Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 160 of 292
Found at i:47659245 original size:25 final size:25
Alignment explanation
Indices: 47659195--47659245 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
47659185 TGTGTAACAA
* *
47659195 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
47659220 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
47659245 C
1 C
47659246 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:47662556 original size:48 final size:48
Alignment explanation
Indices: 47662498--47662836 Score: 529
Period size: 48 Copynumber: 7.0 Consensus size: 48
47662488 TTGATGCATA
*
47662498 AGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
47662546 AGATATGTATATG-GGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
47662593 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
47662641 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATG
*
47662693 AGATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
47662741 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATG
*
47662791 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
47662837 GGCGATGTGT
Statistics
Matches: 268, Mismatches: 14, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
47 48 0.18
48 128 0.48
49 5 0.02
50 43 0.16
51 2 0.01
52 42 0.16
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:47662738 original size:100 final size:98
Alignment explanation
Indices: 47662498--47662836 Score: 567
Period size: 100 Copynumber: 3.5 Consensus size: 98
47662488 TTGATGCATA
*
47662498 AGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATG-GGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* *
47662562 AAAGCCGAATGGCTAATGTG-AA-ATATGTATG
66 AAAGCCGAATGGTTAATGTGAAATATATATATG
47662593 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
47662658 AAAGCTGAATGGTTAATGTGAAATATATATATATG
66 AAAGCCGAATGGTTAATGTG-AA-ATATATATATG
* *
47662693 AGATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
47662758 AAAGCCGAATGGTCAATGTGAAATATATATATG
66 AAAGCCGAATGGTTAATGTGAAATATATATATG
*
47662791 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
47662837 GGCGATGTGT
Statistics
Matches: 229, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
95 60 0.26
96 21 0.09
98 56 0.24
99 3 0.01
100 89 0.39
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (98 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGTTAATGTGAAATATATATATG
Found at i:47662761 original size:148 final size:149
Alignment explanation
Indices: 47662498--47662833 Score: 533
Period size: 148 Copynumber: 2.3 Consensus size: 149
47662488 TTGATGCATA
* *
47662498 AGATATGTATACGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAGATATGTATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATGTATATG
* *
47662559 GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG-C
66 GGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTC
*
47662623 TAATGTG-AA-ATATGTATG
131 -AATGTGAAATATATATATG
* *
47662641 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATGAGATATGTATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATGTATATG
47662706 TGGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGT
66 -GGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGT
47662771 CAATGTGAAATATATATATG
130 CAATGTGAAATATATATATG
*
47662791 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
47662834 GTAGGCGATG
Statistics
Matches: 175, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
143 34 0.19
145 1 0.01
146 1 0.01
147 21 0.12
148 67 0.38
149 3 0.02
150 48 0.27
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (149 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATGTATATG
GGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTC
AATGTGAAATATATATATG
Found at i:47663091 original size:37 final size:37
Alignment explanation
Indices: 47662983--47663091 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
47662973 GGAAATATAT
*
47662983 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
47663020 TCCGGGTAAGACTCGATGACTACGTATGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
47663057 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
47663092 CATCTGAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:47667089 original size:28 final size:28
Alignment explanation
Indices: 47667050--47667103 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
47667040 AAATATATTC
* *
47667050 TATATACCAAAAACATAGTTCAATAGCA
1 TATATACCAAAAACACAATTCAATAGCA
47667078 TATATACCAAAAACACAATTCAATAG
1 TATATACCAAAAACACAATTCAATAG
47667104 TATACTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.24
Consensus pattern (28 bp):
TATATACCAAAAACACAATTCAATAGCA
Found at i:47667576 original size:194 final size:194
Alignment explanation
Indices: 47667242--47667606 Score: 649
Period size: 194 Copynumber: 1.9 Consensus size: 194
47667232 GGGATCTAGG
*
47667242 CTTTAAAACACATTTTGAAACACTTGATTTCAAGTTTGGGAGATCAAGTTATGACTATTTTAGTG
1 CTTTAAAACACACTTTGAAACACTTGATTTCAAGTTTGGGAGATCAAGTTATGACTATTTTAGTG
*
47667307 AAGACTGCATGAGCAAAATTTATGGAGAGGATTATTATTGAAAATTATGAGTTTTAGACTTTAAT
66 AAGACTGCACGAGCAAAATTTATGGAGAGGATTATTATTGAAAATTATGAGTTTTAGACTTTAAT
*
47667372 TTGAGCTTAAATTATTATATATGAGCCTGATTATTGTATATGAGTTTAGATAGTTATTTCTTAA
131 TTGAGCTTAAATTATTATATATGAGCCCGATTATTGTATATGAGTTTAGATAGTTATTTCTTAA
* * * *
47667436 CTTTGAAACACACTTTGAATCACTTGATTTCAAGTTTGGGAGCTCAAGTTATGACTGTTTTAGTG
1 CTTTAAAACACACTTTGAAACACTTGATTTCAAGTTTGGGAGATCAAGTTATGACTATTTTAGTG
*
47667501 AAGACTGCACGAGCAAAATTTATGGAGAGGATTATTATTGAAAATTATGAGTTTTAGGCTTTAAT
66 AAGACTGCACGAGCAAAATTTATGGAGAGGATTATTATTGAAAATTATGAGTTTTAGACTTTAAT
*
47667566 TTGAGCTTAAATTATTATATATGATCCCGATTATTGTATAT
131 TTGAGCTTAAATTATTATATATGAGCCCGATTATTGTATAT
47667607 ATAAGGTTTT
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
194 162 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (194 bp):
CTTTAAAACACACTTTGAAACACTTGATTTCAAGTTTGGGAGATCAAGTTATGACTATTTTAGTG
AAGACTGCACGAGCAAAATTTATGGAGAGGATTATTATTGAAAATTATGAGTTTTAGACTTTAAT
TTGAGCTTAAATTATTATATATGAGCCCGATTATTGTATATGAGTTTAGATAGTTATTTCTTAA
Found at i:47670583 original size:71 final size:71
Alignment explanation
Indices: 47670495--47670658 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
47670485 GAGATGTATC
47670495 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47670560 AGGACA
66 AGGACA
* *
47670566 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGTTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
47670631 CGGACA
66 AGGACA
47670637 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
47670659 AGACAAATCG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:47675403 original size:47 final size:47
Alignment explanation
Indices: 47675340--47675873 Score: 836
Period size: 47 Copynumber: 11.4 Consensus size: 47
47675330 CCCTTCGGGA
* *
47675340 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
47675387 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
47675434 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
47675481 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* ** *
47675528 CTTATCATATATATACACTTTCACATTCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
47675575 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
47675622 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
47675669 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
47675716 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
47675763 CTTATCACATATACACACTCTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
47675810 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATT-AGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
47675856 CTTATCACATATACACAC
1 CTTATCACATATATACAC
47675874 CTTGTACATC
Statistics
Matches: 454, Mismatches: 33, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
46 19 0.04
47 435 0.96
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:47680262 original size:23 final size:24
Alignment explanation
Indices: 47680236--47680286 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
47680226 TTTCTAGAAG
* *
47680236 ATTTAGTATTTA-TAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
47680259 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
47680283 ATTT
1 ATTT
47680287 GACAATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:47680297 original size:24 final size:24
Alignment explanation
Indices: 47680252--47680298 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
47680242 TATTTATAGT
* *
47680252 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCAATGATTAGC
47680276 ATAATATATTT-GACAATGATTAG
1 ATAATATATTTAG-CAATGATTAG
47680299 AATTAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (24 bp):
ATAATATATTTAGCAATGATTAGC
Found at i:47684756 original size:94 final size:95
Alignment explanation
Indices: 47684513--47684876 Score: 363
Period size: 94 Copynumber: 3.9 Consensus size: 95
47684503 GGATATATTG
* * *
47684513 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATACGCT-T-GCTGATGCATTTCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-TATA-G-TATGGCTGATGCATGTCC
*
47684576 CAGACATGTCTTACACTAGCA--CAACTCT-TA
63 CAGACATGTCTTACACTAGCACTCATCTCTGTA
* * * * * *
47684606 GCCGATG-CGTGTCCCAGACA-CGTCTTACATTGGCTATCTCTATTGA-GGCTGGTGCATGTCCC
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGT-ATGGCTGATGCATGTCCC
* *
47684668 AAACATGTCTTACACTGGCACTCATCTCTGTA
64 AGACATGTCTTACACTAGCACTCATCTCTGTA
* *
47684700 CAGATGCCATGTCCCAGACATGGTCTTACATTGGCTAT-TATAGTATGGCTGATGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGTATGGCTGATGCATGTCCCAG
* * * * *
47684764 ACATGTCTTACACAAGCCCTCGTCT-GGATG
66 ACATGTCTTACACTAGCACTCATCTCTG-TA
* * * * **
47684794 CCGATGCCATGTCCCAGACATGGTCCTACACTGGCTCTC-ATAATGTGGCTGAAACATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGTATGGCTGATGCATGTCCCAG
*
47684858 ACATGTCTTACACTGGCAC
66 ACATGTCTTACACTAGCAC
47684877 ACAAATCACC
Statistics
Matches: 223, Mismatches: 36, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
89 1 0.00
91 34 0.15
92 15 0.07
93 24 0.11
94 133 0.60
95 16 0.07
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (95 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGTATGGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACTCATCTCTGTA
Found at i:47684758 original size:47 final size:46
Alignment explanation
Indices: 47684515--47684775 Score: 156
Period size: 47 Copynumber: 5.6 Consensus size: 46
47684505 ATATATTGCC
* * * ** *
47684515 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATACGCTTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACATTGGCTAT--TATACTATGGCT
* * * * * * *
47684565 GATGCATTTCCCAGACATGTCTTACACTAGC-A-CA-ACTCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACATTGGCTATTATACT-ATGGCT
* * * *
47684609 GATGCGTGTCCCAGACACGTCTTACATTGGCTATCTCTATTGA-GGCT
1 GATGCATGTCCCAGACATGTCTTACATTGGCTAT-TATACT-ATGGCT
