
28942492 TAAAGATTAAA
1 TAAAGATTAAA
28942503 TAAAACAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 10 0.43
16 10 0.43
17 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (15 bp):
TAAAGATTAAAATAG
Found at i:28944500 original size:19 final size:18
Alignment explanation
Indices: 28944478--28944517 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
28944468 TGAATAAAAA
28944478 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
28944497 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
28944515 TTA
1 TTA
28944518 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:28950442 original size:47 final size:47
Alignment explanation
Indices: 28950391--28950678 Score: 468
Period size: 47 Copynumber: 6.1 Consensus size: 47
28950381 TTAGGATTTT
28950391 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28950438 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28950485 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
28950532 ATATGATCAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
28950579 ATGTGATGAATGTGAGCATGCATATGTGTGATACGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28950626 ATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28950673 ATGTGA
1 ATGTGA
28950679 AATATGTATG
Statistics
Matches: 222, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 222 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:28950444 original size:22 final size:22
Alignment explanation
Indices: 28950416--28950491 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
28950406 ACATGCATAT
28950416 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
28950438 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
28950460 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
28950485 ATGTGAT
1 ATGTGAT
28950492 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:28950512 original size:23 final size:23
Alignment explanation
Indices: 28950438--28950512 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
28950428 CGAATGGCCA
28950438 ATGTGATGAATGTGAGCATGCAT
1 ATGTGATGAATGTGAGCATGCAT
* * *
28950461 ATGTG-TGATAAG-GCCGAATGGCCA-
1 ATGTGATGA-ATGTG-AGCAT-G-CAT
28950485 ATGTGATGAATGTGAGCATGCAT
1 ATGTGATGAATGTGAGCATGCAT
28950508 ATGTG
1 ATGTG
28950513 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAGCATGCAT
Found at i:28950715 original size:48 final size:48
Alignment explanation
Indices: 28950648--28950782 Score: 216
Period size: 48 Copynumber: 2.8 Consensus size: 48
28950638 TGAACATGCA
* * * *
28950648 TATATGTGATAAGGCCGAATGGCCAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
28950696 TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGGTATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
28950744 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
28950783 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
Found at i:28951037 original size:37 final size:37
Alignment explanation
Indices: 28950929--28951037 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
28950919 GGAAATATAT
*
28950929 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
28950966 TCTGGGTAAGACCCGATGAGTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
28951003 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
28951038 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:28952374 original size:40 final size:40
Alignment explanation
Indices: 28952315--28952819 Score: 780
Period size: 40 Copynumber: 12.6 Consensus size: 40
28952305 GTTATATATA
28952315 TATCC-GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
28952354 TATCCGGGCTAATTCTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
28952394 TAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* **
28952434 TATCCGTGCTAAACCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
28952474 TATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
28952514 TAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
28952554 TATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
28952594 TAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
28952634 TATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
28952674 TATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* * *
28952714 TATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* * * * *
28952754 TATCCGTGCTAA-ACCCTGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCC-GAAGAGCATTCGTGCTAGTGATG
*
28952794 TATCCGGGCTAGGTCCCGAAAGAGCA
1 TATCCGGGCTAAGTCCCG-AAGAGCA
28952820 ATCATGCTGG
Statistics
Matches: 424, Mismatches: 38, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
39 7 0.02
40 407 0.96
41 10 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
Found at i:28953045 original size:25 final size:25
Alignment explanation
Indices: 28952995--28953045 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
28952985 TGTGTAACAA
* *
28952995 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
28953020 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
28953045 C
1 C
28953046 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:28956418 original size:47 final size:47
