Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 75 of 316
Found at i:22361703 original size:36 final size:37
Alignment explanation
Indices: 22361656--22361728 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
22361646 CATTTGGCAC
22361656 GCTTAAATACC-AGTCTTTCAAAGAACCAATCCCAGA
1 GCTTAAATACCAAGTCTTTCAAAGAACCAATCCCAGA
22361692 GCTTAAATACCAAGTCTTTCAAAGAACCAATCCCAGA
1 GCTTAAATACCAAGTCTTTCAAAGAACCAATCCCAGA
22361729 CATACACTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 11 0.31
37 25 0.69
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (37 bp):
GCTTAAATACCAAGTCTTTCAAAGAACCAATCCCAGA
Found at i:22362064 original size:82 final size:82
Alignment explanation
Indices: 22361963--22362213 Score: 344
Period size: 82 Copynumber: 3.0 Consensus size: 82
22361953 AAAACTATCT
* * * * *
22361963 AATTAAATCTTATTTGGAAACAAAAACAAAATTGAATAAAATCTGTTAAACGACAAGAATAAATT
1 AATTAATTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATC
22362028 CCAAAACAGAATTATTC
66 CCAAAACAGAATTATTC
* * * *
22362045 AATTAATTCTCATTTGGAAACAAAATCAAAGTCGAATAAAATCTGTGAAATGA-AGGGAATAAAT
1 AATTAATTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTGTTAAACGACA-GGAATAAAT
*
22362109 CCCGAAACAGAATTATTC
65 CCCAAAACAGAATTATTC
* *
22362127 AATTAATTCTCATTTGGAAACAAAATA-AAAATGGAATAAAATCTGTTAAACGGCAGGAATAAAT
1 AATTAATTCTCATTTGGAAACAAAA-ACAAAATCGAATAAAATCTGTTAAACGACAGGAATAAAT
*
22362191 CCCAAAACAGATTTTATTC
65 CCCAAAACAGA-ATTATTC
22362210 AATT
1 AATT
22362214 TTAATTTTTA
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
81 1 0.01
82 135 0.92
83 11 0.07
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.27
Consensus pattern (82 bp):
AATTAATTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATC
CCAAAACAGAATTATTC
Found at i:22364942 original size:25 final size:25
Alignment explanation
Indices: 22364914--22364965 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
22364904 AGGAACCTTT
*
22364914 AAATCAATTTGAATAAAATAAAATC
1 AAATCAATTGGAATAAAATAAAATC
** * *
22364939 AAATTGATTGGAATCAAATTAAATC
1 AAATCAATTGGAATAAAATAAAATC
22364964 AA
1 AA
22364966 GATATATGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.29
Consensus pattern (25 bp):
AAATCAATTGGAATAAAATAAAATC
Found at i:22365948 original size:22 final size:21
Alignment explanation
Indices: 22365918--22365958 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
22365908 TAACATTAAT
22365918 ATAACTTTAATATATAATTTCA
1 ATAACTTTAAT-TATAATTTCA
* *
22365940 ATAATTTTAATTATTATTT
1 ATAACTTTAATTATAATTT
22365959 AAAGTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATAACTTTAATTATAATTTCA
Found at i:22368195 original size:22 final size:22
Alignment explanation
Indices: 22368170--22368247 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
22368160 TTCACTATGG
* *
22368170 TGCCTACTGATTCGTATTACGA
1 TGCCTACTGATTCGCATTAAGA
* *
22368192 TGCCTATTGTTTCGCATTATA-A
1 TGCCTACTGATTCGCATTA-AGA
22368214 TGCCTACTGATTCGCATTAAGA
1 TGCCTACTGATTCGCATTAAGA
*
22368236 TGCCTATTGATT
1 TGCCTACTGATT
22368248 TGCAGTTCGA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.02
22 46 0.98
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (22 bp):
TGCCTACTGATTCGCATTAAGA
Found at i:22370046 original size:21 final size:23
Alignment explanation
Indices: 22370023--22370066 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
22370013 TTTAAACCCC
22370023 AGATGATGTGTAG-GGATGGTCA
1 AGATGATGTGTAGAGGATGGTCA
*
22370045 GAGATGGTGTGTAGAGGATGGT
1 -AGATGATGTGTAGAGGATGGT
22370067 GGTAGGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.25, C:0.02, G:0.45, T:0.27
Consensus pattern (23 bp):
AGATGATGTGTAGAGGATGGTCA
Found at i:22375470 original size:19 final size:19
Alignment explanation
Indices: 22375445--22375552 Score: 145
Period size: 17 Copynumber: 5.9 Consensus size: 19
22375435 ATAATCTTCA
*
22375445 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
22375464 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
22375483 ATGATA--CAATCTTAGAG
1 ATGATATGCAATCTTAGAT
22375500 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
22375518 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
22375535 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
22375553 AGATATGATT
Statistics
Matches: 79, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
17 32 0.41
18 15 0.19
19 32 0.41
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:22375515 original size:35 final size:36
Alignment explanation
Indices: 22375454--22375552 Score: 157
Period size: 35 Copynumber: 2.8 Consensus size: 36
22375444 AATGATATGT
22375454 AATCTTAGATG-TGATATGCAATCTTAGATATGATAC
1 AATCTTAGA-GATGATATGCAATCTTAGATATGATAC
22375490 AATCTTAGAGATGAT-TGCAATCTTAGATATGATAC
1 AATCTTAGAGATGATATGCAATCTTAGATATGATAC
* *
22375525 AATCTTAGATATGATATACAATCTTAGA
1 AATCTTAGAGATGATATGCAATCTTAGA
22375553 AGATATGATT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
35 35 0.59
36 24 0.41
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (36 bp):
AATCTTAGAGATGATATGCAATCTTAGATATGATAC
Found at i:22376057 original size:17 final size:16
Alignment explanation
Indices: 22376037--22376095 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 16
22376027 CCAATATATT
22376037 TTATATTTTTTATATAA
1 TTAT-TTTTTTATATAA
*
22376054 TTATTATTCTTATA-AA
1 TTATT-TTTTTATATAA
22376070 -TATTTTTTTATTATATA
1 TTATTTTTTTA-TATA-A
22376087 TTATATTTT
1 TTAT-TTTT
22376096 AAATTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 4 0.12
17 12 0.35
18 3 0.09
19 4 0.12
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTTTTTTATATAA
Found at i:22376096 original size:17 final size:17
Alignment explanation
Indices: 22376031--22376096 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 17
22376021 TCTAAACCAA
*
22376031 TATATTTTATATTTT-T
1 TATATATTATATTTTAT
22376047 TATATAATTATTATTCTTA-
1 TATAT-ATTA-TATT-TTAT
*
22376066 TAAATATT-T-TTTTAT
1 TATATATTATATTTTAT
22376081 TATATATTATATTTTA
1 TATATATTATATTTTA
22376097 AATTTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
14 3 0.08
15 9 0.22
16 7 0.17
17 8 0.20
18 7 0.17
19 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TATATATTATATTTTAT
Found at i:22393819 original size:48 final size:48
Alignment explanation
Indices: 22393749--22393877 Score: 163
Period size: 48 Copynumber: 2.7 Consensus size: 48
22393739 CGGCTATATT
* * *
22393749 ACGAGAACCAGTGTAAGACCATAAT-TGGGACATGGCATTGGCATTGAG
1 ACGAGAGCTAGTGAAAGACCAT-ATCTGGGACATGGCATTGGCATTGAG
* *
22393797 ACGTGAGTTAGTGAAAGACCATATCTGGGACATGGCATTGGCATTGAG
1 ACGAGAGCTAGTGAAAGACCATATCTGGGACATGGCATTGGCATTGAG
* * *
22393845 ACGAGAGCTAGTGTAGGA-CATGTCTGGGACATG
1 ACGAGAGCTAGTGAAAGACCATATCTGGGACATG
22393878 CATCGGCCTC
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 16 0.23
48 54 0.77
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (48 bp):
ACGAGAGCTAGTGAAAGACCATATCTGGGACATGGCATTGGCATTGAG
Found at i:22393911 original size:46 final size:44
Alignment explanation
Indices: 22393854--22394015 Score: 152
Period size: 46 Copynumber: 3.6 Consensus size: 44
22393844 GACGAGAGCT
* *
22393854 AGTGTAGGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTACGTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGG-CTC-AGATGTA-GTC
22393900 AGTGTAAGA-CATGTCTAGGACATGCATCGGCTACATGATGT-GTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCT-CA-GATGTAGTC
* * * *
22393944 AGTATAAGACCATGTCTAAGACATGACATCGACTCA-ACGTGAGAGTC
1 AGTGTAAGACCATGTCTAGGACATG-CATCGGCTCAGA--TG-TAGTC
*
22393991 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTAGGACATG
22394016 GTGTTGACTT
Statistics
Matches: 99, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 11 0.11
45 21 0.21
46 41 0.41
47 25 0.25
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACCATGTCTAGGACATGCATCGGCTCAGATGTAGTC
Found at i:22394002 original size:47 final size:46
Alignment explanation
Indices: 22393897--22394070 Score: 183
Period size: 47 Copynumber: 3.8 Consensus size: 46
22393887 CGAGATGTAC
* * *
22393897 GTCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCT-ACATGATGT
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACTAACGTGA-GA
* * *
22393941 GTCAGTATAAGACCATGTCTAAGACATGACATCGACTCAACGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACT-AACGTGAGA
* ** * *
22393988 GTCAGTGTAAGACCATGTCTGGGACATGGTGTTGACTTAGCGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGAC-TAACGTGAGA
* *
22394035 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGAC
22394071 ATTATACCCT
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
44 11 0.10
45 13 0.12
46 7 0.07
47 70 0.65
48 6 0.06
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACTAACGTGAGA
Found at i:22397261 original size:25 final size:25
Alignment explanation
Indices: 22397233--22397314 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
22397223 AGCTCTTATA
* *
22397233 AGCTTCCCGATACTTAGCTCGCATG
1 AGCTTCCCGATACTTAACTCACATG
*
22397258 AGCTTTCCGATACTTAACTCACATG
1 AGCTTCCCGATACTTAACTCACATG
*
22397283 AGCTTCCCGTTA-TTCAACTCACATG
1 AGCTTCCCGATACTT-AACTCACATG
22397308 AGCTTCC
1 AGCTTCC
22397315 TATTATTTAG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 2 0.04
25 49 0.96
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (25 bp):
AGCTTCCCGATACTTAACTCACATG
Found at i:22397320 original size:25 final size:25
Alignment explanation
Indices: 22397273--22397321 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
22397263 TCCGATACTT
*
22397273 AACTCACATGAGCTTCCCGTTATTC
1 AACTCACATGAGCTTCCCATTATTC
*
22397298 AACTCACATGAGCTTCCTATTATT
1 AACTCACATGAGCTTCCCATTATT
22397322 TAGCTCGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.35
Consensus pattern (25 bp):
AACTCACATGAGCTTCCCATTATTC
Found at i:22399073 original size:103 final size:104
Alignment explanation
Indices: 22398844--22399109 Score: 401
Period size: 103 Copynumber: 2.6 Consensus size: 104
22398834 GTTGTACATA
** *
22398844 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCACTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCACTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
22398909 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGAATCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGAATCCCCC
* *
22398948 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCACTGGTGGTGCTAAGTGCGATATCCACCGTATC
*
22399012 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGAATCCCCC
* * *
22399051 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCACTGGTGGTGCTAAGTGCGATATCCACC
22399110 AATAACGGTT
Statistics
Matches: 147, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
103 82 0.56
104 65 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCACTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGAATCCCCC
Found at i:22402093 original size:64 final size:64
Alignment explanation
Indices: 22401992--22402120 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 64
22401982 TGTGACCATC
22401992 TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGCTCATATGGTGGATGAATGGGCTA
1 TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGCTCATATGGTGGATGAATGGGCTA
* *
22402056 TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGTTTATATGGTGGATGAATGGGCTA
1 TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGCTCATATGGTGGATGAATGGGCTA
22402120 T
1 T
22402121 CATATATCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (64 bp):
TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGCTCATATGGTGGATGAATGGGCTA
Found at i:22418040 original size:45 final size:44
Alignment explanation