* * * * * * *
47684656 GGTGCATGTCCCAAACATGTCTTACACTGGC-ACTCAT-CTCTGTACA
1 GATGCATGTCCCAGACATGTCTTACATTGGCTA-TTATACTATG-GCT
*
47684702 GATGCCATGTCCCAGACATGGTCTTACATTGGCTATTATAGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACATTGGCTATTATACTATGGCT
47684750 GATGCATGTCCCAGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
47684776 CAAGCCCTCG
Statistics
Matches: 159, Mismatches: 40, Indels: 28
0.70 0.18 0.12
Matches are distributed among these distances:
43 2 0.01
44 30 0.19
45 3 0.02
46 14 0.09
47 56 0.35
48 34 0.21
49 16 0.10
50 4 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACATTGGCTATTATACTATGGCT
Found at i:47687287 original size:24 final size:24
Alignment explanation
Indices: 47687266--47687322 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
47687256 AAGATTTAGT
*
47687266 ATTTATTAGTATAATATATTTAAC
1 ATTTATTAGCATAATATATTTAAC
*
47687290 ATTTATTAGCATAATATATTTGAC
1 ATTTATTAGCATAATATATTTAAC
*
47687314 ATTAATTAG
1 ATTTATTAG
47687323 AATTAGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAAC
Found at i:47690796 original size:40 final size:40
Alignment explanation
Indices: 47690746--47690931 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
47690736 GCTACTCGTT
* * *
47690746 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
47690786 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
47690826 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
47690866 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
47690907 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47690932 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:47693667 original size:23 final size:25
Alignment explanation
Indices: 47693619--47693672 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
47693609 ATATTTTAAA
* *
47693619 TAAAAATTAGAAATTATAAATTTTT
1 TAAAAATGAGAAATTATAAATATTT
47693644 TAAAAATGA-AAATTAT-AATATTT
1 TAAAAATGAGAAATTATAAATATTT
47693667 TAAAAA
1 TAAAAA
47693673 ATAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 12 0.44
24 7 0.26
25 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (25 bp):
TAAAAATGAGAAATTATAAATATTT
Found at i:47693673 original size:24 final size:24
Alignment explanation
Indices: 47693619--47693679 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
47693609 ATATTTTAAA
* *
47693619 TAAAAATTAGAAATTATAAATTTT
1 TAAAAAATAAAAATTATAAATTTT
* *
47693643 TTAAAAATGAAAATTAT-AATATTT
1 TAAAAAATAAAAATTATAAAT-TTT
47693667 TAAAAAATAAAAA
1 TAAAAAATAAAAA
47693680 AATAATGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (24 bp):
TAAAAAATAAAAATTATAAATTTT
Found at i:47693673 original size:25 final size:26
Alignment explanation
Indices: 47693609--47693673 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
47693599 AACTTTTTTC
*
47693609 ATATTTTAAATAAAAATTAGAAATTATA
1 ATATTTT-AA-AAAAATGAGAAATTATA
**
47693637 A-ATTTTTTAAAAATGA-AAATTATA
1 ATATTTTAAAAAAATGAGAAATTATA
47693661 ATATTTTAAAAAA
1 ATATTTTAAAAAA
47693674 TAAAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 9 0.29
25 16 0.52
27 5 0.16
28 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (26 bp):
ATATTTTAAAAAAATGAGAAATTATA
Found at i:47693684 original size:23 final size:24
Alignment explanation
Indices: 47693640--47693685 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
47693630 AATTATAAAT
* **
47693640 TTTTTAAAAATGAAAATTATAATA
1 TTTTAAAAAATGAAAAAAATAATA
47693664 TTTTAAAAAAT-AAAAAAATAAT
1 TTTTAAAAAATGAAAAAAATAAT
47693686 GAAAAAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
TTTTAAAAAATGAAAAAAATAATA
Found at i:47693821 original size:18 final size:18
Alignment explanation
Indices: 47693798--47693846 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
47693788 GATAAAATTA
47693798 ATTTTTAAATTTTTTTAT
1 ATTTTTAAATTTTTTTAT
* **
47693816 ATTTTTAAAATCATTTAT
1 ATTTTTAAATTTTTTTAT
*
47693834 ATTTTTATATTTT
1 ATTTTTAAATTTT
47693847 ACTTTTAACT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTAAATTTTTTTAT
Found at i:47694416 original size:24 final size:23
Alignment explanation
Indices: 47694388--47694464 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 23
47694378 AAGTAAAAAT
47694388 TAATTAATTTAAATGATATTTAAA
1 TAATTAATTT-AATGATATTTAAA
* *
47694412 TAATTGAATATAATGATATATGAAA
1 TAATT-AATTTAATGATAT-TTAAA
* *
47694437 T-ATAAATTTTAAT-ACTTTTTAAA
1 TAATTAA-TTTAATGA-TATTTAAA
47694460 TAATT
1 TAATT
47694465 TCTTGAAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
23 8 0.20
24 24 0.59
25 9 0.22
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (23 bp):
TAATTAATTTAATGATATTTAAA
Found at i:47697638 original size:30 final size:30
Alignment explanation
Indices: 47697602--47697659 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47697592 TATAATTTCA
* *
47697602 TTTTATTTTTATTTTAATTTGGCCCTAACC
1 TTTTATTTTTATTTCAATTTAGCCCTAACC
* *
47697632 TTTTATTTTTGTTTCACTTTAGCCCTAA
1 TTTTATTTTTATTTCAATTTAGCCCTAA
47697660 TGGCCATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.07, T:0.57
Consensus pattern (30 bp):
TTTTATTTTTATTTCAATTTAGCCCTAACC
Found at i:47697850 original size:29 final size:29
Alignment explanation
Indices: 47697818--47697874 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
47697808 TTTTAATCCT
*
47697818 TTTTAAATTTTTTATATATGATTTATTTA
1 TTTTAAATATTTTATATATGATTTATTTA
*
47697847 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATGATTTATTT
47697875 TTACTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTAAATATTTTATATATGATTTATTTA
Found at i:47697944 original size:7 final size:7
Alignment explanation
Indices: 47697907--47698079 Score: 97
Period size: 7 Copynumber: 23.1 Consensus size: 7
47697897 ATGTAAAAAA
47697907 TTATTAT
1 TTATTAT
47697914 ATATATTAT
1 -T-TATTAT
47697923 TT-TTAT
1 TTATTAT
47697929 TTATGTA-
1 TTAT-TAT
47697936 TTATTTAT
1 TTA-TTAT
47697944 TATATTAT
1 T-TATTAT
47697952 TTA-TATT
1 TTATTA-T
47697959 TTATTAT
1 TTATTAT
*
47697966 ATATTTTAT
1 -T-TATTAT
47697975 TTATATATT
1 TTAT-TA-T
47697984 TTATTAT
1 TTATTAT
*
47697991 ATATTA-
1 TTATTAT
*
47697997 -TATCATT
1 TTATTA-T
47698004 TTATTAT
1 TTATTAT
*
47698011 ATATAGTAT
1 -T-TATTAT
*
47698020 TCATTAT
1 TTATTAT
47698027 ATTATT-T
1 -TTATTAT
*
47698034 TTATTTT
1 TTATTAT
47698041 ATTATATAT
1 -TTAT-TAT
47698050 TATATTAT
1 T-TATTAT
47698058 TTATTAT
1 TTATTAT
47698065 TTATTAT
1 TTATTAT
47698072 TTATTAT
1 TTATTAT
47698079 T
1 T
47698080 ATGTATAATT
Statistics
Matches: 133, Mismatches: 10, Indels: 45
0.71 0.05 0.24
Matches are distributed among these distances:
5 4 0.03
6 13 0.10
7 50 0.38
8 38 0.29
9 28 0.21
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (7 bp):
TTATTAT
Found at i:47698026 original size:80 final size:79
Alignment explanation
Indices: 47697907--47698081 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 79
47697897 ATGTAAAAAA
* * *
47697907 TTATTATATA-TATTATTTTTATTTATGTATTATTTATTATATTATTTATATTTTATTATATA-T
1 TTATTATATATTATTATTTTTATTTATATAGTATTCATTATATTATTTATATTTTATTATATATT
47697970 -T-TTATTTATATATT
66 ATATTATTTAT-TA-T
*
47697984 TTATTATATATTA-TATCATTTTATTATATATAGTATTCATTATATTATTTTTATTTTATTATAT
1 TTATTATATATTATTAT--TTTTATT-TATATAGTATTCATTATATTATTTATATTTTATTATAT
47698048 ATTATATTATTTATTAT
63 ATTATATTATTTATTAT
*
47698065 TTATTATTTATTATTAT
1 TTATTATATATTATTAT
47698082 GTATAATTTT
Statistics
Matches: 85, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
77 13 0.15
78 2 0.02
79 7 0.08
80 35 0.41
81 14 0.16
82 6 0.07
83 8 0.09
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (79 bp):
TTATTATATATTATTATTTTTATTTATATAGTATTCATTATATTATTTATATTTTATTATATATT
ATATTATTTATTAT
Found at i:47698401 original size:42 final size:42
Alignment explanation
Indices: 47698353--47698479 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 42
47698343 AGTTTTCATC
47698353 TTTATTTTTTGACTTATTTTACATATGTTCATAATTTGTTGA
1 TTTATTTTTTGACTTATTTTACATATGTTCATAATTTGTTGA
* * ** * *
47698395 TTTA--TTTT--CGTATTTAAC-GGTGTT--TAGTTT-TCAT-C
1 TTTATTTTTTGACTTATTTTACATATGTTCATAATTTGT--TGA
47698430 TTTATTTTTTGACTTATTTTACATATGTTCATAATTTGTTGA
1 TTTATTTTTTGACTTATTTTACATATGTTCATAATTTGTTGA
47698472 TTTATTTT
1 TTTATTTT
47698480 CGTATTTTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 22
0.65 0.12 0.23
Matches are distributed among these distances:
34 1 0.02
35 9 0.15
36 1 0.02
37 8 0.13
38 8 0.13
39 8 0.13
40 8 0.13
41 1 0.02
42 17 0.27
43 1 0.02
ACGTcount: A:0.21, C:0.08, G:0.10, T:0.61
Consensus pattern (42 bp):
TTTATTTTTTGACTTATTTTACATATGTTCATAATTTGTTGA
Found at i:47698417 original size:77 final size:77
Alignment explanation
Indices: 47698330--47698486 Score: 314
Period size: 77 Copynumber: 2.0 Consensus size: 77
47698320 CTCATTTATT
47698330 TTTAACGGTGTTTAGTTTTCATCTTTATTTTTTGACTTATTTTACATATGTTCATAATTTGTTGA
1 TTTAACGGTGTTTAGTTTTCATCTTTATTTTTTGACTTATTTTACATATGTTCATAATTTGTTGA
47698395 TTTATTTTCGTA
66 TTTATTTTCGTA
47698407 TTTAACGGTGTTTAGTTTTCATCTTTATTTTTTGACTTATTTTACATATGTTCATAATTTGTTGA
1 TTTAACGGTGTTTAGTTTTCATCTTTATTTTTTGACTTATTTTACATATGTTCATAATTTGTTGA
47698472 TTTATTTTCGTA
66 TTTATTTTCGTA
47698484 TTT
1 TTT
47698487 TTTTATATTT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 80 1.00
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.59
Consensus pattern (77 bp):
TTTAACGGTGTTTAGTTTTCATCTTTATTTTTTGACTTATTTTACATATGTTCATAATTTGTTGA
TTTATTTTCGTA
Found at i:47698507 original size:17 final size:16
Alignment explanation
Indices: 47698472--47698510 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
47698462 AATTTGTTGA
* *
47698472 TTTATTTTCGTATTTT
1 TTTATTTTAGTATTGT
47698488 TTTATATTTAGTATTGT
1 TTTAT-TTTAGTATTGT
47698505 TTTATT
1 TTTATT
47698511 ATGTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.72
Consensus pattern (16 bp):
TTTATTTTAGTATTGT
Found at i:47698776 original size:66 final size:66
Alignment explanation
Indices: 47698662--47698790 Score: 149
Period size: 66 Copynumber: 2.0 Consensus size: 66
47698652 ATATTTTATG
* * *
47698662 TTTATTATTTTCTATGTTTATTTGCACGACATGTAAATGTATATATTATGTAGTGTA-TATTGTT
1 TTTATTATTTGCTATGTTTATTCGCACGACATGTAAATGTATATATTATATAGTGTAGTATTGTT
47698726 A
66 A
* *
47698727 TTTATTATTTGCTATGTTATATTCGCATGA-A-GTATTAATGTATGA-ATTATATAGTTTAGTAT
1 TTTATTATTTGCTATGTT-TATTCGCACGACATGTA--AATGTAT-ATATTATATAGTGTAGTAT
47698789 TG
62 TG
47698791 ATATCTTGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
64 3 0.06
65 18 0.33
66 27 0.50
67 6 0.11
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (66 bp):
TTTATTATTTGCTATGTTTATTCGCACGACATGTAAATGTATATATTATATAGTGTAGTATTGTT
A
Found at i:47702191 original size:12 final size:12
Alignment explanation
Indices: 47702174--47702208 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
47702164 TAAAATTACT
47702174 AGAGAGAGAAAG
1 AGAGAGAGAAAG
*
47702186 AGAGAGAGTAAG
1 AGAGAGAGAAAG
*
47702198 AGAAAGAGAAA
1 AGAGAGAGAAA