Alignment explanation
Indices: 28956367--28956651 Score: 462
Period size: 47 Copynumber: 6.1 Consensus size: 47
28956357 TTAGGATTTT
28956367 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28956414 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28956461 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
28956508 ATATGATCAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
28956555 ATGTGATGAATGTGAGCATGCATATGTGTGATACGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28956602 ATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28956649 ATG
1 ATG
28956652 CGAAATATGT
Statistics
Matches: 219, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 219 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:28956420 original size:22 final size:22
Alignment explanation
Indices: 28956392--28956467 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
28956382 ACATGCATAT
28956392 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
28956414 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
28956436 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
28956461 ATGTGAT
1 ATGTGAT
28956468 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:28956488 original size:23 final size:23
Alignment explanation
Indices: 28956414--28956488 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
28956404 CGAATGGCCA
28956414 ATGTGATGAATGTGAGCATGCAT
1 ATGTGATGAATGTGAGCATGCAT
* * *
28956437 ATGTG-TGATAAG-GCCGAATGGCCA-
1 ATGTGATGA-ATGTG-AGCAT-G-CAT
28956461 ATGTGATGAATGTGAGCATGCAT
1 ATGTGATGAATGTGAGCATGCAT
28956484 ATGTG
1 ATGTG
28956489 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAGCATGCAT
Found at i:28956691 original size:48 final size:48
Alignment explanation
Indices: 28956624--28956758 Score: 216
Period size: 48 Copynumber: 2.8 Consensus size: 48
28956614 TGAACATGCA
* * * *
28956624 TATATGTGATAAGGCCGAATGGCCAATGCGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGATATG
*
28956672 TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGGTATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGATATG
*
28956720 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTA
28956759 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGATATG
Found at i:28957013 original size:37 final size:37
Alignment explanation
Indices: 28956905--28957013 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
28956895 GGAAATATAT
*
28956905 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
28956942 TCCGGGTAAGACCCGATGAGTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
28956979 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
28957014 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:28961250 original size:17 final size:18
Alignment explanation
Indices: 28961228--28961261 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
28961218 AGACCAATCT
28961228 GGGTGTGTGGG-CCACAC
1 GGGTGTGTGGGTCCACAC
28961245 GGGTGTGTGGGTCCACA
1 GGGTGTGTGGGTCCACA
28961262 TAGGCCTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.12, C:0.21, G:0.47, T:0.21
Consensus pattern (18 bp):
GGGTGTGTGGGTCCACAC
Found at i:28968715 original size:94 final size:94
Alignment explanation
Indices: 28968554--28968743 Score: 326
Period size: 94 Copynumber: 2.0 Consensus size: 94
28968544 AACATTCATT
* * *
28968554 TATAATCCTCACAATCTGATCATTGTTGCCGATGATAAAAACTATGCCATTCAATAATATGTCAT
1 TATAATCCTCACAATCCGATCATTGTTGCCGATGATAAAAACTATGCCATTCAACAATATGCCAT
*
28968619 TCCTCTATTCAATGAGCTCAATCTGAGTA
66 TCCTCTATTCAACGAGCTCAATCTGAGTA
*
28968648 TATAATCCTTACAATCCGATCATTGTTGCCGATGATAAAAACTATGCCATTCAACAATATGCCAT
1 TATAATCCTCACAATCCGATCATTGTTGCCGATGATAAAAACTATGCCATTCAACAATATGCCAT
*
28968713 TCCTCTATTCAACGAGCTCAATCTGATTA
66 TCCTCTATTCAACGAGCTCAATCTGAGTA
28968742 TA
1 TA
28968744 AGGAGACCCA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (94 bp):
TATAATCCTCACAATCCGATCATTGTTGCCGATGATAAAAACTATGCCATTCAACAATATGCCAT
TCCTCTATTCAACGAGCTCAATCTGAGTA
Found at i:28979661 original size:27 final size:27
Alignment explanation
Indices: 28979630--28979842 Score: 184
Period size: 27 Copynumber: 7.9 Consensus size: 27
28979620 TGCCCTACAG
* *
28979630 GGGTATTTCGATAATTTTACACTA-TAA
1 GGGTATTTCGATAATTTTACA-AACCAA
* * *
28979657 AGGTATTTCGGTAATTTTAC--ACTATA
1 GGGTATTTCGATAATTTTACAAACCA-A
* * *
28979683 GGGGTATTTTGGTAATTTTACACTA-CATA
1 -GGGTATTTCGATAATTTTACA-AACCA-A
* *
28979712 -GGTATTTCGGTAATTTTACAAACCAG
1 GGGTATTTCGATAATTTTACAAACCAA
* **
28979738 GGGTATTTTGATAATTTTACAAATTAA
1 GGGTATTTCGATAATTTTACAAACCAA
28979765 GGGTATTTCGATAATTTTACAAACCAA
1 GGGTATTTCGATAATTTTACAAACCAA
* **
28979792 GGGTATTTCGATAATTTTACAAATCGG
1 GGGTATTTCGATAATTTTACAAACCAA
* *
28979819 GGGTATTTTGGTAATTTTACAAAC
1 GGGTATTTCGATAATTTTACAAAC
28979843 TAGGGTCTTA
Statistics
Matches: 156, Mismatches: 22, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
24 1 0.01
25 2 0.01
26 2 0.01
27 147 0.94
29 3 0.02
30 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAACCAA
Found at i:28979753 original size:81 final size:81