Indices: 22417933--22418179 Score: 269
Period size: 44 Copynumber: 5.6 Consensus size: 44
22417923 CATCGTAGCG
* * * * * *
22417933 AATCTTATCTCCTTAAAGTTGTAGTGGAGTAGATTAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
22417977 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACA
* *
22418022 AATCTTATCTCCCTGAAGTTGTACTGGAGCAGATTGAAGATATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * *
22418067 AATCTTATCTCTCTGAAATTGCAATAGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* ** * *
22418111 AATCTTATTTCGTTGAAGTTGCAATGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* **
22418155 AGTCTTATCTCGTTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
22418180 AAAGCAAACT
Statistics
Matches: 177, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
44 100 0.56
45 77 0.44
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:22418050 original size:89 final size:88
Alignment explanation
Indices: 22417933--22418185 Score: 290
Period size: 89 Copynumber: 2.9 Consensus size: 88
22417923 CATCGTAGCG
* * * * *
22417933 AATCTTATCTCCTTAAAGTTGTAGTGGAGTAGATTAAAGTTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCTTGAAGTTGTAATGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
*
22417998 CAGTGGAGCAGATTAAAGATAAAA
66 CAGTAGAGCAGATTAAAGAT-AAA
* * * *
22418022 AATCTTATCTCCCTGAAGTTGTACTGGAGCAGATTGAAGATATCAAATCTTATCTCTCTGAAATT
1 AATCTTATCTCCTTGAAGTTGTAATGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTT
* * * *
22418087 GCAATAGAGCAGATTGAAGCTACA
65 GCAGTAGAGCAGATTAAAGATAAA
* * * * * **
22418111 AATCTTATTTCGTTGAAGTTGCAATGGAGCAGATTGAAGCTACAAGTCTTATCTCGTTGAAGTTG
1 AATCTTATCTCCTTGAAGTTGTAATGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
*
22418176 CAGTAAAGCA
66 CAGTAGAGCA
22418186 AACTAAATCA
Statistics
Matches: 138, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
88 27 0.20
89 74 0.54
90 37 0.27
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (88 bp):
AATCTTATCTCCTTGAAGTTGTAATGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
CAGTAGAGCAGATTAAAGATAAA
Found at i:22420922 original size:49 final size:49
Alignment explanation
Indices: 22420863--22421176 Score: 271
Period size: 49 Copynumber: 6.7 Consensus size: 49
22420853 CATCAAATTC
* * * *
22420863 GATGCCATGTCCCAAAAAGGTCTTACACTAGCTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
*
22420912 GATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCG-GTG-T
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAG-GCT
* * * * *
22420960 CGATGCCATGTCCCAGACAGGTCTTACACT-G-ACACACA-A-C-AAGCT
1 -GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* * * *
22421005 GATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATATATCGAGGCT
* * * * * * *
22421054 GATG-CATGTCTCATACATGTCTTACACTAGCTCTC--GTCTCAATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* *
22421100 GATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* *
22421146 GATG-CATGTCTCAAACATGTCTTACACTAGC
1 GATGCCATGTCCCAGACATGTCTTACACTAGC
22421177 ACACATATCA
Statistics
Matches: 216, Mismatches: 36, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
44 30 0.14
45 3 0.01
46 73 0.34
47 5 0.02
48 29 0.13
49 76 0.35
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
Found at i:22421118 original size:46 final size:46
Alignment explanation
Indices: 22420810--22421176 Score: 214
Period size: 49 Copynumber: 7.8 Consensus size: 46
22420800 ATGGGATAAG
* * *
22420810 ATGCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCAC-ATCAA
1 ATGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCT--CTCTATC-A
* * * * * *
22420859 AT-TCGATGCCATGTCCCAAAAAGGTCTTACACTAGCTTTCATATATCG
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGC--TC-TCTATCA
* * * *
22420907 AGGCTGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCG
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTC---TATCA
* * * * * *
22420956 GTGTCGATGCCATGTCCCAGACAGGTCTTACACT-GACACAC-AACA
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAG-CTCTCTATCA
* * * * *
22421001 A-GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCG
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGC-TCTCTA--TCA
* * * *
22421049 AGGCCGATG-CATGTCTCATACATGTCTTACACTAGCTCTCGTCTCA
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTC-TATCA
*
22421095 ATGCCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTC-AT-A
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCTATCA
* * *
22421138 ATGTGGCTGATG-CATGTCTCAAACATGTCTTACACTAGC
1 A--T-GCCGATGCCATGTCCCAGACATGTCTTACACTAGC
22421177 ACACATATCA
Statistics
Matches: 247, Mismatches: 52, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
43 2 0.01
44 32 0.13
45 4 0.02
46 70 0.28
47 17 0.07
48 45 0.18
49 77 0.31
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCTATCA
Found at i:22421152 original size:92 final size:91
Alignment explanation
Indices: 22420912--22421181 Score: 289
Period size: 92 Copynumber: 2.9 Consensus size: 91
22420902 TATCGAGGCT
* * *
22420912 GATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCGGTGTCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATC-GTGGCGATG-CATGTCTCAAA
* *
22420977 CAGGTCTTACACT-GACACACAACAAGCT
64 CATGTCTTACACTAG-CACACAACAAGCC
* * * * * *
22421005 GATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGCCGATGCATGTCTCATA
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCT-CATATATCGTGG-CGATGCATGTCTCAAA
* * **
22421069 CATGTCTTACACTAGCTCTCGTCTCAATGCC
64 CATGTCTTACACTAGCACAC--AACAA-GCC
22421100 GATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGCTGATGCATGTCTCAAAC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCGTGGC-GATGCATGTCTCAAAC
22421162 ATGTCTTACACTAGCACACA
65 ATGTCTTACACTAGCACACA
22421182 TATCACCCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
91 1 0.01
92 62 0.42
93 44 0.30
94 32 0.22
95 7 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (91 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCGTGGCGATGCATGTCTCAAACA
TGTCTTACACTAGCACACAACAAGCC
Found at i:22421792 original size:20 final size:20
Alignment explanation
Indices: 22421767--22421805 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22421757 GAAATTTCAA
22421767 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
22421787 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
22421806 AATAACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:22423150 original size:20 final size:20
Alignment explanation
Indices: 22423125--22423164 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22423115 AAAGGTTTTT
22423125 TTATTTTTTTTATTTTCAAA
1 TTATTTTTTTTATTTTCAAA
22423145 TTATTTTTTTTATTTTCAAA
1 TTATTTTTTTTATTTTCAAA
22423165 GGGCTTTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTTTTTTATTTTCAAA
Found at i:22425839 original size:23 final size:23
Alignment explanation
Indices: 22425812--22425859 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
22425802 TTTCTTGAGG
22425812 AAGTTCTTGGGATTTCGAAAAGA
1 AAGTTCTTGGGATTTCGAAAAGA
22425835 AAGTTCTTGGGATTTCGAAAAGA
1 AAGTTCTTGGGATTTCGAAAAGA
22425858 AA
1 AA
22425860 ATAGCTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (23 bp):
AAGTTCTTGGGATTTCGAAAAGA
Found at i:22430545 original size:46 final size:46
Alignment explanation
Indices: 22430478--22430568 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
22430468 CTGGAATTCA
22430478 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATGC
1 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATGC
22430524 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATG
1 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATG
22430569 TTAAAAGGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (46 bp):
ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATGC
Found at i:22432212 original size:29 final size:30
Alignment explanation
Indices: 22432171--22432231 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
22432161 AATATTGAAA
*
22432171 TTATATATGAAA-TTTGATTTTATATAATT
1 TTATATATGAAATTTTGATTTGATATAATT
* *
22432200 TTATATATTAAATTTTGATTTGATTTAATT
1 TTATATATGAAATTTTGATTTGATATAATT
22432230 TT
1 TT
22432232 TAGAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (30 bp):
TTATATATGAAATTTTGATTTGATATAATT
Found at i:22432932 original size:15 final size:17
Alignment explanation
Indices: 22432907--22432948 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
22432897 GAGTGTAAAG
22432907 AAAATTAGAA-GAGTAA
1 AAAATTAGAAGGAGTAA
*
22432923 AAAATT-GAAGGGGTAA
1 AAAATTAGAAGGAGTAA
22432939 AAAATTAGAA
1 AAAATTAGAA
22432949 AAATGGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 3 0.13
16 17 0.74
17 3 0.13
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (17 bp):
AAAATTAGAAGGAGTAA
Found at i:22437741 original size:46 final size:44
Alignment explanation
Indices: 22437655--22437824 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 44
22437645 CATAGCCATA
*
22437655 TCGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCGTA-G
1 TCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AGG
*
22437701 TCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGG
1 TCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAGG
* * *
22437747 CCGATGTATGTCCCAGACATGTCTTACACT-AGCAC-TCGTCTGAATG
1 TCGATGCATGTCCCAGACATGTCTTACACTGA-CACATC-TC-G-AGG
* *
22437793 CCGATGCCATATCCCAGACATGGTCTTACACT
1 TCGATG-CATGTCCCAGACAT-GTCTTACACT
22437825 AGCTCACAAT
Statistics
Matches: 107, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
43 2 0.02
44 16 0.15
45 15 0.14
46 52 0.49
47 12 0.11
48 10 0.09
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
TCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAGG
Found at i:22443400 original size:9 final size:9
Alignment explanation
Indices: 22443374--22443410 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
22443364 TATTCATAAT
22443374 ATTTTTAT-
1 ATTTTTATA
22443382 ATTTTTATA
1 ATTTTTATA
22443391 ATTTTTATA
1 ATTTTTATA
*
22443400 AATTTTA-A
1 ATTTTTATA
22443408 ATT
1 ATT
22443411 AATTAATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 11 0.42
9 15 0.58
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:22461012 original size:25 final size:27
Alignment explanation
Indices: 22460958--22461017 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
22460948 GTAATAAAGA
22460958 TTTTTTTTAATTTAATATTTCATTAGAAT
1 TTTTTTTTAATTTAATA-TT-ATTAGAAT
22460987 TTTTTTTCTAATTTAATA-T-TTA-AAT
1 TTTTTTT-TAATTTAATATTATTAGAAT
22461012 TTTTTT
1 TTTTTT
22461018 AGTTTAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 9 0.30
26 3 0.10
28 1 0.03
29 7 0.23
30 10 0.33
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTTTTTAATTTAATATTATTAGAAT
Found at i:22461590 original size:57 final size:57
Alignment explanation
Indices: 22461503--22461684 Score: 213
Period size: 57 Copynumber: 3.2 Consensus size: 57
22461493 AAAAGGTTAG
* * *
22461503 GTACCAAAATGGACAAAAAAAACATAGGTACCAAATTAAGAAAACGTGTCAAGTTTAA
1 GTACCAAATTGGA-AAAAAAAACTTAGGTACCAAATTAAGAAAACATGTCAAGTTTAA
* * ** *
22461561 GTACCAAATTGGATAAAAAAACTTAGGTACC-AATTTAGTAAATTATGTTAAGTTTAA
1 GTACCAAATTGGAAAAAAAAACTTAGGTACCAAATTAAG-AAAACATGTCAAGTTTAA
* ** * *
22461618 GTACCAAATTAGAAAAAAAAACTTAAATACCAAATTAAGAAAACATATCAAATTTAA
1 GTACCAAATTGGAAAAAAAAACTTAGGTACCAAATTAAGAAAACATGTCAAGTTTAA
*
22461675 ATACCAAATT
1 GTACCAAATT
22461685 TTTATTATTT
Statistics
Matches: 103, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
56 6 0.06
57 79 0.77
58 18 0.17
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (57 bp):