47702209 ACCTAGAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.03
Consensus pattern (12 bp):
AGAGAGAGAAAG
Found at i:47704062 original size:40 final size:40
Alignment explanation
Indices: 47704018--47704167 Score: 221
Period size: 40 Copynumber: 3.8 Consensus size: 40
47704008 ATAACCACAA
47704018 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
47704058 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
* * *** *
47704098 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
*
47704138 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT
1 GCAC-AATTGCCTTCGGGTCTTAACCCGGAT
47704168 ATAATCACTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 101 0.98
41 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
Found at i:47704168 original size:40 final size:40
Alignment explanation
Indices: 47704002--47704205 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 40
47703992 CGGGATTCAA
* * *
47704002 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** * *
47704042 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** *
47704082 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
*
47704122 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATTGCCTTCGGGTCTTAGC
* * *
47704162 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAATTGCCTTCGGGTCTTAGC
47704202 CCGG
1 CCGG
47704206 GTATCATTCA
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 140 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:47713750 original size:45 final size:44
Alignment explanation
Indices: 47713569--47714097 Score: 277
Period size: 45 Copynumber: 11.9 Consensus size: 44
47713559 GTAGATCACT
* * * *
47713569 GATAGTAGATTTGGCATCTCTGTATT-GATGGGGAACAAATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTAGA-CGGGAGCAGATCGAA
* * *
47713613 GA-AGTAGATTTGGCGTTTCTGTATTAGACGAGGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTAGACG-GGAGCAGATCGAA
* * *
47713657 GATAGCAGATCTGACAT-TCATGTA-T---C-GAAGCAGATCGAA
1 GATAGCAGATTTGGCATCTC-TGTATTAGACGGGAGCAGATCGAA
*
47713696 GAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAA
* ** * * * *
47713741 GATAGCAGATCTGAAAT-TCGTGTGTTTACATC-GAAGTAGATCGAA
1 GATAGCAGATTTGGCATCTC-TGT-ATTAGA-CGGGAGCAGATCGAA
* *
47713786 GAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAA
1 GATAG-CAGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAA
* * * * * * *
47713831 GATAGTAGATCTGACAT-TCGTGTGTTTGTATC-GAAGCAGATCAAA
1 GATAGCAGATTTGGCATCTC-TGTATTAG-A-CGGGAGCAGATCGAA
* *
47713876 AAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAA
* * * * * * * **
47713921 GATAGCGGATCTGACATTTGTGTGTTTACATC-AAAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGT-ATTAGA-CGGGAGCAGATCGAA
* * *
47713966 AAT-GACAGATTTGGCATCTCTGTATTAGACAGGGAGCAGGTCAAA
1 GATAG-CAGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAA
* * * *
47714011 GATAGCAGATTTGACAT-TCGTGTGTTTACATC-GAAGCAGATCGAA
1 GATAGCAGATTTGGCATCTC-TGT-ATTAGA-CGGGAGCAGATCGAA
* * * *
47714056 GATAGCAAATTTAGCGTCTCTGTATTTGACGGGGAGCAGATC
1 GATAGCAGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATC
47714098 AAGGATATTA
Statistics
Matches: 359, Mismatches: 85, Indels: 81
0.68 0.16 0.15
Matches are distributed among these distances:
38 1 0.00
39 28 0.08
40 3 0.01
41 1 0.00
43 27 0.08
44 41 0.11
45 231 0.64
46 23 0.06
47 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (44 bp):
GATAGCAGATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAA
Found at i:47713810 original size:90 final size:90
Alignment explanation
Indices: 47713618--47714097 Score: 695
Period size: 90 Copynumber: 5.4 Consensus size: 90
47713608 TCGAAGAAGT
* * *
47713618 AGATTTGGCGTTTCTGTATTAGACGAGGAGCAGATCGAAGATAGCAGATCTGACATTC--ATG--
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
47713679 T--ATCGAAGCAGATCGAAGATGAC
66 TACATCGAAGCAGATCGAAGATGAC
*
47713702 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGAAATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
*
47713767 TACATCGAAGTAGATCGAAGATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* *
47713792 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
** * *
47713857 TGTATCGAAGCAGATCAAAAATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* *
47713882 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCGGATCTGACATTTGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
* *
47713947 TACATCAAAGCAGATCGAAAATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* * * * *
47713972 AGATTTGGCATCTCTGTATTAGACAGGGAGCAGGTCAAAGATAGCAGATTTGACATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
47714037 TACATCGAAGCAGATCGAAGAT-AGC
66 TACATCGAAGCAGATCGAAGATGA-C
* * *
47714062 AAATTTAGCGTCTCTGTATTTGACGGGGAGCAGATC
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC
47714098 AAGGATATTA
Statistics
Matches: 353, Mismatches: 36, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
84 55 0.16
86 2 0.01
88 1 0.00
89 1 0.00
90 294 0.83
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (90 bp):
AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
TACATCGAAGCAGATCGAAGATGAC
Found at i:47715496 original size:29 final size:29
Alignment explanation
Indices: 47715464--47715520 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
47715454 TTTTAATCCT
*
47715464 TTTTAAATTTTTTATATATGATTTATTTA
1 TTTTAAATATTTTATATATGATTTATTTA
*
47715493 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATGATTTATTT
47715521 TTACTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTAAATATTTTATATATGATTTATTTA
Found at i:47715566 original size:7 final size:7
Alignment explanation
Indices: 47715554--47715728 Score: 101
Period size: 7 Copynumber: 25.9 Consensus size: 7
47715544 TGTAAAAAAT
47715554 TATTATA
1 TATTATA
47715561 TATTAT-
1 TATTATA
47715567 T-TT-TA
1 TATTATA
*
47715572 T-TTATG
1 TATTATA
*
47715578 TATTATT
1 TATTATA
47715585 TATTATA
1 TATTATA
47715592 TTATT-TA
1 -TATTATA
47715599 TATT-T-
1 TATTATA
47715604 TATTATA
1 TATTATA
*
47715611 TATTTTA
1 TATTATA
47715618 T-TTATA
1 TATTATA
47715624 TATT-T-
1 TATTATA
47715629 TATTATA
1 TATTATA
47715636 TATTATA
1 TATTATA
47715643 TCATT-T-
1 T-ATTATA
47715649 TATTATA
1 TATTATA
47715656 TA-TAT-
1 TATTATA
47715661 TATTCATTA
1 TATT-A-TA
47715670 TATTAT-
1 TATTATA
* *
47715676 TTTTATT
1 TATTATA
47715683 TCATTATA
1 T-ATTATA
47715691 TATTATATTA
1 TA-T-TA-TA
47715701 TATTATA
1 TATTATA
*
47715708 TTATTATT
1 -TATTATA
*
47715716 TATTATT
1 TATTATA
47715723 TATTAT
1 TATTAT
47715729 TATGTATAAT
Statistics
Matches: 137, Mismatches: 9, Indels: 44
0.72 0.05 0.23
Matches are distributed among these distances:
4 1 0.01
5 18 0.13
6 27 0.20
7 57 0.42
8 23 0.17
9 7 0.05
10 4 0.03
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (7 bp):
TATTATA
Found at i:47715662 original size:80 final size:77
Alignment explanation
Indices: 47715552--47715729 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 77
47715542 TATGTAAAAA
* * *
47715552 ATTATTATATA-T-TATTTTTATTTATGTATTATTTATTATATTATTTATATTTTATTATATATT
1 ATTATTATATATTATATTTTTATTTATATATTATTCATTATATTATTTATATTTCATTATATATT
*
47715615 TTATT-TATATAT
66 ATATTATAT-TAT
* *
47715627 TTTATTATATATTATATCATTTTATTATATATATTATTCATTATATTATTTTTATTTCATTATAT
1 ATTATTATATATTATAT--TTTTATT-TATATATTATTCATTATATTATTTATATTTCATTATAT
47715692 ATTATATTATATTAT
63 ATTATATTATATTAT
* *
47715707 ATTATTATTTATTAT-TTATTATT
1 ATTATTATATATTATATTTTTATT
47715730 ATGTATAATT
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
75 10 0.11
76 1 0.01
77 9 0.10
79 8 0.09
80 57 0.65
81 3 0.03
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (77 bp):
ATTATTATATATTATATTTTTATTTATATATTATTCATTATATTATTTATATTTCATTATATATT
ATATTATATTAT
Found at i:47715690 original size:55 final size:55
Alignment explanation
Indices: 47715552--47715729 Score: 109
Period size: 53 Copynumber: 3.4 Consensus size: 55
47715542 TATGTAAAAA
* * * *
47715552 ATTATTATATATTATTT-TTATTTATGTA-TT-ATTTATTATATTAT-TTATATTTT
1 ATTATTATTTATTATTTATTATTTATATATTTCA-TTA-TATATTATATCATATTAT
* * *
47715605 ATTATATATTTTATT-TATA-TATTTTAT-TATAT-ATTATATCATTTTAT--TA-TAT
1 ATTAT-TA-TTTATTATTTATTA-TTTATATATTTCATTATAT-ATTATATCATATTAT
* *
47715657 A-TATTATTCATTA--TATTATTT-T-TATTTCATTATATATTATATTATATTAT
1 ATTATTATTTATTATTTATTATTTATATATTTCATTATATATTATATCATATTAT
47715707 ATTATTATTTATTATTTATTATT
1 ATTATTATTTATTATTTATTATT
47715730 ATGTATAATT
Statistics
Matches: 100, Mismatches: 9, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
47 11 0.11
48 12 0.12
49 9 0.09
50 6 0.06
51 14 0.14
52 3 0.03
53 17 0.17
54 15 0.15
55 13 0.13
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (55 bp):
ATTATTATTTATTATTTATTATTTATATATTTCATTATATATTATATCATATTAT
Found at i:47723676 original size:40 final size:40
Alignment explanation
Indices: 47723619--47723822 Score: 304
Period size: 40 Copynumber: 5.1 Consensus size: 40
47723609 CTAACGGGGT
* * * *
47723619 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
47723659 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
47723699 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
47723739 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
47723779 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
47723819 TAAG
1 TAAG
47723823 ACCTGACGGC
Statistics
Matches: 154, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 2 0.01
40 152 0.99
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:47723752 original size:80 final size:80
Alignment explanation
Indices: 47723619--47723868 Score: 328
Period size: 80 Copynumber: 3.1 Consensus size: 80
47723609 CTAACGGGGT
* *
47723619 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
47723684 TTACTA-ATTTCGGGC
66 TTACTATA-TCCGGGC
* *
47723699 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
47723764 TTACTATATCCGGGC
66 TTACTATATCCGGGC
* * * * *
47723779 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGCTAAGACCTGACGGC-CTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
***
47723842 GTGGTTATATCC-GGC
65 GTTACTATATCCGGGC
*
47723857 TAAATCCCGAAG
1 TAAGTCCCGAAG
47723869 ATAATAGGGT
Statistics
Matches: 152, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
78 14 0.09
79 19 0.12
80 118 0.78
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTATATCCGGGC
Found at i:47723852 original size:39 final size:40
Alignment explanation
Indices: 47723619--47723868 Score: 294
Period size: 40 Copynumber: 6.3 Consensus size: 40
47723609 CTAACGGGGT
* * *
47723619 TAAGTCCCGAAGACATTTGTGCTAGTGATTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
* *
47723659 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
*
47723699 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
*
47723739 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* *
47723779 TAAGTCCCGAAGGCATTTGTGCTAGTGACCATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* * * * **
47723819 TAAGACCTGACGGC-CTTGTGCGAGTGGTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