Alignment explanation
Indices: 28979630--28979841 Score: 234
Period size: 81 Copynumber: 2.6 Consensus size: 81
28979620 TGCCCTACAG
* * ** * * * *
28979630 GGGTATTTCGATAATTTTACACTA-TAAAGGTATTTCGGTAATTTTAC-ACTATAGGGGTATTTT
1 GGGTATTTCGATAATTTTACA-AACCAGGGGTATTTTGGTAATTTTACAAAT-TAAGGGTATTTC
* *
28979693 GGTAATTTTACACTA-CATA
64 GATAATTTTACA-AACCA-A
* *
28979712 -GGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCGA
1 GGGTATTTCGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGA
28979776 TAATTTTACAAACCAA
66 TAATTTTACAAACCAA
* *
28979792 GGGTATTTCGATAATTTTACAAATCGGGGGTATTTTGGTAATTTTACAAA
1 GGGTATTTCGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAA
28979842 CTAGGGTCTT
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
80 3 0.03
81 105 0.95
82 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (81 bp):
GGGTATTTCGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGA
TAATTTTACAAACCAA
Found at i:28979813 original size:54 final size:54
Alignment explanation
Indices: 28979630--28979842 Score: 222
Period size: 54 Copynumber: 3.9 Consensus size: 54
28979620 TGCCCTACAG
* * *
28979630 GGGTATTTCGATAATTTTAC-ACTATAAAGGTATTTCGGTAATTTTAC--ACTATA
1 GGGTATTTCGATAATTTTACAAAT-TAAGGGTATTTCGGTAATTTTACAAACCA-A
* * *
28979683 GGGGTATTTTGGTAATTTTACACTACA-T-A-GGTATTTCGGTAATTTTACAAACCAG
1 -GGGTATTTCGATAATTTTACA--A-ATTAAGGGTATTTCGGTAATTTTACAAACCAA
* *
28979738 GGGTATTTTGATAATTTTACAAATTAAGGGTATTTCGATAATTTTACAAACCAA
1 GGGTATTTCGATAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACCAA
*** *
28979792 GGGTATTTCGATAATTTTACAAATCGGGGGTATTTTGGTAATTTTACAAAC
1 GGGTATTTCGATAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAAC
28979843 TAGGGTCTTA
Statistics
Matches: 136, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
51 1 0.01
52 2 0.01
53 1 0.01
54 126 0.93
55 1 0.01
56 4 0.03
57 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACCAA
Found at i:28981719 original size:9 final size:9
Alignment explanation
Indices: 28981707--28981763 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
28981697 TTTGATAAAC
28981707 ATGATATGT
1 ATGATATGT
*
28981716 ATGATATGC
1 ATGATATGT
*
28981725 ACGTGACATGT
1 A--TGATATGT
*
28981736 ATGATATGCAC
1 ATGATATG--T
28981747 ATGATATGT
1 ATGATATGT
28981756 ATGATATG
1 ATGATATG
28981764 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:28981737 original size:20 final size:20
Alignment explanation
Indices: 28981705--28981775 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
28981695 ATTTTGATAA
*
28981705 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
*
28981725 ACGTGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
28981745 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
*
28981765 ACATGAGATGT
1 ACATGACATGT
28981776 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:28981852 original size:23 final size:23
Alignment explanation
Indices: 28981822--28981982 Score: 233
Period size: 23 Copynumber: 7.1 Consensus size: 23
28981812 AGGAAGTGCA
28981822 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
28981845 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
28981869 AAAGGGCTTATG-CCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATT
*
28981891 AAA-GGC-TAT-ACCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
28981911 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
28981934 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
28981957 AAAAGTGCTT-TGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
28981980 AAA
1 AAA
28981983 AGAGGCTAGG
Statistics
Matches: 127, Mismatches: 5, Indels: 13
0.88 0.03 0.09
Matches are distributed among these distances:
20 15 0.12
21 6 0.05
22 9 0.07
23 77 0.61
24 20 0.16
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:28981951 original size:66 final size:69
Alignment explanation
Indices: 28981821--28981982 Score: 224
Period size: 66 Copynumber: 2.4 Consensus size: 69
28981811 GAGGAAGTGC
* *
28981821 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCAG
1 AAAAGTGC-TATGACCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCAG
28981886 TTA-T
65 TTATT
* *
28981890 CAAAG-GCTAT-ACCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAG
1 AAAAGTGCTATGACCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATG-CCCAG
28981952 TTATT
65 TTATT
* *
28981957 AAAAGTGCTTTGCCCCAGTTATTAAA
1 AAAAGTGCTATGACCCAGTTATTAAA
28981983 AGAGGCTAGG
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
65 12 0.14
66 40 0.48
67 8 0.10
68 6 0.07
69 17 0.20
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (69 bp):
AAAAGTGCTATGACCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCAGT
TATT
Found at i:28982231 original size:31 final size:31
Alignment explanation
Indices: 28982196--28982259 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
28982186 CGTTTACAGT
28982196 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
28982227 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
28982258 AA
1 AA
28982260 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Done.