GTACCAAATTGGAAAAAAAAACTTAGGTACCAAATTAAGAAAACATGTCAAGTTTAA
Found at i:22461648 original size:26 final size:30
Alignment explanation
Indices: 22461614--22461684 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 30
22461604 TATGTTAAGT
*
22461614 TTAAGTACCAAATT-AGAAAA-A-A-AAAC
1 TTAAATACCAAATTAAGAAAACATACAAAC
*
22461640 TTAAATACCAAATTAAGAAAACATATCAAAT
1 TTAAATACCAAATTAAGAAAACATA-CAAAC
22461671 TTAAATACCAAATT
1 TTAAATACCAAATT
22461685 TTTATTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
26 13 0.34
27 6 0.16
28 1 0.03
29 1 0.03
31 17 0.45
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.25
Consensus pattern (30 bp):
TTAAATACCAAATTAAGAAAACATACAAAC
Found at i:22467440 original size:37 final size:37
Alignment explanation
Indices: 22467399--22467574 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
22467389 TTTGAGTACT
22467399 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
22467436 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
22467473 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
22467510 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
22467547 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
22467575 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:22467646 original size:45 final size:46
Alignment explanation
Indices: 22467537--22467660 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
22467527 GTGATAAGTG
* *
22467537 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
22467583 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
22467628 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
22467661 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:22480358 original size:91 final size:94
Alignment explanation
Indices: 22480191--22480361 Score: 242
Period size: 91 Copynumber: 1.9 Consensus size: 94
22480181 CTTGTGTGAA
* *
22480191 CTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATTAGAGTCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATTAGAGTCAGTGTAAGACCATGTCA
* *
22480256 GGGGCTTGGCATCGGTATTGAGACGAATG
66 GGGACATGGCATCGGTATTGAGACGAATG
* * *
22480285 CTAGTGTAAGACATGTCTGGGACAT-CATCGGCTACGA-GA-T-GTGTCAGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATGATTAGAGTCAGTGTAAGACCATGTC
22480346 AGGGACATGGCATCGG
65 AGGGACATGGCATCGG
22480362 CACATATATG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 33 0.48
92 1 0.01
93 9 0.13
94 26 0.38
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATTAGAGTCAGTGTAAGACCATGTCA
GGGACATGGCATCGGTATTGAGACGAATG
Found at i:22483190 original size:26 final size:25
Alignment explanation
Indices: 22483160--22483248 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 25
22483150 TTGTTATTAA
22483160 ATTTTAATAAGATTATTATTAAACAT
1 ATTTTAATAA-ATTATTATTAAACAT
** * *
22483186 ATTTTAATAAAAAATAATTTAATCAT
1 ATTTTAATAAATTATTA-TTAAACAT
* * *
22483212 ATTTTAACATAATTATTATTAAATAA
1 ATTTTAATA-AATTATTATTAAACAT
*
22483238 AATTTAATAAA
1 ATTTTAATAAA
22483249 ATAATATATG
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
25 6 0.12
26 37 0.77
27 5 0.10
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (25 bp):
ATTTTAATAAATTATTATTAAACAT
Found at i:22483227 original size:52 final size:54
Alignment explanation
Indices: 22483171--22483319 Score: 142
Period size: 52 Copynumber: 2.7 Consensus size: 54
22483161 TTTTAATAAG
* *
22483171 ATTATTATTAAACATATTTTAATAAAAAATA-AT-TTAATCATATT-TTAACATA
1 ATTATTATTAAA-ATATTTTAATAAAAAATATATATTAATAACATTCTTAACATA
* * *
22483223 ATTATTATTAAATAAAATTTAATAAAATAATATATGAATTAATAACATTCTTAATATA
1 ATTATTATTAAA-ATATTTTAATAAAA-AATATAT--ATTAATAACATTCTTAACATA
* *
22483281 ATTATTATTAAAATATGAATTAATAAAAAACATAATATT
1 ATTATTATTAAAATAT--TTTAATAAAAAATAT-ATATT
22483320 TAGTCAGAGG
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
52 24 0.31
53 4 0.05
54 2 0.03
57 14 0.18
58 23 0.29
59 11 0.14
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (54 bp):
ATTATTATTAAAATATTTTAATAAAAAATATATATTAATAACATTCTTAACATA
Found at i:22488188 original size:37 final size:37
Alignment explanation
Indices: 22488109--22488184 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
22488099 ACAACTTCAT
*
22488109 ATTGCTATCCAAAAACAAGAATCATCACATCAACACA
1 ATTGCTATCCAAAAACAAGAATCATCACATCAACAAA
*
22488146 ATTGCTATCCAAAAACAATAATCATCACATC-ACAAA
1 ATTGCTATCCAAAAACAAGAATCATCACATCAACAAA
22488182 ATT
1 ATT
22488185 TGCTCAACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
36 7 0.19
37 30 0.81
ACGTcount: A:0.49, C:0.25, G:0.04, T:0.22
Consensus pattern (37 bp):
ATTGCTATCCAAAAACAAGAATCATCACATCAACAAA
Found at i:22488590 original size:20 final size:20
Alignment explanation
Indices: 22488565--22488606 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
22488555 TCAAGTGACA
* *
22488565 AAAATTCAAGCAGAAGAGTC
1 AAAATTCAAACAGAAAAGTC
22488585 AAAATTCAAACAGAAAAGTC
1 AAAATTCAAACAGAAAAGTC
22488605 AA
1 AA
22488607 TATGCAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAATTCAAACAGAAAAGTC
Found at i:22490715 original size:11 final size:11
Alignment explanation
Indices: 22490699--22490739 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
22490689 CTACAGACAC
22490699 ATTCGACAATG
1 ATTCGACAATG
*
22490710 ATTCGATAATG
1 ATTCGACAATG
22490721 ATTCGACAATG
1 ATTCGACAATG
22490732 ATTCGACA
1 ATTCGACA
22490740 TTTGAAATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (11 bp):
ATTCGACAATG
Found at i:22505562 original size:23 final size:23
Alignment explanation
Indices: 22505531--22505576 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
22505521 TGCTTGCCTT
*
22505531 TAAGTAATAAACATGCAAGAAAA
1 TAAGAAATAAACATGCAAGAAAA
*
22505554 TAAGAAATAAACATGTAAGAAAA
1 TAAGAAATAAACATGCAAGAAAA
22505577 GAAAATGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (23 bp):
TAAGAAATAAACATGCAAGAAAA
Found at i:22507088 original size:19 final size:19
Alignment explanation
Indices: 22507067--22507112 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
22507057 ATTAAACTAA
22507067 AAAAATAAA-AATCATTCC
1 AAAAATAAAGAATCATTCC
22507085 AAAAATAAAGAATCATTCC
1 AAAAATAAAGAATCATTCC
22507104 AAAAATAAA
1 AAAAATAAA
22507113 TTAAGTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAAATAAAGAATCATTCC
Found at i:22507213 original size:12 final size:12
Alignment explanation
Indices: 22507198--22507236 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
22507188 TTTACCCGTT
22507198 TCTTTCTCTGGA
1 TCTTTCTCTGGA
*
22507210 TCTTTCTCAGGA
1 TCTTTCTCTGGA
* *
22507222 TCTTCCTCTGAA
1 TCTTTCTCTGGA
22507234 TCT
1 TCT
22507237 GCCTTTCCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.13, C:0.28, G:0.13, T:0.46
Consensus pattern (12 bp):
TCTTTCTCTGGA
Found at i:22511381 original size:19 final size:19
Alignment explanation
Indices: 22511357--22511401 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
22511347 TGAAACAGGG
* *
22511357 AAGGAATGAAGGAAA-AAGA
1 AAGGAAAGAAAGAAAGAA-A
22511376 AAGGAAAGAAAGAAAGAAA
1 AAGGAAAGAAAGAAAGAAA
22511395 AAGGAAA
1 AAGGAAA
22511402 AATTGGGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAGAAA
Found at i:22515423 original size:25 final size:25
Alignment explanation
Indices: 22515389--22515609 Score: 345
Period size: 25 Copynumber: 8.8 Consensus size: 25
22515379 GACCTCAGCA
*
22515389 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
* *
22515414 TGCTCCCTGAATATTAGCACGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
22515439 TGCTATCTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
22515464 TGCTCTCTGAATATTAGCACGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
* *
22515489 TGCTCTCTGATTATTAGCATGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
22515514 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
22515539 TGCTCTCTGAATATTAGCATGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
22515564 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
22515589 TGCTCTCTG-ATATTTAGCACG
1 TGCTCTCTGAATA-TTAGCACG
22515610 TTTGTTCTCT
Statistics
Matches: 180, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
24 3 0.02
25 177 0.98
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (25 bp):
TGCTCTCTGAATATTAGCACGCCAG
Found at i:22515629 original size:22 final size:21
Alignment explanation
Indices: 22515601--22515668 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
22515591 CTCTCTGATA
*
22515601 TTTAGCACGTTTGTTCTCTCTG
1 TTTAGCAC-TTTGTGCTCTCTG
* *
22515623 TTTAGCACATATGTGCTCTATG
1 TTTAGCAC-TTTGTGCTCTCTG
*
22515645 TATAGCACTTTAGTGCTCTCTG
1 TTTAGCACTTT-GTGCTCTCTG
22515667 TT
1 TT
22515669 CATTAGTGCA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 2 0.05
22 35 0.95
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (21 bp):
TTTAGCACTTTGTGCTCTCTG
Found at i:22520249 original size:18 final size:18
Alignment explanation
Indices: 22520226--22520397 Score: 182
Period size: 18 Copynumber: 9.6 Consensus size: 18
22520216 AAAATAAAGG
* *
22520226 TACTGAATAACTGACTGC
1 TACTGAATAAATGACTGT
*
22520244 TACTGAATAAATGACTAT
1 TACTGAATAAATGACTGT
* * * *
22520262 TGCTGAATAACTGATTAT
1 TACTGAATAAATGACTGT
*
22520280 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
**
22520298 GGCTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
* * *
22520316 TACTGAATAACTGATTAT
1 TACTGAATAAATGACTGT
*
22520334 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
*
22520352 GACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
* * *
22520370 TACTGAATAAATAATTAT
1 TACTGAATAAATGACTGT
22520388 TACTGAATAA
1 TACTGAATAA
22520398 CTGATTAATA
Statistics
Matches: 127, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 127 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:22520295 original size:54 final size:54
Alignment explanation
Indices: 22520226--22520397 Score: 274
Period size: 54 Copynumber: 3.2 Consensus size: 54
22520216 AAAATAAAGG
* * *
22520226 TACTGAATAACTGACTGCT-ACTGAATAAATGACTATTGCTGAATAACTGATTAT
1 TACTGAATAATTGACTG-TGACTGAATAAATGACTGTTACTGAATAACTGATTAT
*
22520280 TACTGAATAATTGACTGTGGCTGAATAAATGACTGTTACTGAATAACTGATTAT
1 TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAACTGATTAT
* *
22520334 TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAAATAATTAT
1 TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAACTGATTAT
22520388 TACTGAATAA
1 TACTGAATAA
22520398 CTGATTAATA
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 1 0.01
54 109 0.99
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (54 bp):
TACTGAATAATTGACTGTGACTGAATAAATGACTGTTACTGAATAACTGATTAT
Found at i:22528712 original size:9 final size:9
Alignment explanation
Indices: 22528700--22528724 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22528690 TAAATTATAT
22528700 ATATTTTAA
1 ATATTTTAA
22528709 ATATTTTAA
1 ATATTTTAA
22528718 ATATTTT
1 ATATTTT
22528725 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATATTTTAA
Found at i:22528719 original size:51 final size:52
Alignment explanation
Indices: 22528623--22528728 Score: 121
Period size: 52 Copynumber: 2.1 Consensus size: 52
22528613 TATTTTTGTA
*
22528623 ATATTTAAAAAAATTAAAAATACATATATTTTTATCATTTATAAAT-TCTTTT
1 ATATTTAAAAAAATTAAAAATACATATATTTTAATCATTTATAAATAT-TTTT
* * *
22528675 ATATTT-AAAAAAGTATAAATTATATATATTTTAAAT-ATTT-TAAATATTTTT
1 ATATTTAAAAAAATTA-AAAATACATATATTTT-AATCATTTATAAATATTTTT
22528726 ATA
1 ATA
22528729 AAAAAATAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
51 20 0.43
52 25 0.53
53 2 0.04
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (52 bp):
ATATTTAAAAAAATTAAAAATACATATATTTTAATCATTTATAAATATTTTT