*
47723857 TAAATCCCGAAG
1 TAAGTCCCGAAG
47723869 ATAATAGGGT
Statistics
Matches: 188, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
38 11 0.06
39 16 0.09
40 160 0.85
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
Found at i:47724883 original size:24 final size:24
Alignment explanation
Indices: 47724856--47724902 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
47724846 TTTTTGAGTT
47724856 TAGTTTCCTTAGAAACAAACGGCC
1 TAGTTTCCTTAGAAACAAACGGCC
47724880 TAGTTTCCTTAGAAACAAACGGC
1 TAGTTTCCTTAGAAACAAACGGC
47724903 ATAAGTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (24 bp):
TAGTTTCCTTAGAAACAAACGGCC
Found at i:47735448 original size:14 final size:15
Alignment explanation
Indices: 47735422--47735453 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
47735412 GTTGGTGTGA
47735422 AAAATAGAATAAAAT
1 AAAATAGAATAAAAT
47735437 AAAATA-AATAAAAT
1 AAAATAGAATAAAAT
47735451 AAA
1 AAA
47735454 GAACACAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATAGAATAAAAT
Found at i:47739801 original size:5 final size:5
Alignment explanation
Indices: 47739791--47739822 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
47739781 CAATTTGTGA
47739791 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
47739823 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:47739816 original size:9 final size:9
Alignment explanation
Indices: 47739792--47739822 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
47739782 AATTTGTGAA
47739792 AAATAAAAT
1 AAATAAAAT
47739801 AAAATAAAAT
1 -AAATAAAAT
47739811 AAATAAAAT
1 AAATAAAAT
47739820 AAA
1 AAA
47739823 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:47743213 original size:63 final size:63
Alignment explanation
Indices: 47743114--47743241 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
47743104 CTTTGGAACC
47743114 GAACGGTCTTCGACGCTTTATGCATGAATTACTTTCTTTTGTATTAACAGTTTGCCCTATTAG
1 GAACGGTCTTCGACGCTTTATGCATGAATTACTTTCTTTTGTATTAACAGTTTGCCCTATTAG
47743177 GAACGGTCTTCGACGCTTTATGCATGAATTACTTTCTTTTGTATTAACAGTTTGCCCTATTAG
1 GAACGGTCTTCGACGCTTTATGCATGAATTACTTTCTTTTGTATTAACAGTTTGCCCTATTAG
47743240 GA
1 GA
47743242 CATCAATTTG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.41
Consensus pattern (63 bp):
GAACGGTCTTCGACGCTTTATGCATGAATTACTTTCTTTTGTATTAACAGTTTGCCCTATTAG
Found at i:47744865 original size:27 final size:26
Alignment explanation
Indices: 47744814--47744865 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
47744804 GTTATAAAAT
*
47744814 AAAGAAAGATAGAGAGAATAAAGAAC
1 AAAGAAAGATAGAAAGAATAAAGAAC
*
47744840 AAAGAAA-ATATGAAAGCAATAGAGAA
1 AAAGAAAGATA-GAAAG-AATAAAGAA
47744866 TGTACTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 3 0.14
26 11 0.50
27 8 0.36
ACGTcount: A:0.65, C:0.04, G:0.21, T:0.10
Consensus pattern (26 bp):
AAAGAAAGATAGAAAGAATAAAGAAC
Found at i:47745087 original size:21 final size:24
Alignment explanation
Indices: 47745045--47745089 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 24
47745035 TTCATAATAT
*
47745045 ATATTAAATTATTTTTCTATTCAA
1 ATATTAAATTATTTATCTATTCAA
47745069 ATATT-AATT-TTTATC-ATTCAA
1 ATATTAAATTATTTATCTATTCAA
47745090 TTGCTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 5 0.25
23 4 0.20
24 5 0.25
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTAAATTATTTATCTATTCAA
Found at i:47749158 original size:43 final size:43
Alignment explanation
Indices: 47749111--47749193 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
47749101 GTAAATCTAG
* * *
47749111 CAACCCATGTTTATCTTCT-CTTTTTTTAAAATTATTTTTTCAA
1 CAACCCAAGATTATCTTCTCCTCTTTTT-AAATTATTTTTTCAA
* *
47749154 CAACCTAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACCCAAGATTATCTTCTCCTCTTTTTAAATTATTTTTT
47749194 TTCTAGGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 27 0.79
44 7 0.21
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.53
Consensus pattern (43 bp):
CAACCCAAGATTATCTTCTCCTCTTTTTAAATTATTTTTTCAA
Found at i:47761239 original size:36 final size:36
Alignment explanation
Indices: 47761192--47761295 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 36
47761182 AGGAGCTTGG
* *
47761192 GAAGACTTGATATCTCATTCAGGATCTTGGGATTGA
1 GAAGACTTGATATCTCATTAAAGATCTTGGGATTGA
*
47761228 GAAGACTTGATATCTCGTTAAAGATCTTGGGATTGA
1 GAAGACTTGATATCTCATTAAAGATCTTGGGATTGA
* * * * * *
47761264 AAAAACCTGATATCTCGTTTAAGAGCTTGGGA
1 GAAGACTTGATATCTCATTAAAGATCTTGGGA
47761296 AGATCTGATA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (36 bp):
GAAGACTTGATATCTCATTAAAGATCTTGGGATTGA
Found at i:47769634 original size:2 final size:2
Alignment explanation
Indices: 47769627--47769665 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
47769617 ACACTATTAC
47769627 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47769666 ACACTTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47770065 original size:23 final size:22
Alignment explanation
Indices: 47770039--47770081 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
47770029 TTTTTTCACA
47770039 TATTATTCATTTTAAAATTGTCT
1 TATTATTCATTTT-AAATTGTCT
* *
47770062 TATTGTTTATTTTAAATTGT
1 TATTATTCATTTTAAATTGT
47770082 TTGATGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (22 bp):
TATTATTCATTTTAAATTGTCT
Found at i:47773766 original size:19 final size:20
Alignment explanation
Indices: 47773722--47773766 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
47773712 ACGCCTCTTT
*
47773722 TGCATT-CATTTCATTCATT
1 TGCATTACATTTCATTCATA
47773741 TGCATTACATTTCA-TCATA
1 TGCATTACATTTCATTCATA
*
47773760 TGTATTA
1 TGCATTA
47773767 AGTTTCGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.49
Consensus pattern (20 bp):
TGCATTACATTTCATTCATA
Found at i:47781961 original size:43 final size:43
Alignment explanation
Indices: 47781818--47782152 Score: 194
Period size: 43 Copynumber: 7.6 Consensus size: 43
47781808 TCATGGCGAA
* * ** * ** *
47781818 TCTTATCTTCCTGAAGTTGTAGTGGAGCAAATTGAAGCCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
* * * * * * *
47781861 ATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAG-CAAA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
* * * * *
47781903 CCTTATCTCCTTGAAGTAGCAGTGGAGTAGGTTGAAGTTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
** * *
47781946 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTA---AAG
* * * *
47781991 TCTTATTTCACTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAAACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAG---T---T-AA-AG
* * * * *
47782042 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCATAG-CAAA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
* *
47782084 CCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTAAAGTTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
*
47782127 TCTTATCTCCCTGAAGTTGTAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
47782153 ACAGACTAAA
Statistics
Matches: 223, Mismatches: 51, Indels: 35
0.72 0.17 0.11
Matches are distributed among these distances:
41 57 0.26
42 6 0.03
43 60 0.27
44 30 0.13
45 32 0.14
46 2 0.01
49 1 0.00
50 1 0.00
51 1 0.00
52 33 0.15
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
Found at i:47782119 original size:93 final size:95
Alignment explanation
Indices: 47781946--47782120 Score: 237
Period size: 93 Copynumber: 1.8 Consensus size: 95
47781936 GAAGTTAAAG
* * * * *
47781946 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT--ACATAGCAAACCTTATCTCACTGAAGTAGC
47782011 AGTGGAACAGATTAAAGCTATAAATAAACAGA
64 AGTGGAACAGATTAAAGCTATAAATAAACAGA
* *
47782043 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-T-CATAGCAAACCTTATCTCCCTGAAGTAGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTACATAGCAAACCTTATCTCACTGAAGTAGCAG
* *
47782106 TGGAGCAGGTTAAAG
66 TGGAACAGATTAAAG
47782121 TTAAAGTCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
93 38 0.55
96 1 0.01
97 30 0.43
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (95 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTACATAGCAAACCTTATCTCACTGAAGTAGCAG
TGGAACAGATTAAAGCTATAAATAAACAGA
Found at i:47782163 original size:43 final size:40
Alignment explanation
Indices: 47782034--47782244 Score: 145
Period size: 41 Copynumber: 5.0 Consensus size: 40
47782024 AAAGCTATAA
* *
47782034 ATAAA-CAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAG
1 ATAAAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * *
47782073 ATCATAGCAAACCTTATCTCCCTGAAGTAGCAGTGGAGCAGG
1 AT-AAAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-G
* * * *
47782115 TTAAAGTTAAAGTCTTATCTCCCTGAAGTTGTAGTGGAACAG
1 ATAAAG-CAAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * **
47782157 ACTAAAGACAACAAATCTCATCTCCCTAAAGTAACAGTGGAGCAG
1 A-TAAAG----CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * *
47782202 AGTGAAAACACCAGTCTTATCTCTCTGAAGTTGTAGTGGAGCA
1 A-T-AAAGCA--AATCTTATCTCCCTGAAGTTGCAGTGGAGCA
47782245 AATTGAAACC
Statistics
Matches: 130, Mismatches: 30, Indels: 19
0.73 0.17 0.11
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 32 0.25
42 8 0.06
43 30 0.23
44 24 0.18
45 26 0.20
46 6 0.05
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (40 bp):
ATAAAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
Found at i:47782197 original size:181 final size:181
Alignment explanation
Indices: 47781857--47782202 Score: 530
Period size: 181 Copynumber: 1.9 Consensus size: 181
47781847 AATTGAAGCC
* *
47781857 ACAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCTTGAAGTAG
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAG
* * * * * *
47781922 CAGTGGAGTAGGTTGAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
66 CAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGACAA
* * * * **
47781987 CGAATCTTATTTCACTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAA
131 CAAATCTCATCTCACTAAAGTAACAGTGGAACAGATTAAAGCTATAAATAA
*
47782038 ACAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAG
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAG
*
47782103 CAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGACAA
66 CAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGACAA
* *
47782168 CAAATCTCATCTCCCTAAAGTAACAGTGGAGCAGA
131 CAAATCTCATCTCACTAAAGTAACAGTGGAACAGA
47782203 GTGAAAACAC
Statistics
Matches: 147, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
181 147 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (181 bp):
ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAG
CAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGACAA
CAAATCTCATCTCACTAAAGTAACAGTGGAACAGATTAAAGCTATAAATAA
Found at i:47782262 original size:88 final size:85
Alignment explanation
Indices: 47782043--47782267 Score: 220
Period size: 88 Copynumber: 2.6 Consensus size: 85
47782033 AATAAACAGA
* * * * * * *
47782043 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCATAGCA-AACCTTATCTCCCTGAAGTAGCAGT