Found at i:22529197 original size:11 final size:11
Alignment explanation
Indices: 22529181--22529211 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22529171 ATACCCATAC
22529181 CCCATACCTTG
1 CCCATACCTTG
*
22529192 CCCATACCTTT
1 CCCATACCTTG
22529203 CCCATACCT
1 CCCATACCT
22529212 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:22529786 original size:18 final size:18
Alignment explanation
Indices: 22529757--22529867 Score: 177
Period size: 18 Copynumber: 6.2 Consensus size: 18
22529747 TACGACCGTT
22529757 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
22529775 TATGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
22529793 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
22529811 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
22529829 TACGGAACTATTCACGTA
1 TACGGTACTATTCACGTA
*
22529847 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
22529865 TAC
1 TAC
22529868 AGTAGTTGGG
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 84 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:22529843 original size:54 final size:54
Alignment explanation
Indices: 22529761--22529871 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
22529751 ACCGTTTACG
* *
22529761 GTACTATTCACGTATATGGCACTATTCACGTATACGGTACTATTCACGTATACA
1 GTACTATTCACGTATACGGAACTATTCACGTATACGGTACTATTCACGTATACA
*
22529815 GTACTATTCACGTATACGGAACTATTCACGTATACGGTACTGTTCACGTATACA
1 GTACTATTCACGTATACGGAACTATTCACGTATACGGTACTATTCACGTATACA
22529869 GTA
1 GTA
22529872 GTTGGGATTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (54 bp):
GTACTATTCACGTATACGGAACTATTCACGTATACGGTACTATTCACGTATACA
Found at i:22533937 original size:11 final size:11
Alignment explanation
Indices: 22533921--22533951 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22533911 ATACCCATAC
22533921 CCCATACCTTG
1 CCCATACCTTG
*
22533932 CCCATACCTTT
1 CCCATACCTTG
22533943 CCCATACCT
1 CCCATACCT
22533952 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:22543871 original size:77 final size:76
Alignment explanation
Indices: 22543786--22543945 Score: 198
Period size: 77 Copynumber: 2.1 Consensus size: 76
22543776 AATTAAAGGT
* * ** * *
22543786 AAATAAAATTTGTTTCGGGATTGATTTTCGTCATTTAAC-GATTTATTCCAAATTTT-ATTTATT
1 AAATAAAATCTGTTTCGAGATTGATTCCCGCCATTCAACGGATTTATT--AAATTTTGATTTATT
*
22543849 TCCAAAAATGAGTA
64 GCCAAAAATGAG-A
*
22543863 AAATAAAATCTGTTTCGAGATTGATTCCCGCCATTCAACGGATTTATTAAATTTTGATTTGTTGC
1 AAATAAAATCTGTTTCGAGATTGATTCCCGCCATTCAACGGATTTATTAAATTTTGATTTATTGC
22543928 CAAAAATGAGA
66 CAAAAATGAGA
*
22543939 AATTAAA
1 AAATAAA
22543946 TTAAATAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
76 14 0.19
77 50 0.69
78 8 0.11
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (76 bp):
AAATAAAATCTGTTTCGAGATTGATTCCCGCCATTCAACGGATTTATTAAATTTTGATTTATTGC
CAAAAATGAGA
Found at i:22544152 original size:12 final size:13
Alignment explanation
Indices: 22544135--22544160 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22544125 GGGATTTATT
22544135 TCCCCCGTTTAAC
1 TCCCCCGTTTAAC
22544148 TCCCCCGTTTAAC
1 TCCCCCGTTTAAC
22544161 AAGATTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.46, G:0.08, T:0.31
Consensus pattern (13 bp):
TCCCCCGTTTAAC
Found at i:22559740 original size:12 final size:12
Alignment explanation
Indices: 22559723--22559749 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22559713 ATTTTTACGG
22559723 TTTAATAACTTT
1 TTTAATAACTTT
22559735 TTTAATAACTTT
1 TTTAATAACTTT
22559747 TTT
1 TTT
22559750 CATCTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTAATAACTTT
Found at i:22561654 original size:36 final size:36
Alignment explanation
Indices: 22561607--22561676 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
22561597 TTACTAAAGT
*
22561607 AAATTGCAATAGACTATTACAACTCATTGCCAACAC
1 AAATTGCAATAGACTATTACAACTCATTACCAACAC
22561643 AAATTGCAATAGACTATTACAACTCATTACCAAC
1 AAATTGCAATAGACTATTACAACTCATTACCAAC
22561677 TATTACAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (36 bp):
AAATTGCAATAGACTATTACAACTCATTACCAACAC
Found at i:22561829 original size:23 final size:24
Alignment explanation
Indices: 22561803--22561865 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
22561793 AACAAAATTG
*
22561803 AAAGCGGCAGTGAAATAACATTA-
1 AAAGCGGCAGTGAAACAACATTAC
* * *
22561826 AAAGCAGTAGTAAAACAACATTAC
1 AAAGCGGCAGTGAAACAACATTAC
22561850 AAA-CGGCAGTGAAACA
1 AAAGCGGCAGTGAAACA
22561866 GCACCAAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
23 29 0.91
24 3 0.09
ACGTcount: A:0.51, C:0.16, G:0.19, T:0.14
Consensus pattern (24 bp):
AAAGCGGCAGTGAAACAACATTAC
Found at i:22564327 original size:47 final size:47
Alignment explanation
Indices: 22564258--22564352 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
22564248 ATTAAGAAAG
22564258 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
1 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
22564305 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
1 AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
22564352 A
1 A
22564353 TAAGATATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (47 bp):
AAAAGTGTTGAAACATGACTGGTTGAATATTTTTTTATTATTTTATT
Found at i:22570238 original size:50 final size:50
Alignment explanation
Indices: 22570163--22570339 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
22570153 CCATGGAAAC
22570163 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * * *
22570213 AAGTGATAAGTAATAACTTTGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
22570263 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * * *
22570313 CAACTAAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
22570340 CTGATCAGTG
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
50 87 0.79
51 23 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:22570357 original size:31 final size:31
Alignment explanation
Indices: 22570319--22570487 Score: 257
Period size: 31 Copynumber: 5.5 Consensus size: 31
22570309 ATGACAACTA
22570319 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
*
22570350 AAAAGTGGTAGTTTCAGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
* * *
22570381 AAAAGTAGTAGCTTCTGCTACCTAATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
*
22570412 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
* **
22570443 AAAAATGGTAGCACCAGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
*
22570474 AATAGTGGTAGCTT
1 AAAAGTGGTAGCTT
22570488 TGACTACAAG
Statistics
Matches: 122, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 122 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCAGCTACCTGATCAGTG
Found at i:22570505 original size:7 final size:7
Alignment explanation
Indices: 22570493--22570521 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
22570483 AGCTTTGACT
22570493 ACAAGTG
1 ACAAGTG
22570500 ACAAGTG
1 ACAAGTG
22570507 ACAAGTG
1 ACAAGTG
22570514 ACAAGTG
1 ACAAGTG
22570521 A
1 A
22570522 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:22570594 original size:47 final size:48
Alignment explanation
Indices: 22570519--22570650 Score: 178
Period size: 47 Copynumber: 2.8 Consensus size: 48
22570509 AAGTGACAAG
* * *
22570519 TGATTTCTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATA
1 TGATTACTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATA
* *
22570567 TG-TTACTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATG
1 TGATTACTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATA
* * *
22570614 TGATTAC-GTGTAAGACCATAGCTGGGCTATGGCATCA
1 TGATTACTGTATAAGACCATATCTGGGATATGGCATCA
22570651 TTATGTAAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
47 68 0.92
48 6 0.08
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (48 bp):
TGATTACTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATA
Found at i:22574551 original size:9 final size:9
Alignment explanation
Indices: 22574537--22574594 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
22574527 TCCTCATTCC
22574537 TTTTTATTA
1 TTTTTATTA
22574546 TTTTTATTA
1 TTTTTATTA
22574555 TTTTTATT-
1 TTTTTATTA
*
22574563 TTTATTTTTA
1 TTT-TTATTA
*
22574573 TTATTATT-
1 TTTTTATTA
*
22574581 TCTTTATTA
1 TTTTTATTA
22574590 TTTTT
1 TTTTT
22574595 TATTTTCCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
8 9 0.22
9 29 0.73
10 2 0.05
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTATTA
Found at i:22574561 original size:6 final size:6
Alignment explanation
Indices: 22574537--22574624 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
22574527 TCCTCATTCC
* * *
22574537 TTTTTA TTATTT- TTATTA TTTTTA TTTTTA TTTTTA TTATTA TTTCT-
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
22574584 TTATTA TTTTTTA TTTTCCT- TGTTTTA TTTTTA TTTTTA TT
1 TTTTTA -TTTTTA TTTT--TA T-TTTTA TTTTTA TTTTTA TT
22574625 AGCTTTGTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 5 0.08
6 47 0.71
7 10 0.15
8 4 0.06
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:22574569 original size:21 final size:20
Alignment explanation
Indices: 22574537--22574618 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 20
22574527 TCCTCATTCC
*
22574537 TTTTTATTATTTTTATTATT
1 TTTTTTTTATTTTTATTATT
22574557 TTTATTTTTATTTTTATTATT
1 TTT-TTTTTATTTTTATTATT
* * *
22574578 ATTTCTTTATTATTTTTTATT
1 TTTTTTTTATT-TTTATTATT
22574599 TTCCTTGTTTTATTTTTATT
1 TT--TT-TTTTATTTTTATT
22574619 TTTATTAGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 10 0.20
21 27 0.54
23 7 0.14
24 6 0.12
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (20 bp):
TTTTTTTTATTTTTATTATT
Found at i:22574617 original size:30 final size:32
Alignment explanation
Indices: 22574533--22574618 Score: 86
Period size: 33 Copynumber: 2.7 Consensus size: 32
22574523 TACATCCTCA
* *
22574533 TTCCTTTTTATTATTTTTATTATTTTTATTTT
1 TTCCTTATTATTATTTTTATTATTTTTATATT
**
22574565 TATTTTTATTATTATTTCTTTATTATTTTT-TATT
1 T-TCCTTATTATTA-TT-TTTATTATTTTTATATT
*
22574599 TTCCTTGTT-TTATTTTTATT
1 TTCCTTATTATTATTTTTATT
22574619 TTTATTAGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
30 6 0.14
31 2 0.05
32 4 0.09
33 14 0.32
34 6 0.14
35 12 0.27
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (32 bp):
TTCCTTATTATTATTTTTATTATTTTTATATT
Found at i:22574677 original size:34 final size:37
Alignment explanation
Indices: 22574611--22574690 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 37
22574601 CCTTGTTTTA
* *
22574611 TTTTTATTTTTATTAGCTTTGTTATTGATTTATTG-T
1 TTTTTATTATTATTAGCTATGTTATTGATTTATTGAT
*
22574647 TTTTTATTATTATT-GC-ATGTTATTGCTTTATTGAT
1 TTTTTATTATTATTAGCTATGTTATTGATTTATTGAT
22574682 TTGTTTATT
1 TT-TTTATT
22574691 CTTGTTCAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
34 15 0.38
35 5 0.13
36 19 0.49
ACGTcount: A:0.17, C:0.04, G:0.11, T:0.68
Consensus pattern (37 bp):
TTTTTATTATTATTAGCTATGTTATTGATTTATTGAT
Found at i:22577514 original size:50 final size:51
Alignment explanation
Indices: 22577395--22577526 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 51
22577385 GTTGTGAGAA
* * **
22577395 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGG-TTTAGGT
* * *
22577447 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
* *
22577497 CGCATGTGTAGTACTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
22577527 TACATACCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
50 33 0.47
52 37 0.53
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
Found at i:22577602 original size:51 final size:51
Alignment explanation
Indices: 22577395--22577677 Score: 171
Period size: 51 Copynumber: 5.5 Consensus size: 51
22577385 GTTGTGAGAA
* * * *
22577395 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAA-ATGGTTTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTG-TAAAAGATAGCTTT-GGT
* * * * ** * *
22577447 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
* * * * *** **** * * *
22577497 CGCATGTGTAGTACTAAGTGTAGGCTACTATACATACCCTATAACTTCGAT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
*
22577548 CACATGTGTGGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
* * * * *
22577599 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AATAATG-TAGCTTT-GA
1 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAA-AA-GATAGCTTTGGT
* * *
22577649 CTACAAGGGTGGTACTATGTGCAGGCCAC
1 C-ACATGTGTAGTACTATGTGCAGGCCAC
22577678 CGGGTATCCG
Statistics
Matches: 184, Mismatches: 42, Indels: 11
0.78 0.18 0.05
Matches are distributed among these distances:
50 40 0.22
51 110 0.60
52 34 0.18
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
Found at i:22583203 original size:28 final size:29
Alignment explanation
Indices: 22583141--22583209 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
22583131 GCGTTCTCTC
* * *
22583141 TATTTTGAATATGCACTTCGGTGTTATCT
1 TATTCTGAATACGCACTTCAGTGTTATCT
*
22583170 TATTCTGAATACGCA-TTCAGTGTTGTCT
1 TATTCTGAATACGCACTTCAGTGTTATCT
*
22583198 TGTTCTGAATAC
1 TATTCTGAATAC
22583210 ACACATCGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (29 bp):
TATTCTGAATACGCACTTCAGTGTTATCT
Found at i:22591051 original size:20 final size:20
Alignment explanation
Indices: 22591021--22591074 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
22591011 ACAATTAATT
* *
22591021 TATTTAAATATTAAATTTAA
1 TATTAAAATATTAAATATAA
*
22591041 -ATTAAAAATATAAAATATAA
1 TATT-AAAATATTAAATATAA
*
22591061 TATTATAATATTAA
1 TATTAAAATATTAA
22591075 CAATTTAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TATTAAAATATTAAATATAA
Found at i:22593618 original size:34 final size:34
Alignment explanation
Indices: 22593577--22593659 Score: 116
Period size: 34 Copynumber: 2.4 Consensus size: 34
22593567 TTTATATTTT
22593577 TTTAATTAGA-ATTTTATAATAACAC-TTCTAACTA
1 TTTAATTAGATATTTT-T-ATAACACTTTCTAACTA
* *
22593611 TTTAATTAGATATGTTTATAACACTTTTTAACTA
1 TTTAATTAGATATTTTTATAACACTTTCTAACTA
22593645 TTTAATTAGATATTT
1 TTTAATTAGATATTT
22593660 AGAGTAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
33 7 0.16
34 33 0.75
35 4 0.09
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (34 bp):
TTTAATTAGATATTTTTATAACACTTTCTAACTA
Found at i:22596434 original size:15 final size:15
Alignment explanation
Indices: 22596414--22596444 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22596404 GATCGTCATT
22596414 ATCATCTTCTTCTTC
1 ATCATCTTCTTCTTC
22596429 ATCATCTTCTTCTTC
1 ATCATCTTCTTCTTC
22596444 A
1 A
22596445 ATGATTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (15 bp):
ATCATCTTCTTCTTC
Found at i:22609024 original size:20 final size:20
Alignment explanation
Indices: 22608971--22609068 Score: 76
Period size: 20 Copynumber: 4.9 Consensus size: 20
22608961 TGCTATACAG
*
22608971 AGGCACCGTAGTGCAAAT-AA
1 AGGCACCGAAGTGC-AATCAA
* *
22608991 AGGCA-CGATTGTGCAATCAG
1 AGGCACCGA-AGTGCAATCAA
* *
22609011 AGGCATCGAAGTGCAAACAA
1 AGGCACCGAAGTGCAATCAA
* * *
22609031 AGACACCGAAGTGTAAGCACA
1 AGGCACCGAAGTGCAATCA-A
22609052 A-GCACCGAAGTGCAATC
1 AGGCACCGAAGTGCAATC
22609069 TCGTACAAGC
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
19 5 0.08
20 51 0.84
21 5 0.08
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.13
Consensus pattern (20 bp):
AGGCACCGAAGTGCAATCAA
Found at i:22616569 original size:16 final size:18
Alignment explanation
Indices: 22616495--22616572 Score: 54
Period size: 19 Copynumber: 4.3 Consensus size: 18
22616485 AATATAAAAG
* *
22616495 AAATTATAAAAATTGCAAA
1 AAATAATAAAATTTG-AAA
* *
22616514 AAAAAATTAAATTAT-ACAA
1 AAATAATAAAATT-TGA-AA
22616533 AAATTAATAAAATTTGAAA
1 AAA-TAATAAAATTTGAAA
*
22616552 AAATAA-AAAA-TTGTAA
1 AAATAATAAAATTTGAAA
22616568 AAATA
1 AAATA
22616573 TTTAAAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
16 10 0.21
17 4 0.08
18 4 0.08
19 20 0.42
20 10 0.21
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAATAAAATTTGAAA
Found at i:22619479 original size:22 final size:22
Alignment explanation
Indices: 22619454--22619497 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
22619444 ACAATCAACT
22619454 TGTACAGATATGGCAGCGTCAA
1 TGTACAGATATGGCAGCGTCAA
22619476 TGTACAGATATGGCAGCGTCAA
1 TGTACAGATATGGCAGCGTCAA
22619498 GTTTCTATAC
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:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (22 bp):
TGTACAGATATGGCAGCGTCAA
Found at i:22623948 original size:38 final size:38
Alignment explanation
Indices: 22623906--22623982 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
22623896 ATTAATTGTT
*
22623906 AGTACAAATGTTACGTTTGATGAATTTTCCATGTTTCG
1 AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
22623944 AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
1 AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
22623982 A
1 A
22623983 TAAAAAATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.40
Consensus pattern (38 bp):
AGTACAAATGTTACGTTTGATGAATCTTCCATGTTTCG
Found at i:22631714 original size:15 final size:15
Alignment explanation
Indices: 22631694--22631801 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
22631684 TTTATGGAAA
22631694 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
22631709 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
22631723 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
22631739 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
22631753 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
22631769 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
22631783 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
22631799 ATC
1 ATC
22631802 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:22631731 original size:30 final size:30
Alignment explanation
Indices: 22631688--22631811 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
22631678 TCCATATTTA
* *
22631688 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
22631718 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
22631748 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
22631778 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
22631809 TGG
1 TGG
22631812 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:22636406 original size:15 final size:15
Alignment explanation
Indices: 22636386--22636463 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
22636376 TTTATGGAAA
22636386 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
22636401 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
22636415 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
22636431 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
22636445 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
22636461 ATC
1 ATC
22636464 GAGATATTAG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:22636423 original size:30 final size:30
Alignment explanation
Indices: 22636382--22636463 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
22636372 CATATTTATG
*
22636382 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
22636412 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
22636442 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
22636464 GAGATATTAG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:22641071 original size:20 final size:20
Alignment explanation
Indices: 22641048--22641100 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
22641038 AAATGAAAAT
*
22641048 AAATATATAAAAAAT-TCAGA
1 AAATATATAAAAAATCT-AAA
* *
22641068 AAATATATATATAATCTAAA
1 AAATATATAAAAAATCTAAA
22641088 AAATATATAAAAA
1 AAATATATAAAAA
22641101 TAAAATTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
AAATATATAAAAAATCTAAA
Found at i:22641174 original size:19 final size:19
Alignment explanation
Indices: 22641150--22641190 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22641140 ATATTATTTA
22641150 AAAAATGTAAAAAAATTGT
1 AAAAATGTAAAAAAATTGT
* * *
22641169 AAAAATTTTAAAGAATTGT
1 AAAAATGTAAAAAAATTGT
22641188 AAA
1 AAA
22641191 TAAAATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (19 bp):
AAAAATGTAAAAAAATTGT
Found at i:22645097 original size:18 final size:18
Alignment explanation
Indices: 22645057--22645097 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
22645047 TTATTCTTTC
*
22645057 TTTTATTATTATTATTAC
1 TTTTATTATTATTATTAA
22645075 TTTTATTATTATT-TTAA
1 TTTTATTATTATTATTAA
22645092 TCTTTA
1 T-TTTA
22645098 CACATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATTATTATTATTAA
Found at i:22647245 original size:13 final size:11
Alignment explanation
Indices: 22647209--22647239 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22647199 CTGCCCGTAT
22647209 TAATTTTTATA
1 TAATTTTTATA
*
22647220 TTATTTTTATA
1 TAATTTTTATA
22647231 TAATTTTTA
1 TAATTTTTA
22647240 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:22650249 original size:44 final size:44
Alignment explanation
Indices: 22650196--22651060 Score: 386
Period size: 44 Copynumber: 19.1 Consensus size: 44
22650186 GGTACAGGAA
* * *
22650196 TTGTTGCTTCGATCTACTCCACTGCAATTTCAGGGAGATAAGAC
1 TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
* * *
22650240 TTGTAGCTTCAATCTGCTCCGCTGCAATTTCAGGGAGATGAGAT
1 TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
* * *
22650284 TTGTATCTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
*
22650328 TTG--GCTTGAATCTACTCCACTGC-ATCTTCAGGGAGATAAGATTTGT
1 TTGTAGCTTCAATCTACTCCACTGCAAT-TTCAGGGAGATAAGA----T
* * ** * * *
22650374 AACTTGTAGTTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGAT
1 ---TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
** * * ** * * *
22650421 TCACTATCTTTAATCTGTTCTACTGTAACTTT-AGGGAGATAAGAC
1 T-TGTAGCTTCAATCTACTCCACTGCAA-TTTCAGGGAGATAAGAT
* * * * * * *
22650466 TTGTAACTTCAACCTGCCCCACTGCAACTTC-GTAGAGATAAAAT
1 TTGTAGCTTCAATCTACTCCACTGCAATTTCAG-GGAGATAAGAT
* ** * * *
22650510 TTGTTATCTTTGATTTGCTCCACTGC-ATCTTTAGGGAGATAAGAT
1 TTG-TAGCTTCAATCTACTCCACTGCAAT-TTCAGGGAGATAAGAT
* * * *
22650555 TTGTAACTTCAATATGCTCTACTGCAACTTT-AGGGAGATAAGATTTGTAAT
1 TTGTAGCTTCAATCTACTCCACTGCAA-TTTCAGGGAGAT-A-A---G--AT
* * * * *
22650606 TTGTAGCTTTAATCTATTCCACTGTAACTTT-AGGGAAATAGGAT
1 TTGTAGCTTCAATCTACTCCACTGCAA-TTTCAGGGAGATAAGAT
* * * * * * *
22650650 TCGCTATCTTTAGTCTACTCCACCGCAACTTCAGGGAGATAAGAC
1 TTG-TAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
* * * *
22650695 TTGTAACTTCCA-CATGCTCCACTGCAACTTT-AAGGAGATAAGGTTTATAAT
1 TTGTAGCTTCAATC-TACTCCACTGCAA-TTTCAGGGAGATAA-G------AT
** * ** * * *
22650746 TTGTATTTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGAT
1 TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
* * * * * * *
22650790 TTGCTATCTTTAGTTTACTCCACTACAACTTCAGGGAAATAAGAT
1 TTG-TAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
* * * * * * * *
22650835 TTGCTATCTTTAGTTTACTCCACTGTAACTTCAGGGAGAAAAGAC
1 TTG-TAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
* * * * *
22650880 TTGTAACTTCAACCTTCTCCATTGCAACTTT-AGGGAGATAAGGT
1 TTGTAGCTTCAATCTACTCCACTGCAA-TTTCAGGGAGATAAGAT
* * * * *
22650924 TTATAGCTTTAATCT-GTCCTACTGCAACTTCAGAGAGATAAGAT
1 TTGTAGCTTCAATCTACTCC-ACTGCAATTTCAGGGAGATAAGAT
* * *** * *
22650968 TTGCTATCTTCAATCTTACTCCATTGCAACCCCCGGGAGATAAGAC
1 TTG-TAGCTTCAATC-TACTCCACTGCAATTTCAGGGAGATAAGAT
* * *