1 TCTTATCTCTCTGAAGTTGTAGTGGAGCAGATAAAACCACAATCTTATCTCCCTAAAGTAACAGT
* **
47782107 GGAGCAGGTTAAAGTTAAAG
66 GGAGCAGGTGAAAGACAAAG
* * * *
47782127 TCTTATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGACAACAAATCTCATCTCCCTAAAGTAAC
1 TCTTATCTCTCTGAAGTTGTAGTGGAGCAGA-TAAA-ACCAC-AATCTTATCTCCCTAAAGTAAC
*
47782192 AGTGGAGCAGAGTGAAA-ACACCAG
63 AGTGGAGCAG-GTGAAAGACA-AAG
* *
47782216 TCTTATCTCTCTGAAGTTGTAGTGGAGCAAATTGAAACCACTAATCTTATCT
1 TCTTATCTCTCTGAAGTTGTAGTGGAGCAGA-TAAAACCAC-AATCTTATCT
47782268 AAAGTTGCAG
Statistics
Matches: 112, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
84 28 0.25
85 2 0.02
86 2 0.02
88 42 0.38
89 38 0.34
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (85 bp):
TCTTATCTCTCTGAAGTTGTAGTGGAGCAGATAAAACCACAATCTTATCTCCCTAAAGTAACAGT
GGAGCAGGTGAAAGACAAAG
Found at i:47782780 original size:19 final size:19
Alignment explanation
Indices: 47782744--47782780 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
47782734 AAACAAAATA
*
47782744 AGAAAACAGAGTAAAAAGG
1 AGAAAACAGAGCAAAAAGG
*
47782763 AGAAAACAGAGCAGAAAG
1 AGAAAACAGAGCAAAAAG
47782781 AAAGCAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.08, G:0.27, T:0.03
Consensus pattern (19 bp):
AGAAAACAGAGCAAAAAGG
Found at i:47783001 original size:5 final size:5
Alignment explanation
Indices: 47782964--47782988 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
47782954 TCTTGTTTCT
47782964 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
47782989 CAAATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:47783028 original size:16 final size:16
Alignment explanation
Indices: 47783007--47783039 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47782997 TTTTAAGTAT
47783007 AAAAAAGCAAAAA-AAA
1 AAAAAAG-AAAAAGAAA
47783023 AAAAAAGAAAAAGAAA
1 AAAAAAGAAAAAGAAA
47783039 A
1 A
47783040 GACTTACCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAGAAA
Found at i:47783800 original size:28 final size:26
Alignment explanation
Indices: 47783761--47783843 Score: 89
Period size: 25 Copynumber: 3.2 Consensus size: 26
47783751 TAAGGAACTG
*
47783761 TTTTAGTT-TTATTTATTTTAAGTTTG
1 TTTTA-TTATTATTTATTTTAAGTTTA
* *
47783787 TTTTCATATATTATTTATTTTAA-ATCA
1 TTTT-AT-TATTATTTATTTTAAGTTTA
*
47783814 TTTTATTATTATATATTTTAAGTTTA
1 TTTTATTATTATTTATTTTAAGTTTA
47783840 TTTT
1 TTTT
47783844 GCACATTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
25 14 0.30
26 13 0.28
27 7 0.15
28 13 0.28
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (26 bp):
TTTTATTATTATTTATTTTAAGTTTA
Found at i:47784255 original size:2 final size:2
Alignment explanation
Indices: 47784250--47784274 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47784240 ATTTTATCGT
47784250 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
47784275 CAATAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47784379 original size:23 final size:22
Alignment explanation
Indices: 47784353--47784395 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
47784343 TTTTTTCACA
47784353 TATTATTCATTTTAAAATTGTCT
1 TATTATTCATTTT-AAATTGTCT
* *
47784376 TATTGTTTATTTTAAATTGT
1 TATTATTCATTTTAAATTGT
47784396 TTGATGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (22 bp):
TATTATTCATTTTAAATTGTCT
Found at i:47790574 original size:21 final size:21
Alignment explanation
Indices: 47790544--47790602 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
47790534 GTGAGATAAC
47790544 CCACATGGCCGTGTGAGTGGG
1 CCACATGGCCGTGTGAGTGGG
* * *
47790565 TCACAGGGCCGTGTGAATGGG
1 CCACATGGCCGTGTGAGTGGG
47790586 CCACATGGCCGTGTGAG
1 CCACATGGCCGTGTGAG
47790603 CAAACCGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.19
Consensus pattern (21 bp):
CCACATGGCCGTGTGAGTGGG
Found at i:47792676 original size:93 final size:93
Alignment explanation
Indices: 47792564--47792734 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
47792554 GCCCCTAAGT
47792564 GAACTCGGACTCAACTCAACGAGCTC-GAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47792628 ACAAGTTCGGATGCCTAGTTACATTTCAC
65 ACAAGTTCGGATGCCTAGTTACATTTCAC
* *
47792657 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
47792722 CGAGTTCGGATGC
66 CAAGTTCGGATGC
47792735 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:47792730 original size:46 final size:47
Alignment explanation
Indices: 47792559--47792731 Score: 212
Period size: 46 Copynumber: 3.7 Consensus size: 47
47792549 AACCCGCCCC
* *
47792559 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
* * * *
47792605 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-ATTTGCATCCA
* *
47792653 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
47792698 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47792732 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 58 0.55
47 30 0.28
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
Found at i:47793192 original size:30 final size:30
Alignment explanation
Indices: 47793158--47793217 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47793148 ATTTAATACG
47793158 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47793188 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47793218 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47798395 original size:18 final size:19
Alignment explanation
Indices: 47798361--47798397 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
47798351 GAGGATACAA
47798361 GCGTGTCCGAGCCACACGG
1 GCGTGTCCGAGCCACACGG
*
47798380 GCGTGTGCGA-CCACACGG
1 GCGTGTCCGAGCCACACGG
47798398 CTTACCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.16, C:0.35, G:0.38, T:0.11
Consensus pattern (19 bp):
GCGTGTCCGAGCCACACGG
Found at i:47802647 original size:19 final size:22
Alignment explanation
Indices: 47802608--47802647 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
47802598 AGAAACCCAA
47802608 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
47802630 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
47802648 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:47802746 original size:27 final size:26
Alignment explanation
Indices: 47802709--47802823 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
47802699 AGCATGGCTG
* *
47802709 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
47802735 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
47802763 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
47802790 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
47802817 CCAGAAC
1 CCAGAAC
47802824 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:47802768 original size:54 final size:54
Alignment explanation
Indices: 47802709--47802823 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
47802699 AGCATGGCTG
*
47802709 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
47802763 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
47802817 CCAGAAC
1 CCAGAAC
47802824 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:47804475 original size:26 final size:26
Alignment explanation
Indices: 47804439--47804546 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
47804429 CATGAAATTC
47804439 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
47804465 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
47804491 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
47804517 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
47804543 TTAT
1 TTAT
47804547 TAATTTGTAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:47823604 original size:80 final size:80
Alignment explanation
Indices: 47823520--47823668 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
47823510 TATGGTAACC
* * * *
47823520 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
47823584 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
47823600 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
47823665 CCGG
66 CCGG
47823669 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:47823610 original size:40 final size:38
Alignment explanation
Indices: 47823561--47823668 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
47823551 ATCACGATTT
*
47823561 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
47823601 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
47823641 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
47823669 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:47836440 original size:80 final size:80
Alignment explanation
Indices: 47836356--47836504 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
47836346 TATGGTAACC
* * * *
47836356 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
47836420 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
47836436 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
47836501 CCGG
66 CCGG
47836505 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:47836446 original size:40 final size:38
Alignment explanation
Indices: 47836397--47836504 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
47836387 ATCACGATTT
*
47836397 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
47836437 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
47836477 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
47836505 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:47843799 original size:14 final size:15
Alignment explanation
Indices: 47843773--47843801 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47843763 ATTTATTGTG
47843773 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
47843788 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
47843802 AATCTCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:47845265 original size:50 final size:50
Alignment explanation
Indices: 47845180--47845395 Score: 229
Period size: 50 Copynumber: 4.3 Consensus size: 50
47845170 GCTAAATGAC
* * ** * * * * *
47845180 CTTGTATATTCGACCACATTGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGTATATTCGGCCATAAAGGTAAGCACATATGTGATATTATATTTGAT
* * * *
47845230 TTTGAATATTCGGCCATAAAGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCATAAAGGTAAGCACATATGTGATATTATATTTG-AT
* * *
47845281 -TTGTATATTCGGCCATATAA-GTAAGTACATATGTGATGTTAAATTTGAT
1 CTTGTATATTCGGCCATA-AAGGTAAGCACATATGTGATATTATATTTGAT
* *
47845330 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
1 CTTGTATATTCGGCCATAAAGGTAAGCACATATGTGATATTATATTTGAT
*
47845380 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
47845396 AATGAGTGAT
Statistics
Matches: 138, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
49 3 0.02
50 131 0.95
51 4 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.40
Consensus pattern (50 bp):
CTTGTATATTCGGCCATAAAGGTAAGCACATATGTGATATTATATTTGAT
Found at i:47845359 original size:100 final size:100
Alignment explanation
Indices: 47845180--47845395 Score: 290
Period size: 100 Copynumber: 2.2 Consensus size: 100
47845170 GCTAAATGAC