22651014 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
22651058 TTG
1 TTG
22651061 CCATTATGAT
Statistics
Matches: 626, Mismatches: 148, Indels: 94
0.72 0.17 0.11
Matches are distributed among these distances:
41 1 0.00
42 32 0.05
43 9 0.01
44 253 0.40
45 198 0.32
46 29 0.05
47 4 0.01
49 4 0.01
50 4 0.01
51 90 0.14
52 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (44 bp):
TTGTAGCTTCAATCTACTCCACTGCAATTTCAGGGAGATAAGAT
Found at i:22650628 original size:140 final size:140
Alignment explanation
Indices: 22650484--22650837 Score: 403
Period size: 140 Copynumber: 2.5 Consensus size: 140
22650474 TCAACCTGCC
* * * *
22650484 CCACTGCAACTTCGTAGAGATAAAATTTGTTATCTTT-GATTTGCTCCACTGCATCTTTAGGGAG
1 CCACTGCAACTTCGTAGAGATAAAATTTGCTATCTTTAG-TTTACTCCACTGCAACTTCAGGGAG
* * * *
22650548 ATAAGATTTGTAACTTCAATATGCTCTACTGCAACTTTAGGGAGATAAGATTTGTAATTTGTAGC
65 ATAAGATTTGTAACTTCAACATGCTCCACTGCAACTTTAAGGAGATAAGATTTATAATTTGTAGC
22650613 TTTAATCTATT
130 TTTAATCTATT
* * * * *
22650624 CCACTGTAACTT--TAGGGA-AATAGGATTCGCTATCTTTAGTCTACTCCACCGCAACTTCAGGG
1 CCACTGCAACTTCGTAGAGATAA-A--ATTTGCTATCTTTAGTTTACTCCACTGCAACTTCAGGG
* * *
22650686 AGATAAGACTTGTAACTTCCACATGCTCCACTGCAACTTTAAGGAGATAAGGTTTATAATTTGTA
63 AGATAAGATTTGTAACTTCAACATGCTCCACTGCAACTTTAAGGAGATAAGATTTATAATTTGTA
** *
22650751 TTTTTAATCTGTT
128 GCTTTAATCTATT
* * * * * *
22650764 CCACTACAACTTCAG-GGAAATAAGATTTGCTATCTTTAGTTTACTCCACTACAACTTCAGGGAA
1 CCACTGCAACTTC-GTAGAGATAAAATTTGCTATCTTTAGTTTACTCCACTGCAACTTCAGGGAG
22650828 ATAAGATTTG
65 ATAAGATTTG
22650838 CTATCTTTAG
Statistics
Matches: 175, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
137 2 0.01
138 6 0.03
140 162 0.93
141 1 0.01
142 2 0.01
143 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (140 bp):
CCACTGCAACTTCGTAGAGATAAAATTTGCTATCTTTAGTTTACTCCACTGCAACTTCAGGGAGA
TAAGATTTGTAACTTCAACATGCTCCACTGCAACTTTAAGGAGATAAGATTTATAATTTGTAGCT
TTAATCTATT
Found at i:22650628 original size:229 final size:226
Alignment explanation
Indices: 22650207--22651060 Score: 708
Period size: 229 Copynumber: 3.7 Consensus size: 226
22650197 TGTTGCTTCG
* * * * * *
22650207 ATCTACTCCACTGCAATTTCAGGGAGATAAGACTTGTAGCTTCAATCTGCTCCGCTGCAATTTCA
1 ATCTACTCCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
* * * * * *
22650272 GGGAGATGAGATTTGTATCTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGGCTTGA
66 GAGAGATAAAATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGACTTCA
* * * *
22650337 ATCTACTCCACTGCATCTTCAGGGAGATAAGATTTGTAACTTGTAGTTTTAATCTGTTCCACTGC
131 ATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTGC
22650402 AACTTCAGAGAAATAAGATTCACTATCTTTA
196 AACTTCAGAGAAATAAGATTCACTATCTTTA
** * * * * *
22650433 ATCTGTTCTACTGTAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACTGCAACTTC-
1 ATCTACTCCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
** * * * *
22650497 GTAGAGATAAAATTTGTTATCTTTGATTTGCTCCACTGCATCTTTAGGGAGATAAGATTTGTAAC
66 G-AGAGATAAAATTTG-TATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG--AC
* * * *
22650562 TTCAATATGCTCTACTGCAACTTTAGGGAGATAAGATTTGTAATTTGTAGCTTTAATCTATTCCA
127 TTCAATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCA
* * * * *
22650627 CTGTAACTTTAGGGAAATAGGATTCGCTATCTTTA
192 CTGCAACTTCAGAGAAATAAGATTCACTATCTTTA
* * * *
22650662 GTCTACTCCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCCACATGCTCCACTGCAACTTTA
1 ATCTACTCCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
* * ** * *
22650727 -AGGAGATAAGGTTTATAATTTGTATTTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATT
66 GA-GAGAT-A-----A-AATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
* * * * * *
22650791 TGCTATCTTTAGTTTACTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTT-TAG-TTT-A-
123 TG--A-CTTCAATATACTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTGTAGCTTTAAT
* * * * *
22650852 C---TCCACTGTAACTTCAGGGAGAA-AAGACTT--GTAACTTCA
184 CTATTCCACTGCAACTTCAGAGA-AATAAGA-TTCACTATCTTTA
* * ** * ** * * * *
22650891 ACCTTCTCCATTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTG-TCCTACTGCAACTTC
1 ATCTACTCCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCC-ACTGCAACTTC
* * ** * *
22650955 AGAGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACCCCCGGGAGATAAGACTTGTGG
65 AGAGAGATAAAATTTG-TATCTTCAATC-TACTCCACTGCAACTTCAGGGAGATAAGA-TT-TGA
* *
22651020 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
126 CTTCAATATACTCCACTGCAACTTCAGGGAGATAAGATTTG
22651061 CCATTATGAT
Statistics
Matches: 500, Mismatches: 105, Indels: 49
0.76 0.16 0.07
Matches are distributed among these distances:
222 5 0.01
223 45 0.09
224 21 0.04
225 3 0.01
226 66 0.13
227 37 0.07
228 5 0.01
229 202 0.40
230 23 0.05
231 4 0.01
233 1 0.00
234 1 0.00
235 41 0.08
236 42 0.08
237 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (226 bp):
ATCTACTCCACCGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
GAGAGATAAAATTTGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGACTTCA
ATATACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTCCACTGC
AACTTCAGAGAAATAAGATTCACTATCTTTA
Found at i:22651006 original size:134 final size:133
Alignment explanation
Indices: 22650815--22651055 Score: 329
Period size: 134 Copynumber: 1.8 Consensus size: 133
22650805 TACTCCACTA
* * * * **
22650815 CAACTTCAGGGAAATAAGATTTGCTATCTTTAGTTTACTCCACTGTAACTTCAGGGAGAAAAGAC
1 CAACTTCAGAGAAATAAGATTTGCTATCTTCAATTTACTCCACTGCAACCCCAGGGAGAAAAGAC
* * *
22650880 TTGTAACTTCAACCTTCTCCATTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTGTCCTA
66 TTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGTCCTA
22650945 CTG
131 CTG
* * * *
22650948 CAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACCCCCGGGAGATAAGA
1 CAACTTCAGAGAAATAAGATTTGCTATCTTCAAT-TTACTCCACTGCAACCCCAGGGAGAAAAGA
** *
22651013 CTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
65 CTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
22651056 ATTTGCCATT
Statistics
Matches: 91, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
133 30 0.33
134 61 0.67
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (133 bp):
CAACTTCAGAGAAATAAGATTTGCTATCTTCAATTTACTCCACTGCAACCCCAGGGAGAAAAGAC
TTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGTCCTA
CTG
Found at i:22651052 original size:90 final size:90
Alignment explanation
Indices: 22650207--22651061 Score: 486
Period size: 89 Copynumber: 9.4 Consensus size: 90
22650197 TGTTGCTTCG
* * * * * ** *
22650207 ATCTACTCCACTGCAATTTCAGGGAGATAAGACTTG-TAGCTTCAATC-TGCTCCGCTGCAATTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACTT
* * *
22650270 CAGGGAGATGAGATTTGTATCTTCA
66 CAGGGAGATAAGATTTGTAGCTTTA
** * * * *
22650295 ATCTATTCCACTGCAACTTCAGGGAGATAAGATTTG---GCTTGAATC-TACTCCACTGCATCTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACTT
*
22650356 CAGGGAGATAAGATTTGTAACTTGTAGTTTTA
66 CAGGGAGATAAGA----T---TTGTAGCTTTA
* * * ** * * * *
22650388 ATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCACTATCTTTAATCTGT--TCTACTGTAACT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCT-TACTCCATTGCAACT
* * * *
22650451 TTAGGGAGATAAGACTTGTAACTTCA
65 TCAGGGAGATAAGATTTGTAGCTTTA
* * * * * ** * * *
22650477 ACCTGCCCCACTGCAACTTC-GTAGAGATAAAATTTGTTATCTTTGAT-TTGCTCCACTGCATCT
1 ATCTGCTCCACTGCAACTTCAG-GGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACT
* * *
22650540 TTAGGGAGATAAGATTTGTAACTTCA
65 TCAGGGAGATAAGATTTGTAGCTTTA
* * * * * *
22650566 ATATGCTCTACTGCAACTTTAGGGAGATAAGATTTG-TAATTTGTAGCTTTAATC-TATTCCACT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-A----T--CTTCAATCTTACTCCATT
* * * * * *
22650629 GTAACTTTAGGGAAATAGGATTCGCTATCTTTA
59 GCAACTTCAGGGAGATAAGATTTG-TAGCTTTA
* * * * * * * * *
22650662 GTCTACTCCACCGCAACTTCAGGGAGATAAGACTTG-TAACTTCCA-CATGCTCCACTGCAACTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACTT
* * **
22650725 TAAGGAGATAAGGTTTATAATTTGTATTTTTA
66 CAGGGAGATAA-G------ATTTGTAGCTTTA
* * * * * * *
22650757 ATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTTAGT-TTACTCCACTACAACTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACTT
* *
22650821 CAGGGAAATAAGATTTGCTATCTTTA
66 CAGGGAGATAAGATTTG-TAGCTTTA
* * * * * * * *
22650847 GTTTACTCCACTGTAACTTCAGGGAGAAAAGACTTG-TAACTTCAACCTT-CTCCATTGCAACTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACTT
* * *
22650910 TAGGGAGATAAGGTTTATAGCTTTA
66 CAGGGAGATAAGATTTGTAGCTTTA
* *
22650935 ATCTG-TCCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACC
1 ATCTGCTCC-ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACT
* * * * *
22650999 CCCGGGAGATAAGACTTGTGGCTTCA
65 TCAGGGAGATAAGATTTGTAGCTTTA
22651025 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC
22651062 CATTATGATT
Statistics
Matches: 594, Mismatches: 132, Indels: 80
0.74 0.16 0.10
Matches are distributed among these distances:
86 32 0.05
87 4 0.01
88 69 0.12
89 178 0.30
90 101 0.17
91 3 0.01
93 40 0.07
95 70 0.12
96 96 0.16
98 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (90 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTTACTCCATTGCAACTT
CAGGGAGATAAGATTTGTAGCTTTA
Found at i:22651410 original size:34 final size:34
Alignment explanation
Indices: 22651362--22651430 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
22651352 GCCTTCTTGT
*
22651362 TCAGCCAGTATCTTTGACAGAAAACCCGAAGAAA
1 TCAGCCAGTATCTTTAACAGAAAACCCGAAGAAA
*
22651396 TCAGCCAGTTTCTTTAACAGAAAACCCGAAGAAA
1 TCAGCCAGTATCTTTAACAGAAAACCCGAAGAAA
22651430 T
1 T
22651431 AATCACAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (34 bp):
TCAGCCAGTATCTTTAACAGAAAACCCGAAGAAA
Found at i:22659358 original size:3 final size:3
Alignment explanation
Indices: 22659350--22659402 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
22659340 AATAAATAGG
* * * *
22659350 TAA TAA TAA CAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22659398 TAA TA
1 TAA TA
22659403 GTAGGACTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:22660433 original size:15 final size:15
Alignment explanation
Indices: 22660413--22660450 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
22660403 GGGCATGGTA
22660413 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
22660428 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
22660443 ATTGGGTT
1 ATTGGGTT
22660451 CTTTTGTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.08, C:0.00, G:0.45, T:0.47
Consensus pattern (15 bp):
ATTGGGTTTGTGGGT
Found at i:22660701 original size:41 final size:41
Alignment explanation
Indices: 22660644--22660830 Score: 160
Period size: 44 Copynumber: 4.4 Consensus size: 41
22660634 AATCCATTGT
* *
22660644 ACTTCAGGGAAATAAGACTTGATGCGATCTGCTCTACTGCA
1 ACTTCAGAGAGATAAGACTTGATGCGATCTGCTCTACTGCA
*** *
22660685 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCA
1 ACTTCAGAGAGATAAGA-CT-TGA-TGCGATCTGCTCTACTGCA
* * * * *
22660729 ACTTCAGAGAGATAGGA-TTGGTTTCTTCTATCTGCTCCACTGCA
1 ACTTCAGAGAGATAAGACTT-G---ATGCGATCTGCTCTACTGCA
* * * *
22660773 ACTTCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTA
1 ACTTCAGAGAGATAAGACTTGATGCGATCTGCTCTACTGCA
*
22660814 ACCTCAGAGAGATAAGA
1 ACTTCAGAGAGATAAGA
22660831 TCCTTTATTT
Statistics
Matches: 115, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
41 44 0.38
42 4 0.03
43 3 0.03
44 62 0.54
45 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
ACTTCAGAGAGATAAGACTTGATGCGATCTGCTCTACTGCA
Found at i:22660730 original size:44 final size:43
Alignment explanation
Indices: 22660674--22660871 Score: 168
Period size: 44 Copynumber: 4.6 Consensus size: 43
22660664 GATGCGATCT
22660674 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