* ** * ** *
47845180 CTTGTATATTCGACCACATTGGTATGTACATATGTGATGTTGTATTGGATTTTGAATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGGCC
*
47845245 ATAAAGGTATGCACAAATGTGATATTATATTTGAAT
66 ATAAAGGTAAGCACAAATGTGATATTATATTTG-AT
* * *
47845281 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGGCC
* *
47845345 ATATAGGTAAGCACATATGTGATATTATATTTGAT
66 ATAAAGGTAAGCACAAATGTGATATTATATTTGAT
*
47845380 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
47845396 AATGAGTGAT
Statistics
Matches: 100, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
99 2 0.02
100 98 0.98
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.40
Consensus pattern (100 bp):
CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGGCC
ATAAAGGTAAGCACAAATGTGATATTATATTTGAT
Found at i:47852825 original size:50 final size:50
Alignment explanation
Indices: 47852761--47852926 Score: 201
Period size: 50 Copynumber: 3.3 Consensus size: 50
47852751 GCTAAATGAC
* * *
47852761 CTTGAATATTCGGCCATAAAGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCATAAAGGTAAGCACATATGTGATATTATATTTG-AT
* * *
47852812 -TTGTATATTCGGCCATATAA-GTAAGTACATATGTGATGTTAAATTTGAT
1 CTTGTATATTCGGCCATA-AAGGTAAGCACATATGTGATATTATATTTGAT
* * * *
47852861 CTTGCATATTCGACCATATAGGTAAGCACATATGTGATATTCTATTTGAT
1 CTTGTATATTCGGCCATAAAGGTAAGCACATATGTGATATTATATTTGAT
*
47852911 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
47852927 AATGAGTGAT
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
49 3 0.03
50 91 0.95
51 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (50 bp):
CTTGTATATTCGGCCATAAAGGTAAGCACATATGTGATATTATATTTGAT
Found at i:47868979 original size:20 final size:21
Alignment explanation
Indices: 47868935--47868979 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
47868925 AGCGAAAGGA
47868935 ACGAG-AAACGGGCCAAAAAT
1 ACGAGAAAACGGGCCAAAAAT
* *
47868955 A-GAGAAAATGGGCC-AAAGT
1 ACGAGAAAACGGGCCAAAAAT
47868974 ACGAGA
1 ACGAGA
47868980 TCAACACGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.49, C:0.16, G:0.29, T:0.07
Consensus pattern (21 bp):
ACGAGAAAACGGGCCAAAAAT
Found at i:47874077 original size:6 final size:6
Alignment explanation
Indices: 47874066--47874094 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
47874056 AAAGGCATCG
47874066 GCTCTA GCTCTA GCTCTA GCTCTA GCTCT
1 GCTCTA GCTCTA GCTCTA GCTCTA GCTCT
47874095 GCGATATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.34, G:0.17, T:0.34
Consensus pattern (6 bp):
GCTCTA
Found at i:47876518 original size:37 final size:37
Alignment explanation
Indices: 47876462--47876539 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
47876452 TCAATATATG
*
47876462 ATTACTTGTAGTTTCCTTCGATACATTATTGATGAGA
1 ATTACTTGTAGTTTACTTCGATACATTATTGATGAGA
*
47876499 ATTACTTGTGGTTTACTTCGATACATTATTGATGAGA
1 ATTACTTGTAGTTTACTTCGATACATTATTGATGAGA
47876536 ATTA
1 ATTA
47876540 TAAGTTGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.44
Consensus pattern (37 bp):
ATTACTTGTAGTTTACTTCGATACATTATTGATGAGA
Found at i:47881224 original size:38 final size:38
Alignment explanation
Indices: 47881176--47881261 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 38
47881166 CTCTGTCCAC
* * *
47881176 CCCTCCACACCACG-TGAGGATAAAATCAACCCACCCAG
1 CCCTACACACCAAGATGAGGAT-AAATCAACCCACCCAA
* * *
47881214 CCCTTCACACCAAGTATGGGGATAAATCAACCCATCCAA
1 CCCTACACACCAAG-ATGAGGATAAATCAACCCACCCAA
47881253 CCCTACACA
1 CCCTACACA
47881262 TCATAAGGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 12 0.30
39 22 0.55
40 6 0.15
ACGTcount: A:0.35, C:0.40, G:0.12, T:0.14
Consensus pattern (38 bp):
CCCTACACACCAAGATGAGGATAAATCAACCCACCCAA
Found at i:47885719 original size:26 final size:26
Alignment explanation
Indices: 47885672--47885776 Score: 104
Period size: 26 Copynumber: 4.0 Consensus size: 26
47885662 ATTAAGACCT
* *
47885672 CAGTTTGGAAAATTATCAAAATACCCC
1 CAGTTTGG-AAATTACCGAAATACCCC
47885699 CAGTTTGGAAATTACCGAAATACCCC
1 CAGTTTGGAAATTACCGAAATACCCC
* * * **
47885725 TAATTTGAAAAATTATTGAAATACCCC
1 CAGTTTG-GAAATTACCGAAATACCCC
*
47885752 C-GTTTTGTAAATTACCGAAATACCC
1 CAG-TTTGGAAATTACCGAAATACCC
47885777 TAGTAGTGTA
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 36 0.56
27 28 0.44
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (26 bp):
CAGTTTGGAAATTACCGAAATACCCC
Found at i:47885738 original size:53 final size:53
Alignment explanation
Indices: 47885675--47885776 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 53
47885665 AAGACCTCAG
*
47885675 TTTGGAAAATTATCAAAATACCCCCAG-TTTGGAAATTACCGAAATACCCCTAA
1 TTTGAAAAATTATCAAAATACCCCC-GTTTTGGAAATTACCGAAATACCCCTAA
** *
47885728 TTTGAAAAATTATTGAAATACCCCCGTTTTGTAAATTACCGAAATACCC
1 TTTGAAAAATTATCAAAATACCCCCGTTTTGGAAATTACCGAAATACCC
47885777 TAGTAGTGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.02
53 43 0.98
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (53 bp):
TTTGAAAAATTATCAAAATACCCCCGTTTTGGAAATTACCGAAATACCCCTAA
Found at i:47886075 original size:22 final size:22
Alignment explanation
Indices: 47886047--47886092 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
47886037 TATTGCGATA
47886047 TTTACGGCCTTT-AGCCATTCTG
1 TTTACGG-CTTTGAGCCATTCTG
*
47886069 TTTACGGCTTTGAGTCATTCTG
1 TTTACGGCTTTGAGCCATTCTG
47886091 TT
1 TT
47886093 AACTTAGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.46
Consensus pattern (22 bp):
TTTACGGCTTTGAGCCATTCTG
Found at i:47888160 original size:39 final size:40
Alignment explanation
Indices: 47888055--47888262 Score: 235
Period size: 40 Copynumber: 5.2 Consensus size: 40
47888045 TATTCGAATG
* * * * *
47888055 ATATCCAGGCTAAGTTCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
47888096 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
47888136 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
47888175 AAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * **
47888215 ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
47888255 ATATCCGG
1 ATATCCGG
47888263 TTAAATTCCG
Statistics
Matches: 145, Mismatches: 16, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
39 38 0.26
40 79 0.54
41 27 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:47888199 original size:79 final size:81
Alignment explanation
Indices: 47888062--47888243 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 81
47888052 ATGATATCCA
* * * *
47888062 GGCTAAGTTCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTATG
*
47888127 CGAGTTACTA-ATTCCG
66 CGAGTTACTATA-ACCG
* * **
47888143 GGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTAT
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTAT
47888205 GCGAGTTACTATAACCG
65 GCGAGTTACTATAACCG
*
47888222 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
47888244 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 50 0.57
80 30 0.34
81 7 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTATG
CGAGTTACTATAACCG
Found at i:47888265 original size:79 final size:77
Alignment explanation
Indices: 47888093--47888276 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 77
47888083 GTGCTAAGTG
* * *
47888093 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
47888158 CATTTGTGCGAGTT
64 CATTTGAACGAGTT
* *
47888172 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTATGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
47888236 GGCATTTGAACGAG-T
62 GGCATTTGAACGAGTT
*
47888251 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
47888277 TACGTGATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
78 3 0.03
79 57 0.63
80 30 0.33
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA
TTTGAACGAGTT
Found at i:47896351 original size:39 final size:40
Alignment explanation
Indices: 47896246--47896453 Score: 244
Period size: 40 Copynumber: 5.2 Consensus size: 40
47896236 TATTCGAATG
* * * *
47896246 ATATCCGGGCTAAGTCCCGAAGGCTTTTGCGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
47896287 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
47896327 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
47896366 AAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * **
47896406 ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
47896446 ATATCCGG
1 ATATCCGG
47896454 TTAAATTTCG
Statistics
Matches: 145, Mismatches: 16, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
39 38 0.26
40 79 0.54
41 27 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:47896386 original size:79 final size:81
Alignment explanation
Indices: 47896246--47896434 Score: 242
Period size: 79 Copynumber: 2.4 Consensus size: 81
47896236 TATTCGAATG
* *
47896246 ATATCCGGGCTAAGTCCCGAAGGCTTTTGCGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGC
*
47896311 ATTTGTGCGAGTTACT
66 ATTTATGCGAGTTACT
* * * **
47896327 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAG
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAG
47896388 GCATTTATGCGAGTTACT
64 GCATTTATGCGAGTTACT
* *
47896406 ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
47896435 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 50 0.53
80 31 0.33
81 12 0.13
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGC
ATTTATGCGAGTTACT
Found at i:47896456 original size:79 final size:79
Alignment explanation
Indices: 47896250--47896457 Score: 228
Period size: 79 Copynumber: 2.6 Consensus size: 79
47896240 CGAATGATAT
* * * *
47896250 CCGGGCTAAGTCCCGAAGGCTTTTGCGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
* *
47896314 TGTGCGAGTTACTAATT
63 TATGCGAGTTACTAATA
* *
47896331 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
47896393 TATGCGAGTTACT-ATAA
63 TATGCGAGTTACTAAT-A
* *
47896410 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGTTAA
47896458 ATTTCGAAGG
Statistics
Matches: 109, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
78 3 0.03
79 53 0.49
80 43 0.39
81 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTAT
GCGAGTTACTAATA
Found at i:47912731 original size:13 final size:13
Alignment explanation
Indices: 47912713--47912743 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
47912703 ACAATTTAAA
47912713 TTTCATTTCAATT
1 TTTCATTTCAATT
47912726 TTTCATTTCAATT
1 TTTCATTTCAATT
47912739 TTTCA
1 TTTCA
47912744 CCCTATTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTCATTTCAATT
Found at i:47915468 original size:5 final size:6
Alignment explanation
Indices: 47915417--47915466 Score: 68
Period size: 6 Copynumber: 8.3 Consensus size: 6
47915407 TATAAGGTCC
47915417 AAATTA AAATTA AAATTA AAATTGA AAATTGA AAATT- AAATT- AAATTA
1 AAATTA AAATTA AAATTA AAATT-A AAATT-A AAATTA AAATTA AAATTA
47915465 AA
1 AA
47915467 TTGTTTAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.24
6 19 0.45
7 13 0.31
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:47932412 original size:40 final size:40
Alignment explanation
Indices: 47932306--47932489 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 40