1 GCTCTACTGCAACTTCAGAGAGATAAGATCT-TGATTTTAATCC
* * * * *
22660718 GCTCTACTGCAACTTCAGAGAGATAGGAT-TGGTTTCTTCTATCT
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTTGATT-TT-AATCC
* * *** *
22660762 GCTCCACTGCAACTTCAGGGAGATAAGA-CTTGA-TGCGATCT
1 GCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCC
* * * * *
22660803 ACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCC
1 GCTCTACTGCAACTTCAGAGAGATAAGAT-CTTGATTTTAATCC
* * *
22660847 GCTCCACTGTAACTTCAGGGAGATA
1 GCTCTACTGCAACTTCAGAGAGATA
22660872 GGATAGTGTC
Statistics
Matches: 119, Mismatches: 29, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
41 26 0.22
42 3 0.03
43 8 0.07
44 82 0.69
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCC
Found at i:22660874 original size:129 final size:129
Alignment explanation
Indices: 22660644--22660963 Score: 403
Period size: 129 Copynumber: 2.5 Consensus size: 129
22660634 AATCCATTGT
* * *
22660644 ACTTCAGGGAAATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT-CTGTG
1 ACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTACTGTAACCTCAGAGAGATAAGATCCTGTG
* * * *
22660708 ATTTTAATCCGCTCTACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCTATCTGCTCCACTGCA
66 ATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGA-TAGTGTCTTCGATCTGCTCCACTGCA
* * *
22660773 ACTTCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCT-TT
1 ACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTACTGTAACCTCAGAGAGATAAGATCCTGTG
* * * *
22660837 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTA
66 ATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATAGTGTCTTCGATCTGCTCCACTGCA
* * * * *
22660901 A-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATC
1 ACT-TCAGGGAGATAAGA-CT-T-GATGCGATCTGCTCTACTGTAACCTCAGAGAGATAAGATC
22660964 TGAAATTCTT
Statistics
Matches: 165, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
127 1 0.01
128 36 0.22
129 92 0.56
130 3 0.02
131 33 0.20
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (129 bp):
ACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTACTGTAACCTCAGAGAGATAAGATCCTGTG
ATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATAGTGTCTTCGATCTGCTCCACTGCA
Found at i:22660914 original size:87 final size:85
Alignment explanation
Indices: 22660753--22661049 Score: 237
Period size: 87 Copynumber: 3.4 Consensus size: 85
22660743 GGATTGGTTT
* * * * * * * *
22660753 CTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-ATGCGATCTACTCTGCTGTAACC
1 CTTCAATCCGCTCCACTGTAACTTCAGGGAGATAAGA-TTGTCTTCGATCTGCTCCGCTGTAATC
* *
22660817 TCAGAGAGATAAGATC-CTTTA
65 TCAGGGAGATAAGATCTC-TGA
* * *
22660838 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
1 CTTCAATCCGCTCCACTGTAACTTCAGGGAGATAAGAT--TGTCTTCGATCTGCTCCGCTGTAAT
*
22660903 CTCAGGGAGATAAGATCTCTGG
64 CTCAGGGAGATAAGATCTCTGA
* * * * * *
22660925 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGT
1 CTTCAATCCGCTCCACTGTAACTTCAGGGAGATAAGAT-TG----TCTTCGATCTGCTCCGCTGT
22660990 AATCTCAGGGAGATAAGA-C-CTGA
61 AATCTCAGGGAGATAAGATCTCTGA
* ** * *
22661013 -TGT-GATCTTCTCTACTGTAACTTCAGAGAGATAAGAT
1 CT-TCAATCCGCTCCACTGTAACTTCAGGGAGATAAGAT
22661050 CTTTTAATCC
Statistics
Matches: 173, Mismatches: 30, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
84 1 0.01
85 31 0.18
86 4 0.02
87 97 0.56
88 5 0.03
89 1 0.01
90 34 0.20
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (85 bp):
CTTCAATCCGCTCCACTGTAACTTCAGGGAGATAAGATTGTCTTCGATCTGCTCCGCTGTAATCT
CAGGGAGATAAGATCTCTGA
Found at i:22660944 original size:44 final size:42
Alignment explanation
Indices: 22660758--22661134 Score: 209
Period size: 44 Copynumber: 8.8 Consensus size: 42
22660748 GGTTTCTTCT
* * *
22660758 ATCTGCTCCACTGCAA-CTTCAGGGAGATAAGA-CT-TGATGCG
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTGCT-TG
* ** * * * ** *
22660799 ATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-CTCT-GCTTG
* * **
22660843 ATCCGCTCCACTGTAA-CTTCAGGGAGATAGGAT-AGTGTCTTCG
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTG-CTT-G
* *
22660886 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT-GCTT-G
* * *
22660930 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT---CTGC-TTG
* * *
22660976 GTCTGTTCCACTGTAATCTCAGGGAGATAAGA-C-CTGATGTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGCT-TG
* * * *
22661017 ATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCT-T--TTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTGCTTG
* * * * * *
22661056 ATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCCTTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA-T-CTCTGCTTG
*
22661100 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
22661135 GTGTAATAAA
Statistics
Matches: 255, Mismatches: 56, Indels: 49
0.71 0.16 0.14
Matches are distributed among these distances:
39 24 0.09
40 5 0.02
41 55 0.22
42 9 0.04
43 32 0.13
44 94 0.37
45 3 0.01
46 30 0.12
47 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGCTTG
Found at i:22673725 original size:45 final size:42
Alignment explanation
Indices: 22673577--22673859 Score: 169
Period size: 42 Copynumber: 6.7 Consensus size: 42
22673567 TTATTTTATC
*
22673577 GCTCCACTGTAA-CTTCAGGGAGATAGA--TAGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAGATCTA-TG-CTTCAATCT
* *
22673619 GCTCCGCTGTAATCTCAGGGAGATAGATCTCTGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAGATCTATGCTTCAATCT
* * ***
22673661 GCTCCACTGTAACCTCAGGGAGATAGATCTGAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAGATCT---ATGCTTCAATCT
* * *
22673706 GTTCCACTGTAATCTCAGGGAGATAAGACCTGATG--T-GATCT
1 GCTCCACTGTAATCTCAGGGAGAT-AGATCT-ATGCTTCAATCT
* * * * *
22673747 TCTCTACTGTAA-CTTCAGAGAGATAAGATC----CTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGAT-AGATCTATGCTTCAATCT
* * *
22673786 GCTCCATTGTAATCTCAAGGAGATAGGATTACTAT-CTT-GATCT
1 GCTCCACTGTAATCTCAGGGAGATA-GA-T-CTATGCTTCAATCT
*
22673829 GCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 GCTCCACTGTAATCTCAGGGAGAT-AGATCT
22673860 GGTATAATAA
Statistics
Matches: 189, Mismatches: 33, Indels: 39
0.72 0.13 0.15
Matches are distributed among these distances:
38 2 0.01
39 22 0.12
40 3 0.02
41 30 0.16
42 62 0.33
43 29 0.15
44 7 0.04
45 29 0.15
46 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
GCTCCACTGTAATCTCAGGGAGATAGATCTATGCTTCAATCT
Found at i:22673776 original size:87 final size:87
Alignment explanation
Indices: 22673616--22673776 Score: 202
Period size: 87 Copynumber: 1.9 Consensus size: 87
22673606 GTGTCTTCGA
* * *
22673616 TCTGCTCCGCTGTAATCTCAGGGAGATAGATCTCTGCTTCAATCTGCTCCACTGTAACCTCAGGG
1 TCTGCTCCACTGTAATCTCAGGGAGATAGATCTCTGATTCAATCTGCTCCACTGTAACCTCAGAG
22673681 AGATAGATCTGAAATTCTTTGG
66 AGATAGATCTGAAATTCTTTGG
* * * * *
22673703 TCTGTTCCACTGTAATCTCAGGGAGATAAGA-C-CTGATGT-GATCTTCTCTACTGTAACTTCAG
1 TCTGCTCCACTGTAATCTCAGGGAGAT-AGATCTCTGAT-TCAATCTGCTCCACTGTAACCTCAG
22673765 AGAGATAAGATC
64 AGAGAT-AGATC
22673777 CTTTAATCCG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
86 28 0.44
87 32 0.51
88 3 0.05
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (87 bp):
TCTGCTCCACTGTAATCTCAGGGAGATAGATCTCTGATTCAATCTGCTCCACTGTAACCTCAGAG
AGATAGATCTGAAATTCTTTGG
Found at i:22686570 original size:3 final size:3
Alignment explanation
Indices: 22686562--22686614 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
22686552 AATAAATAGG
* * * *
22686562 TAA TAA TAA CAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22686610 TAA TA
1 TAA TA
22686615 GTAGGACTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:22687645 original size:15 final size:15
Alignment explanation
Indices: 22687625--22687662 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
22687615 GGGCATGGTA
22687625 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
22687640 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
22687655 ATTGGGTT
1 ATTGGGTT
22687663 CTTTTGTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.08, C:0.00, G:0.45, T:0.47
Consensus pattern (15 bp):
ATTGGGTTTGTGGGT
Found at i:22687810 original size:22 final size:23
Alignment explanation
Indices: 22687782--22687833 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
22687772 AATGAGAAAT
22687782 AAATAAATATATA-AATAAAAA-G
1 AAATAAA-ATATACAATAAAAAGG
*
22687804 AAATAAAATGTACAATAAAAAGG
1 AAATAAAATATACAATAAAAAGG
22687827 AAATAAA
1 AAATAAA
22687834 CCAATTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 4 0.15
22 15 0.56
23 8 0.30
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (23 bp):
AAATAAAATATACAATAAAAAGG
Found at i:22687905 original size:12 final size:12
Alignment explanation
Indices: 22687881--22687919 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
22687871 ATAAATAAAC
*
22687881 AAATAATAAATA
1 AAATAATATATA
22687893 AAATAATATATA
1 AAATAATATATA
* *
22687905 AAAAAAGATATA
1 AAATAATATATA
22687917 AAA
1 AAA
22687920 AGAATCTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (12 bp):
AAATAATATATA
Found at i:22692710 original size:17 final size:17
Alignment explanation
Indices: 22692688--22692742 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
22692678 TTAATGTATC
22692688 AATATTTAAATTATTTA
1 AATATTTAAATTATTTA
* *
22692705 AATATTTCATTTATCATT-
1 AATATTTAAATTAT--TTA
22692723 -ATA-TTAAATTATTTA
1 AATATTTAAATTATTTA
22692738 AATAT
1 AATAT
22692743 CATTTATCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
14 2 0.07
16 10 0.34
17 15 0.52
19 2 0.07
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (17 bp):
AATATTTAAATTATTTA
Found at i:22692735 original size:33 final size:32
Alignment explanation
Indices: 22692684--22692787 Score: 153
Period size: 31 Copynumber: 3.3 Consensus size: 32
22692674 ATATTTAATG
*
22692684 TATCAATAT-TTAAATTATTTAAATATTTCATT
1 TATCATTATATTAAATTATTTAAATA-TTCATT
22692716 TATCATTATATTAAATTATTTAAATA-TCATT
1 TATCATTATATTAAATTATTTAAATATTCATT
22692747 TATCATTATATTAAATT-TTTAAATATT-ATT
1 TATCATTATATTAAATTATTTAAATATTCATT
*
22692777 TATTATTATAT
1 TATCATTATAT
22692788 ATATTTAAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
30 21 0.31
31 23 0.34
32 8 0.12
33 16 0.24
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (32 bp):
TATCATTATATTAAATTATTTAAATATTCATT
Found at i:22692749 original size:31 final size:31
Alignment explanation
Indices: 22692684--22692787 Score: 149
Period size: 30 Copynumber: 3.4 Consensus size: 31
22692674 ATATTTAATG
*
22692684 TATCAATAT-TTAAATTATTTAAATATTTCATT
1 TATCATTATATTAAATTATTTAAATA--TCATT
22692716 TATCATTATATTAAATTATTTAAATATCATT
1 TATCATTATATTAAATTATTTAAATATCATT
*
22692747 TATCATTATATTAAATT-TTTAAATATTATT
1 TATCATTATATTAAATTATTTAAATATCATT
*
22692777 TATTATTATAT
1 TATCATTATAT
22692788 ATATTTAAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
30 22 0.32
31 22 0.32
32 8 0.12
33 16 0.24
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (31 bp):
TATCATTATATTAAATTATTTAAATATCATT
Found at i:22692851 original size:27 final size:29
Alignment explanation
Indices: 22692792--22692851 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 29
22692782 TTATATATAT
*
22692792 TTAAAATAATTTATATATCATTAATTTAA
1 TTAAAATAATTTATATATAATTAATTTAA
22692821 --AAAATAATTTATAT-TAATTAA-TTAA
1 TTAAAATAATTTATATATAATTAATTTAA
22692846 TTAAAA
1 TTAAAA
22692852 ATATTTAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
25 4 0.14
26 6 0.21
27 18 0.64
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
TTAAAATAATTTATATATAATTAATTTAA
Found at i:22694236 original size:3 final size:3
Alignment explanation