47932296 TGCTGGAAAT
* * * * * **
47932306 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
47932346 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
47932386 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
47932424 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
47932465 CATAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
47932490 GTTTGAACGA
Statistics
Matches: 114, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 84 0.74
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:47932475 original size:79 final size:81
Alignment explanation
Indices: 47932307--47932494 Score: 186
Period size: 79 Copynumber: 2.4 Consensus size: 81
47932297 GCTGGAAATT
* * * * *
47932307 ATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCA
*
47932372 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * *
47932388 -TATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGCT-ATATCCGGGCTAAGACCCGAAGGC
* * * *
47932450 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
47932466 ATAACCGGGCTATGTCCCGAAGGCGTTTG
1 ATAACCGGGCTAAGACCCGAAGGCATTTG
47932495 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
78 2 0.02
79 58 0.67
80 27 0.31
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCATTTGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:47949015 original size:9 final size:9
Alignment explanation
Indices: 47948989--47949056 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 9
47948979 CCAAGTCAGT
*
47948989 TAAAATAAT
1 TAAAATAAA
47948998 TAAAATAAA
1 TAAAATAAA
47949007 TAAAATAAA
1 TAAAATAAA
*
47949016 -ATAATAAA
1 TAAAATAAA
47949024 TGAAAGACTACAA
1 T-AAA-A-TA-AA
47949037 TAAAA-AAA
1 TAAAATAAA
*
47949045 TAAGA-AAA
1 TAAAATAAA
47949053 TAAA
1 TAAA
47949057 GAAGATAGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
8 19 0.39
9 18 0.37
10 2 0.04
11 2 0.04
12 5 0.10
13 3 0.06
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (9 bp):
TAAAATAAA
Found at i:47953502 original size:56 final size:53
Alignment explanation
Indices: 47953409--47953517 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
47953399 GAAAAAAAAA
47953409 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
***
47953462 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAA-AAAAA--TGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
47953518 GAAAAGGGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 5 0.10
55 2 0.04
56 30 0.62
57 3 0.06
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:47954778 original size:40 final size:40
Alignment explanation
Indices: 47954712--47954878 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
47954702 AAATTGAATG
* * *
47954712 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
47954751 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
47954791 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
47954831 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
47954871 ATATCCGG
1 ATATCCGG
47954879 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:47962785 original size:40 final size:40
Alignment explanation
Indices: 47962719--47962885 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
47962709 AAATTGAATG
* * *
47962719 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
47962758 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
47962798 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
47962838 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
47962878 ATATCCGG
1 ATATCCGG
47962886 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:47968098 original size:48 final size:48
Alignment explanation
Indices: 47968042--47968188 Score: 204
Period size: 48 Copynumber: 3.1 Consensus size: 48
47968032 ATTAGGGTTA
* *
47968042 ATGTGATCCCATGTAAGACCATGTATGGGACATGACATTGGCATTGAT
1 ATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCGAT
* * * *
47968090 ATGTGATCCCACGAAAGACCATGTCTGGGACATGGCATTGGCATCCAT
1 ATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCGAT
* * **
47968138 ATGTGATCCCATGTAAGACCATTTTTGGGATGTGGCATTGGCATCGAT
1 ATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCGAT
47968186 ATG
1 ATG
47968189 AGGCATCGTG
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
ATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCGAT
Found at i:47971530 original size:27 final size:27
Alignment explanation
Indices: 47971500--47971758 Score: 281
Period size: 27 Copynumber: 9.6 Consensus size: 27
47971490 TTTGGTTTAC
* *
47971500 AAAATTACCAACATACCCTCGATTAGT
1 AAAATTACCAAAATACCCTCGATTTGT
*
47971527 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
47971554 AAAATTACCAAAATATCCCT-GATTTGT
1 AAAATTACCAAAATA-CCCTCGATTTGT
* * *
47971581 GAAATTACCGAAATACCCTCGA-CTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * *
47971607 AAAATTACCAAAATACCCTCAACTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
* * *
47971634 AAAATTACCGAAATACCCTCAACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * * * *
47971661 AAAATTATCGAAATACCCTTGACTTGC
1 AAAATTACCAAAATACCCTCGATTTGT
*
47971688 AAAATTACTAAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * *
47971715 AAAATTACCGAAATACCCTTGATTTGA
1 AAAATTACCAAAATACCCTCGATTTGT
*
47971742 AAAATTACAAAAATACC
1 AAAATTACCAAAATACC
47971759 GTTGATTTAC
Statistics
Matches: 197, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
26 27 0.14
27 167 0.85
28 3 0.02
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:47971675 original size:134 final size:135
Alignment explanation
Indices: 47971500--47971758 Score: 346
Period size: 134 Copynumber: 1.9 Consensus size: 135
47971490 TTTGGTTTAC
* ** *
47971500 AAAATTACCAACATACCCTCGATTAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AAAATTACCAACATACCCTCAATTAGTAAAATTACCAAAATACCCCTGACTTGCAAAATTACCAA
* * *
47971565 AATATCCCT-GATTTGTGAAATTACCGAAATACCCTCGA-CTGTAAAATTACCAAAATACCCTCA
66 AATA-CCCTCGATTTGTAAAATTACCGAAATACCCTCGATCTGAAAAATTACAAAAATACCCTCA
47971628 ACTTAT
130 ACTTAT
* * * *
47971634 AAAATTACCGAA-ATACCCTCAACTT-GTAAAATTATCGAAATACCCTTGACTTGCAAAATTACT
1 AAAATTACC-AACATACCCTCAA-TTAGTAAAATTACCAAAATACCCCTGACTTGCAAAATTACC
* *
47971697 AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGATTTGAAAAATTACAAAAATACC
64 AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATCTGAAAAATTACAAAAATACC
47971759 GTTGATTTAC
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
133 4 0.04
134 82 0.76
135 22 0.20
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (135 bp):
AAAATTACCAACATACCCTCAATTAGTAAAATTACCAAAATACCCCTGACTTGCAAAATTACCAA
AATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATCTGAAAAATTACAAAAATACCCTCAA
CTTAT
Found at i:47971763 original size:27 final size:27
Alignment explanation
Indices: 47971450--47971849 Score: 205
Period size: 27 Copynumber: 14.9 Consensus size: 27
47971440 TGTAAGATAG
* * *
47971450 AATTACTGAAATACCCTTGGTTT-ACA
1 AATTACAGAAATACCCTTGATTTGAAA
* * *
47971476 AATTACTG-AATACCTTTGGTTT-ACAA
1 AATTACAGAAATACCCTTGATTTGA-AA
* * * *
47971502 AATTACCA-ACATACCCTCGATTAGTAA
1 AATTA-CAGAAATACCCTTGATTTGAAA
* * *
47971529 AATTACCA-AAATACCCCTGGTTTGTAA
1 AATTA-CAGAAATACCCTTGATTTGAAA
**
47971556 AATTACCA-AAATATCCC-TGATTTGTGA
1 AATTA-CAGAAATA-CCCTTGATTTGAAA
* * * *
47971583 AATTACCGAAATACCCTCGA-CTGTAA
1 AATTACAGAAATACCCTTGATTTGAAA
** *
47971609 AATTACCA-AAATACCCTCAACTT-ATAA
1 AATTA-CAGAAATACCCTTGATTTGA-AA
* ** * *
47971636 AATTACCGAAATACCCTCAACTTGTAA
1 AATTACAGAAATACCCTTGATTTGAAA
* *
47971663 AATTATC-GAAATACCCTTGACTTGCAA
1 AATTA-CAGAAATACCCTTGATTTGAAA
* *
47971690 AATTACTA-AAATACCCTCGATTTGTAA
1 AATTAC-AGAAATACCCTTGATTTGAAA
*
47971717 AATTACCGAAATACCCTTGATTTGAAA
1 AATTACAGAAATACCCTTGATTTGAAA
* *
47971744 AATTACAAAAATACCGTTGATTT-ACAA
1 AATTACAGAAATACCCTTGATTTGA-AA
* * * *
47971771 AATTATAGAAATAGCATTGACTTTCAAA
1 AATTACAGAAATACCCTTGA-TTTGAAA
* * * *
47971799 AATTATAGAAATACCATTGGTTTGCAA
1 AATTACAGAAATACCCTTGATTTGAAA
* * *
47971826 AATTACTGAAATACCTTTGGTTTG
1 AATTACAGAAATACCCTTGATTTG
47971850 TAGATTTACC
Statistics
Matches: 306, Mismatches: 49, Indels: 37
0.78 0.12 0.09
Matches are distributed among these distances:
25 14 0.05
26 41 0.13
27 223 0.73
28 27 0.09
29 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACAGAAATACCCTTGATTTGAAA
Found at i:47971766 original size:54 final size:54
Alignment explanation
Indices: 47971450--47971871 Score: 273
Period size: 54 Copynumber: 7.9 Consensus size: 54
47971440 TGTAAGATAG
* * * ** * * **
47971450 AATTACTGAAATACCCTTGGTTT-ACAAATTA-CTGAATACCTTTGGTTTACAA
1 AATTACCGAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGTAA
* * * * *
47971502 AATTACC-AACATACCCTCGATTAGTAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCGAA-ATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGTAA
* ** * * *
47971556 AATTACCAAAATATCCC-TGATTTGTGAAATTACCGAAATACCCTCGA-CTGTAA
1 AATTACCGAAATA-CCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGTAA
* ** * * ** *
47971609 AATTACCAAAATACCCTCAACTT-ATAAAATTACCGAAATACCCTCAACTTGTAA
1 AATTACCGAAATACCCTTGATTTGA-AAAATTACCAAAATACCCTTGATTTGTAA
* * * * *
47971663 AATTATCGAAATACCCTTGACTTGCAAAATTACTAAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGTAA
* * **
47971717 AATTACCGAAATACCCTTGATTTGAAAAATTACAAAAATACCGTTGATTTACAA
1 AATTACCGAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGTAA
** * * * * * * *
47971771 AATTATAGAAATAGCATTGACTTTCAAAAATTA-TAGAAATACCATTGGTTTGCAA
1 AATTACCGAAATACCCTTGA-TTTGAAAAATTACCA-AAATACCCTTGATTTGTAA
* * * * * * *
47971826 AATTACTGAAATACCTTTGGTTTGTAGATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTG
47971872 TAGGGTGAAA
Statistics
Matches: 293, Mismatches: 65, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
51 2 0.01
52 19 0.06
53 47 0.16
54 177 0.60
55 48 0.16
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGTAA
Found at i:47973286 original size:43 final size:43
Alignment explanation
Indices: 47973238--47973344 Score: 169
Period size: 43 Copynumber: 2.5 Consensus size: 43
47973228 GTGTTGCAGT
*
47973238 AAGGATTTAGCCCAGACGGGTAATCCGTTGATCTCACGTATAA
1 AAGGATCTAGCCCAGACGGGTAATCCGTTGATCTCACGTATAA
* * **
47973281 AAGGATCTAGCCCGGACGGGTAATCTGTTGATCTCATTTATAA
1 AAGGATCTAGCCCAGACGGGTAATCCGTTGATCTCACGTATAA
47973324 AAGGATCTAGCCCAGACGGGT
1 AAGGATCTAGCCCAGACGGGT
47973345 GTTCCTTCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (43 bp):
AAGGATCTAGCCCAGACGGGTAATCCGTTGATCTCACGTATAA
Found at i:47973695 original size:17 final size:17
Alignment explanation
Indices: 47973673--47973706 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
47973663 AAGATTAATG
47973673 TGACATATATATACAAA
1 TGACATATATATACAAA
47973690 TGACATATATATACAAA
1 TGACATATATATACAAA
47973707 CTTTCATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
TGACATATATATACAAA
Found at i:47975020 original size:41 final size:41
Alignment explanation