Indices: 22694228--22694258 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
22694218 TTGTATTTCC
22694228 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
22694259 TTTCTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:22694474 original size:9 final size:9
Alignment explanation
Indices: 22694442--22694492 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
22694432 ATAAATATTT
22694442 AAAAAAATA
1 AAAAAAATA
* *
22694451 ATGAAAAATT
1 A-AAAAAATA
*
22694461 CAAAAAATA
1 AAAAAAATA
22694470 AAAAAAATA
1 AAAAAAATA
22694479 AAAAAAATA
1 AAAAAAATA
22694488 TAAAA
1 -AAAA
22694493 TTTGATGTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
9 24 0.71
10 10 0.29
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (9 bp):
AAAAAAATA
Found at i:22695208 original size:21 final size:21
Alignment explanation
Indices: 22695167--22695212 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
22695157 GTTGAACCAA
22695167 ATTTTATACTTTTTAATATTTT
1 ATTTTATACTTTTTAATA-TTT
22695189 ATTTT-TA-TTTTTAATAATTT
1 ATTTTATACTTTTTAAT-ATTT
22695209 ATTT
1 ATTT
22695213 GCATTGAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 15 0.65
21 3 0.13
22 5 0.22
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTATACTTTTTAATATTT
Found at i:22700733 original size:26 final size:26
Alignment explanation
Indices: 22700696--22700779 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
22700686 TGATACAAAT
*
22700696 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22700722 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
22700748 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22700774 TGATAA
1 TGATAA
22700780 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:22702295 original size:26 final size:26
Alignment explanation
Indices: 22702266--22702318 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
22702256 TTTACAGTTT
22702266 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
22702292 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
22702318 T
1 T
22702319 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:22703208 original size:26 final size:26
Alignment explanation
Indices: 22703179--22703231 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
22703169 TTTACAATTT
22703179 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
22703205 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
22703231 T
1 T
22703232 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:22703277 original size:913 final size:913
Alignment explanation
Indices: 22701510--22704249 Score: 5282
Period size: 913 Copynumber: 3.0 Consensus size: 913
22701500 TGAAGAGTGG
*
22701510 TCAAATTAGTCAAATAGTGAAACATGGGAAACTTTGAGAAAAATCTGGTATTGATTGGCTAAATA
1 TCAAATTAGTCAAATAGTGAAACATGGGAAACTTTGAGAAAAATCTGGTATTGATTGGCTAAATC
*
22701575 AAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCAGGGAAAATTAACAGAAC
66 AAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCAGGGAAAATTAACGGAAC
*
22701640 TTGGTTTGGAGTTTCGTAGCTCCAGTTATAAATAATTTAGTGACTGTTGCTCAGGAAGACAGCTT
131 TTGATTTGGAGTTTCGTAGCTCCAGTTATAAATAATTTAGTGACTGTTGCTCAGGAAGACAGCTT
22701705 GCAGTGAAATTATGATTATGTGGTAAACATTGACAAAAATTTATTAATGAGTTGCTTATTGATTT
196 GCAGTGAAATTATGATTATGTGGTAAACATTGACAAAAATTTATTAATGAGTTGCTTATTGATTT
*
22701770 CTTATAAGCTTACTATAATCTGTAGGTGTGGTTGGCCAAATATTGTAAGGGGTTAATACGTAGTT
261 CTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGCCAAATATTGTAAGGGGTTAATACGTAGTT
* *
22701835 TGTATTTGAATAGTTAGATTAACGTGTTAGTAATCCAATTGTAGGCAGTTCATGTGTGAATCTTG
326 TGTATTTGAATAGTTAGATTAACGTGTTAGTAATCCAATTGTAGGCAGTTCGTGTGTGGATCTTG
*
22701900 TCAGCATATCGTCGCAAACAGGTGTGTAACTAACACCCTCTTTCTTAGTCTGGATCGGCAAAAGC
391 TCAGCATATTGTCGCAAACAGGTGTGTAACTAACACCCTCTTTCTTAGTCTGGATCGGCAAAAGC
* *
22701965 CGAAAATCCGAAATGCCGAAAACCGGTATTTTGTAGATTTGTGAGTGTGCGAATGCTCGTGAGGA
456 CGAAAATCCGAAATGCCGAAAACCGGTATTTTGTAGATTTGCGAGTGTGCGAATGCTCGTGAGGT
22702030 AAATCGATTAATGTTTTTGGTAAGCTGCAATGTTTGGACTGCAAAGTGCATGATTTCTGTGCCCT
521 AAATCGATTAATGTTTTTGGTAAGCTGCAATGTTTGGACTGCAAAGTGCATGATTTCTGTGCCCT
22702095 CGATATTTTTGGGCTTAATGGGCCAAAATTGGAATGATGGGCCAACGGGCCCAATTCGGTAAGAA
586 CGATATTTTTGGGCTTAATGGGCCAAAATTGGAATGATGGGCCAACGGGCCCAATTCGGTAAGAA
* *
22702160 CCGTTGGTAGTGATTCTGTTAGTACGTGAAAGGTAGGAATATGCATGAGAAACCCTAAAATAGAT
651 CCGTCGGTAGTGATTCTGTTAGTACGTGAAAGGTAGGAATATGCATGAAAAACCCTAAAATAGAT
22702225 AAATTACTGAAATACCTTTAAAAGTGGAAAATTTACAGTTTTACCCCTAGGAGATAAATTACCGA
716 AAATTACTGAAATACCTTTAAAAGTGGAAAATTTACAGTTTTACCCCTAGGAGATAAATTACCGA
22702290 AATACCCCTAGGGTTAAATTGACCTAAATGCATGTTTGACTGTTGTTATTTACTGCATGCCATGT
781 AATACCCCTAGGGTTAAATTGACCTAAATGCATGTTTGACTGTTGTTATTTACTGCATGCCATGT
*
22702355 TTTTATTATCTGATGCATAGGACTGGGATATTGACGTAGGAAGTACTGAAAGTGGCTTGTCCACG
846 TTTTATTATCTGATGCATGGGACTGGGATATTGACGTAGGAAGTACTGAAAGTGGCTTGTCCACG
22702420 TAC
911 TAC
22702423 TCAAATTAGTCAAATAGTGAAACATGGGAAACTTTGAGAAAAATCTGGTATTGATTGGCTAAATC
1 TCAAATTAGTCAAATAGTGAAACATGGGAAACTTTGAGAAAAATCTGGTATTGATTGGCTAAATC
*
22702488 AAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCAGGAAAAATTAACGGAAC
66 AAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCAGGGAAAATTAACGGAAC
22702553 TTGATTTGGAGTTTCGTAGCTCCAGTTATAAATAATTTAGTGACTGTTGCTCAGGAAGACAGCTT
131 TTGATTTGGAGTTTCGTAGCTCCAGTTATAAATAATTTAGTGACTGTTGCTCAGGAAGACAGCTT
22702618 GCAGTGAAATTATGATTATGTGGTAAACATTGACAAAAATTTATTAATGAGTTGCTTATTGATTT
196 GCAGTGAAATTATGATTATGTGGTAAACATTGACAAAAATTTATTAATGAGTTGCTTATTGATTT
22702683 CTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGCCAAATATTGTAAGGGGTTAATACGTAGTT
261 CTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGCCAAATATTGTAAGGGGTTAATACGTAGTT
22702748 TGTATTTGAATAGTTAGATTAACGTGTTAGTAATCCAATTGTAGGCAGTTCGTGTGTGGATCTTG
326 TGTATTTGAATAGTTAGATTAACGTGTTAGTAATCCAATTGTAGGCAGTTCGTGTGTGGATCTTG
*
22702813 TCAGCATATTGTCGCAAACAGGTGTGTAACTAACAACCTCTTTCTTAGTCTGGATCGGCAAAAGC
391 TCAGCATATTGTCGCAAACAGGTGTGTAACTAACACCCTCTTTCTTAGTCTGGATCGGCAAAAGC
* *
22702878 CGAAAATCTGAAATGCCGAAAACCGATATTTTGTAGATTTGCGAGTGTGCGAATGCTCGTGAGGT
456 CGAAAATCCGAAATGCCGAAAACCGGTATTTTGTAGATTTGCGAGTGTGCGAATGCTCGTGAGGT
22702943 AAATCGATTAATGTTTTTGGTAAGCTGCAATGTTTGGACTGCAAAGTGCATGATTTCTGTGCCCT
521 AAATCGATTAATGTTTTTGGTAAGCTGCAATGTTTGGACTGCAAAGTGCATGATTTCTGTGCCCT
22703008 CGATATTTTTGGGCTTAATGGGCCAAAATTGGAATGATGGGCCAACGGGCCCAATTCGGTAAGAA
586 CGATATTTTTGGGCTTAATGGGCCAAAATTGGAATGATGGGCCAACGGGCCCAATTCGGTAAGAA
22703073 CCGTCGGTAGTGATTCTGTTAGTACGTGAAAGGTAGGAATATGCATGAAAAACCCTAAAATAGAT
651 CCGTCGGTAGTGATTCTGTTAGTACGTGAAAGGTAGGAATATGCATGAAAAACCCTAAAATAGAT
* *
22703138 AAATTACTGAAATACCTTTAAAAGTGGAAAATTTACAATTTTACCCCTAGGAGATAAATTACCAA
716 AAATTACTGAAATACCTTTAAAAGTGGAAAATTTACAGTTTTACCCCTAGGAGATAAATTACCGA
22703203 AATACCCCTAGGGTTAAATTGACCTAAATGCATGTTTGACTGTTGTTATTTACTGCATGCCATGT
781 AATACCCCTAGGGTTAAATTGACCTAAATGCATGTTTGACTGTTGTTATTTACTGCATGCCATGT
22703268 TTTTATTATCTGATGCATGGGACTGGGATATTGACGTAGGAAGTACTGAAAGTGGCTTGTCCACG
846 TTTTATTATCTGATGCATGGGACTGGGATATTGACGTAGGAAGTACTGAAAGTGGCTTGTCCACG
22703333 TAC
911 TAC
22703336 TCAAATTAGTCAAATAGTGAAACATGGGAAACTTTGAGAAAAATCTGGTATTGATTGGCTAAATC
1 TCAAATTAGTCAAATAGTGAAACATGGGAAACTTTGAGAAAAATCTGGTATTGATTGGCTAAATC
22703401 AAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCAGGGAAAATTAACGGAAC
66 AAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCAGGGAAAATTAACGGAAC
*
22703466 TTGATTTGGAGTTTCGTAGCTCCAGTTATAAATAATTTAGTGACTATTGCTCAGGAAGACAGCTT
131 TTGATTTGGAGTTTCGTAGCTCCAGTTATAAATAATTTAGTGACTGTTGCTCAGGAAGACAGCTT
22703531 GCAGTGAAATTATGATTATGTGGTAAACATTGACAAAAATTTATTAATGAGTTGCTTATTGATTT
196 GCAGTGAAATTATGATTATGTGGTAAACATTGACAAAAATTTATTAATGAGTTGCTTATTGATTT
22703596 CTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGCCAAATATTGTAAGGGGTTAATACGTAGTT
261 CTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGCCAAATATTGTAAGGGGTTAATACGTAGTT
22703661 TGTATTTGAATAGTTAGATTAACGTGTTAGTAATCCAATTGTAGGCAGTTCGTGTGTGGATCTTG
326 TGTATTTGAATAGTTAGATTAACGTGTTAGTAATCCAATTGTAGGCAGTTCGTGTGTGGATCTTG
22703726 TCAGCATATTGTCGCAAACAGGTGTGTAACTAACACCCTCTTTCTTAGTCTGGATCGGCAAAAGC
391 TCAGCATATTGTCGCAAACAGGTGTGTAACTAACACCCTCTTTCTTAGTCTGGATCGGCAAAAGC
*
22703791 CGAAAATCCGAAATGCCAAAAACCGGTATTTTGTAGATTTGCGAGTGTGCGAATGCTCGTGAGGT
456 CGAAAATCCGAAATGCCGAAAACCGGTATTTTGTAGATTTGCGAGTGTGCGAATGCTCGTGAGGT
*
22703856 AAATCGATTAATATTTTTGGTAAGCTGCAATGTTTGGACTGCAAAGTGCATGATTTCTGTGCCCT
521 AAATCGATTAATGTTTTTGGTAAGCTGCAATGTTTGGACTGCAAAGTGCATGATTTCTGTGCCCT
22703921 CGATATTTTTGGGCTTAATGGGCCAAAATTGGAATGATGGGCCAACGGGCCCAATTCGGTAAGAA
586 CGATATTTTTGGGCTTAATGGGCCAAAATTGGAATGATGGGCCAACGGGCCCAATTCGGTAAGAA
22703986 CCGTCGGTAGTGATTCTGTTAGTACGTGAAAGGTAGGAATATGCATGAAAAACCCTAAAATAGAT
651 CCGTCGGTAGTGATTCTGTTAGTACGTGAAAGGTAGGAATATGCATGAAAAACCCTAAAATAGAT
22704051 AAATTACTGAAATACCTTTAAAAGTGGAAAATTTACAGTTTTACCCCTAGGAGATAAATTACCGA
716 AAATTACTGAAATACCTTTAAAAGTGGAAAATTTACAGTTTTACCCCTAGGAGATAAATTACCGA
22704116 AATACCCCTAGGGTTAAATTGACCTAAATGCATGTTTGACTGTTGTTATTTACTGCATGCCATGT
781 AATACCCCTAGGGTTAAATTGACCTAAATGCATGTTTGACTGTTGTTATTTACTGCATGCCATGT
*
22704181 TTTTATTATCTGATGCATGGGACTGGGATATTGACGTAGGAAGTACTGAAAGTGGCTTGTCTACG
846 TTTTATTATCTGATGCATGGGACTGGGATATTGACGTAGGAAGTACTGAAAGTGGCTTGTCCACG
22704246 TAC
911 TAC
22704249 T
1 T
22704250 GGAGGCTTTG
Statistics
Matches: 1799, Mismatches: 28, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
913 1799 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (913 bp):
TCAAATTAGTCAAATAGTGAAACATGGGAAACTTTGAGAAAAATCTGGTATTGATTGGCTAAATC
AAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCAGGGAAAATTAACGGAAC
TTGATTTGGAGTTTCGTAGCTCCAGTTATAAATAATTTAGTGACTGTTGCTCAGGAAGACAGCTT
GCAGTGAAATTATGATTATGTGGTAAACATTGACAAAAATTTATTAATGAGTTGCTTATTGATTT
CTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGCCAAATATTGTAAGGGGTTAATACGTAGTT
TGTATTTGAATAGTTAGATTAACGTGTTAGTAATCCAATTGTAGGCAGTTCGTGTGTGGATCTTG
TCAGCATATTGTCGCAAACAGGTGTGTAACTAACACCCTCTTTCTTAGTCTGGATCGGCAAAAGC
CGAAAATCCGAAATGCCGAAAACCGGTATTTTGTAGATTTGCGAGTGTGCGAATGCTCGTGAGGT
AAATCGATTAATGTTTTTGGTAAGCTGCAATGTTTGGACTGCAAAGTGCATGATTTCTGTGCCCT
CGATATTTTTGGGCTTAATGGGCCAAAATTGGAATGATGGGCCAACGGGCCCAATTCGGTAAGAA
CCGTCGGTAGTGATTCTGTTAGTACGTGAAAGGTAGGAATATGCATGAAAAACCCTAAAATAGAT
AAATTACTGAAATACCTTTAAAAGTGGAAAATTTACAGTTTTACCCCTAGGAGATAAATTACCGA
AATACCCCTAGGGTTAAATTGACCTAAATGCATGTTTGACTGTTGTTATTTACTGCATGCCATGT
TTTTATTATCTGATGCATGGGACTGGGATATTGACGTAGGAAGTACTGAAAGTGGCTTGTCCACG
TAC
Found at i:22704121 original size:26 final size:26
Alignment explanation
Indices: 22704092--22704144 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
22704082 TTTACAGTTT
22704092 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
22704118 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
22704144 T
1 T
22704145 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:22704636 original size:136 final size:137
Alignment explanation
Indices: 22704392--22704677 Score: 538
Period size: 136 Copynumber: 2.1 Consensus size: 137
22704382 GAGTAGTCTC
22704392 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
22704457 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTC-GGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
22704521 ATTGTTA
131 ACTGTTA
22704528 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
22704593 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
22704658 ACTGTTA
131 ACTGTTA
**
22704665 CCTGAATGGGCTT
1 CCCAAATGGGCTT
22704678 AGGCCCAATG
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 118 0.81
137 28 0.19
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Done.