Indices: 47974972--47975123 Score: 214
Period size: 41 Copynumber: 3.7 Consensus size: 41
47974962 AAAGGAAGAA
*
47974972 ATTGAGGATCACATGGTTGCTTGACGACCGTAGATCCACCG
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
* * *
47975013 ATTGAGGATCGCATGGTTGCTTGATGATCGTGGATCCACCG
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
* * * *
47975054 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCTACCA
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
* *
47975095 ATTAAGGATCACATGGTAGCTTGACGACC
1 ATTGAGGATCACATGGTTGCTTGACGACC
47975124 ATTTATCCAC
Statistics
Matches: 98, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:47977392 original size:11 final size:11
Alignment explanation
Indices: 47977376--47977409 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
47977366 TAATGGCCCT
47977376 GAGAAGTCTTG
1 GAGAAGTCTTG
47977387 GAGAAGTCTTG
1 GAGAAGTCTTG
*
47977398 GAGAAATCTTG
1 GAGAAGTCTTG
47977409 G
1 G
47977410 GTTCAAACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.35, T:0.26
Consensus pattern (11 bp):
GAGAAGTCTTG
Found at i:47978366 original size:27 final size:27
Alignment explanation
Indices: 47978336--47978784 Score: 303
Period size: 27 Copynumber: 16.7 Consensus size: 27
47978326 TGTAGGGTAG
* * **
47978336 AATTACTGAAATACCCTTGGTTTAAAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * * * *
47978363 AATTA-CTAAATGCCTTTGGTTTATAA
1 AATTACCGAAATACCCTTGATTTGTAA
* ** * *
47978389 AATTACCAAAATACCCTCAAATAGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
47978416 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCGAAATACCCTTGA-TTTGTAA
* * * * *
47978443 AATTACCAAAATACCCCTAATTTTTGA
1 AATTACCGAAATACCCTTGATTTGTAA
** * ** *
47978470 AATTACTAAAATACCCTCGACCTATAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
47978497 AATTACCAAAATA-CCTTAATTTGTGA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
47978523 AATTACCGAAATACCCTCG-TCCTGTAA
1 AATTACCGAAATACCCTTGAT-TTGTAA
* *
47978550 AATTACAGAAATACCCTTGACTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
47978577 AATTACCGAAATACCCTCGACTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* **
47978604 AATTACAGAAATACCCTCAATTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
47978631 AATTACCAAAATACCCTTGATTTGGAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * **
47978658 AATTACAGAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTTGATTTGTAA
** **
47978685 AATTATAGAAATACCCTTGACTTTCAAA
1 AATTACCGAAATACCCTTGA-TTTGTAA
** * * *
47978713 AATTATAGAAATACCATTGGTTTGCAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
47978740 AATTATCGAAATACCCTTGGTTTGTAG
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
47978767 ATTTACCAAAACACCCTT
1 AATTACCGAAATACCCTT
47978785 ATAGGGTGAA
Statistics
Matches: 340, Mismatches: 75, Indels: 14
0.79 0.17 0.03
Matches are distributed among these distances:
26 42 0.12
27 274 0.81
28 24 0.07
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGTAA
Found at i:47979934 original size:41 final size:41
Alignment explanation
Indices: 47979889--47980090 Score: 287
Period size: 41 Copynumber: 4.9 Consensus size: 41
47979879 GGAGGAAGAA
*
47979889 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * * * *
47979930 ATTGAGGATCACATGGTTGCTCGATGACCATGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
47979971 ATTGAGGATTGCATGGTTGCTTGACAACCGTGGATCCACCA
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
47980012 ATTGAGGATCGCATGGTTGCTTAATGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
47980053 ATTAAGGATCGCATGGTTGCTTGACGATCGTGGATCCA
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCA
47980091 TCGGTGGCTT
Statistics
Matches: 138, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 138 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:47980525 original size:22 final size:22
Alignment explanation
Indices: 47980500--47980547 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
47980490 ATTGCTGTGA
* * *
47980500 TGTTTACGGCTTTGTGCTATCC
1 TGTTTACAGCCTTGAGCTATCC
*
47980522 TGTTTACAGCCTTGAGCTGTCC
1 TGTTTACAGCCTTGAGCTATCC
47980544 TGTT
1 TGTT
47980548 GAAGTAGTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.44
Consensus pattern (22 bp):
TGTTTACAGCCTTGAGCTATCC
Found at i:47997384 original size:40 final size:40
Alignment explanation
Indices: 47997347--47997532 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
47997337 GCTACTCGTT
*
47997347 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
47997387 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
47997427 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
47997467 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
47997508 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47997533 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:47999862 original size:20 final size:20
Alignment explanation
Indices: 47999821--47999862 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
47999811 ATATATACTA
**
47999821 ATAAAATAATAAAATATCAT
1 ATAAAATAATAAAATAAAAT
47999841 ATAAAA-AATAAAATTAAAAT
1 ATAAAATAATAAAA-TAAAAT
47999861 AT
1 AT
47999863 TAATAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAATAATAAAATAAAAT
Found at i:48001466 original size:47 final size:46
Alignment explanation
Indices: 48001402--48001570 Score: 241
Period size: 47 Copynumber: 3.6 Consensus size: 46
48001392 TCCATAAGTG
* *
48001402 AACTAGGACTCAACTCAACGAGTTCGGATGCCT-AGTTACATCTCAC
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTGA-TTATATCTCAC
* *
48001448 ATACTCGGACTCAACTCAACGAGCTCGGATGCCTGATTATATCTCATG
1 A-ACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCA-C
*
48001496 AACTCGGACTCAACTCAACGAGTTCAGATGCCTGATTATATCTCAC
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
*
48001542 GAACTCGGACTCAACTCAACGATTTCGGA
1 -AACTCGGACTCAACTCAACGAGTTCGGA
48001571 ACTCAAATAT
Statistics
Matches: 110, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
46 1 0.01
47 107 0.97
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
Found at i:48003380 original size:590 final size:589
Alignment explanation
Indices: 48002262--48003443 Score: 2003
Period size: 590 Copynumber: 2.0 Consensus size: 589
48002252 ATGTATCTCT
* * *
48002262 TGTGACAGCCCAAAATTGACCCTAGTCAGAATGTGGTTTCGAGACCACAAAATCGAGGCATAAAA
1 TGTGACAGCCCAAAATTGACCCTAGTCAGAAGGTGGTCTCGAGACCACAAAACCGAGGCATAAAA
* * * ** *
48002327 ATAATTTAAAATTTATTTTGATGACTATGATATGTGTTAATTTGTGTGTGACATTTTTGATGATT
66 ATAATTAAAAATTTATTTTGATGACTATAATATGTGTTAACTCATGTATGACATTTTTGATGATT
* * *
48002392 GATTTAGTGTTATAAAGGTGAATTTCACTAGAAAGGACTTAGTAGTGAACTTTGAAAGTACGATA
131 GATTTAGTGTTATAAAGGTGAATTCCACAAGAAAGGACTTAGTAATGAACTTTGAAAGTACGATA
48002457 GGGAAATGTGTGATGACTAATTAAAGCATGCATGCAAAACAATGGACTTGCATGTCAAATTCCCC
196 GGGAAATGTGTGATGACTAATTAAAGCATGCATGCAAAACAATGGACTTGCATGTCAAATTCCCC
*
48002522 CTTTTTATAGGTGGTGGCCGGCCATGGCAAGAGAGGATGGGCAAAACATGTCATGAAACATGTTT
261 CTTTTTATAGGTGGTGGCCGGCCATGACAAGAGAGGATGGGCAAAACATGTCATGAAACATGTTT
*
48002587 TGTTGGTGCATTAGGGAGAAATAATAAACAAAGGTGTATGGGTAAGAAAAGAATGAAAAAAAATG
326 TGTTGGTGCATTAGGGAGAAATAATAAACAAAGGTGTATGGGTAAGAAAAAAATGAAAAAAAATG
*
48002652 TGTATGAGTGTGGTATTCCCCCCCCCATTGCCGTGAGTTGTAGAGAAAGAAAGAAAAATTTTGTT
391 TGTATGAGTGTGGTAAT-CCCCCCCCATTGCCGTGAGTTGTAGAGAAAGAAAGAAAAATTTTGTT
*
48002717 CATCCTTTCTTTGAGCCAAAACTAAGGAAGAAGGAGGATTTTTGCTTCATGTTTGGTTTGGAAGA
455 CATCCTTTCTTTGAGCCAAAACTAAGGAAGAAGGAGGATTTTTGCTTCATGCTTGGTTTGGAAGA
*
48002782 GATCTAGAAGGAGATTTGGCTAAGTTTGCATCAAGATTAAGGTATGTATGAGGTTGTGTTAGGAG
520 GATCTAGAAGGAGATTTGGCCAAGTTTGCATCAAGATTAAGGTATGTATGAGGTTGTGTTAGGAG
48002847 TTTCA
585 TTTCA
* *
48002852 TGTGACAGCCCAAAATTGACCCTAGTCGGAAGGTGGTCTCGGGACCACAAAACCGAGGCATAAAA
1 TGTGACAGCCCAAAATTGACCCTAGTCAGAAGGTGGTCTCGAGACCACAAAACCGAGGCATAAAA
* *
48002917 ATAATTAAAAATTTATTTTGATGCCTATAATATGTGTGT-GCTCATGTATGACATTTTATGATGA
66 ATAATTAAAAATTTATTTTGATGACTATAATATGTGT-TAACTCATGTATGACATTTT-TGATGA
* *
48002981 TTGATTTAGTGTTATAAGGGTGAATTCCACAAGAAAGGACTTAGTAATGAACTTTGAAAGTATGA
129 TTGATTTAGTGTTATAAAGGTGAATTCCACAAGAAAGGACTTAGTAATGAACTTTGAAAGTACGA
*
48003046 TAGGGAAATGTGTGATGACTAATTAAAGCATGCATGCAAAATAATGGACTTGCATGTCAAATT-C
194 TAGGGAAATGTGTGATGACTAATTAAAGCATGCATGCAAAACAATGGACTTGCATGTCAAATTCC
* *
48003110 CCC-TTTTATAGGTGGTGGCCGGCCATGACAAGGGAGGATGGGCTAAACATGTCATGAAACATGT
259 CCCTTTTTATAGGTGGTGGCCGGCCATGACAAGAGAGGATGGGCAAAACATGTCATGAAACATGT
* * *
48003174 TTTGTTGGTGCATTAGGGTGAAATAATAAACAAAGGTGTATGGGTGATAAAAAAATGAAAAAAAA
324 TTTGTTGGTGCATTAGGGAGAAATAATAAACAAAGGTGTATGGGTAAGAAAAAAATG-AAAAAAA
* *
48003239 ATGTGTGTGAGTGTGGTAAT-CCCCCCCATTGCCGTGAGTTGTAGAGAAGGAAAGAAAAAAATTT
388 ATGTGTATGAGTGTGGTAATCCCCCCCCATTGCCGTGAGTTGTAGAGAAAGAAAG--AAAAATTT
48003303 TGTTCATCCTTTCTTTGAGCCAAAACTAAGGAAGAAGGAGGATTTTTGCTTCATGCTTGGTTTGG
451 TGTTCATCCTTTCTTTGAGCCAAAACTAAGGAAGAAGGAGGATTTTTGCTTCATGCTTGGTTTGG
48003368 AAGAGATCTAGAAGGAGATTTGGCCAAGTTTGCATCAAGATTAAGGTATGTATGAGGTTGTGTTA
516 AAGAGATCTAGAAGGAGATTTGGCCAAGTTTGCATCAAGATTAAGGTATGTATGAGGTTGTGTTA
48003433 GGAGTTTCA
581 GGAGTTTCA
48003442 TG
1 TG
48003444 CATGTTTTGG
Statistics
Matches: 556, Mismatches: 31, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
588 33 0.06
589 111 0.20
590 283 0.51
591 129 0.23
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (589 bp):
TGTGACAGCCCAAAATTGACCCTAGTCAGAAGGTGGTCTCGAGACCACAAAACCGAGGCATAAAA
ATAATTAAAAATTTATTTTGATGACTATAATATGTGTTAACTCATGTATGACATTTTTGATGATT
GATTTAGTGTTATAAAGGTGAATTCCACAAGAAAGGACTTAGTAATGAACTTTGAAAGTACGATA
GGGAAATGTGTGATGACTAATTAAAGCATGCATGCAAAACAATGGACTTGCATGTCAAATTCCCC
CTTTTTATAGGTGGTGGCCGGCCATGACAAGAGAGGATGGGCAAAACATGTCATGAAACATGTTT
TGTTGGTGCATTAGGGAGAAATAATAAACAAAGGTGTATGGGTAAGAAAAAAATGAAAAAAAATG
TGTATGAGTGTGGTAATCCCCCCCCATTGCCGTGAGTTGTAGAGAAAGAAAGAAAAATTTTGTTC
ATCCTTTCTTTGAGCCAAAACTAAGGAAGAAGGAGGATTTTTGCTTCATGCTTGGTTTGGAAGAG
ATCTAGAAGGAGATTTGGCCAAGTTTGCATCAAGATTAAGGTATGTATGAGGTTGTGTTAGGAGT
TTCA
Found at i:48004685 original size:40 final size:39
Alignment explanation
Indices: 48004517--48004687 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
48004507 AGAAATTGAA
* *
48004517 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
48004557 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
48004597 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
48004637 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
48004677 TGATATCCGGG
1 TGATATCCGGG
48004688 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:48012591 original size:39 final size:40
Alignment explanation
Indices: 48012533--48012633 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
48012523 AAATTGAATG
* *
48012533 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
48012572 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
48012612 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
48012634 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Done.