Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 193 of 322
Found at i:63488086 original size:48 final size:48
Alignment explanation
Indices: 63488025--63488903 Score: 1704
Period size: 48 Copynumber: 18.3 Consensus size: 48
63488015 TGTATAAGAT
* * *
63488025 AAATATATGTGAGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
63488073 AAATATGTATGAGATATGTATATATGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
63488121 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488169 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488217 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488265 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488313 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488361 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488409 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488457 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488505 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488553 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488601 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488649 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488697 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488745 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488793 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
63488841 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
63488889 AAATATGTAGGAGAT
1 AAATATGTATGAGAT
63488904 GTGTGTATAT
Statistics
Matches: 823, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 823 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
Found at i:63489094 original size:37 final size:37
Alignment explanation
Indices: 63489044--63489146 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
63489034 GGAAATATAT
63489044 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
63489081 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
63489118 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
63489147 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:63490306 original size:56 final size:58
Alignment explanation
Indices: 63490246--63490360 Score: 153
Period size: 56 Copynumber: 2.0 Consensus size: 58
63490236 CTAATACATA
* * * *
63490246 TTTTTAATGTGTCCTAGGTACAACCAAATTTAATTTGTGTTTTAG-TT-ATTACATGTT
1 TTTTTAATATGT-CTAGCTACAACCAAATTTAATTGGTGTTTTAGCTTAAATACATGTT
* *
63490303 TTTTTAATATGTCTAGCTACAGCCGAATTTAATTGGTGTTTTAGCTTAAATACATGTT
1 TTTTTAATATGTCTAGCTACAACCAAATTTAATTGGTGTTTTAGCTTAAATACATGTT
63490361 ACAAATATGT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 28 0.56
57 13 0.26
58 9 0.18
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.47
Consensus pattern (58 bp):
TTTTTAATATGTCTAGCTACAACCAAATTTAATTGGTGTTTTAGCTTAAATACATGTT
Found at i:63490951 original size:10 final size:10
Alignment explanation
Indices: 63490920--63490953 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
63490910 AAAAAGCAGC
63490920 TTTCTGGAAT
1 TTTCTGGAAT
*
63490930 TTTCTTGAAAT
1 TTTC-TGGAAT
63490941 TTTCTGGAAT
1 TTTCTGGAAT
63490951 TTT
1 TTT
63490954 TCAGCTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.56
Consensus pattern (10 bp):
TTTCTGGAAT
Found at i:63499528 original size:23 final size:23
Alignment explanation
Indices: 63499502--63499545 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
63499492 ACGCATTACG
63499502 GTAGCTCTGATACTAATAAAACC
1 GTAGCTCTGATACTAATAAAACC
63499525 GTAGCTCTGATACTAATAAAA
1 GTAGCTCTGATACTAATAAAA
63499546 TTGTAACACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (23 bp):
GTAGCTCTGATACTAATAAAACC
Found at i:63506000 original size:43 final size:42
Alignment explanation
Indices: 63505939--63506088 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 42
63505929 AATGCCAACA
* * * *
63505939 TCCCAGACGTGGTCTTACATGTAATCAGATATCGAT-ACCT-TTG
1 TCCCAGACATGGTCTTACACGTAATCAAATA-CGATGA--TAATG
*
63505982 TCCCAGACATGGTCTTACACGAAATCAAATACGATGATAATG
1 TCCCAGACATGGTCTTACACGTAATCAAATACGATGATAATG
*
63506024 TCCCAGACATGGTCTTACACGTAAATCATAAGT-CGATG-TCAGTG
1 TCCCAGACATGGTCTTACACGT-AATCA-AA-TACGATGAT-AATG
* *
63506068 TCCTAGACGTGGTCTTACACG
1 TCCCAGACATGGTCTTACACG
63506089 ATAACACATA
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 27 0.29
43 34 0.37
44 29 0.32
45 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGTAATCAAATACGATGATAATG
Found at i:63506036 original size:42 final size:43
Alignment explanation
Indices: 63505980--63506089 Score: 145
Period size: 44 Copynumber: 2.6 Consensus size: 43
63505970 TCGATACCTT
63505980 TGTCCCAGACATGGTCTTACACGAAATCA-AA-TACGATGAT-AA
1 TGTCCCAGACATGGTCTTACACGAAATCATAAGT-CGATG-TCAA
*
63506022 TGTCCCAGACATGGTCTTACACGTAAATCATAAGTCGATGTCAG
1 TGTCCCAGACATGGTCTTACACG-AAATCATAAGTCGATGTCAA
* *
63506066 TGTCCTAGACGTGGTCTTACACGA
1 TGTCCCAGACATGGTCTTACACGA
63506090 TAACACATAT
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
42 23 0.38
43 8 0.13
44 29 0.48
45 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGAAATCATAAGTCGATGTCAA
Found at i:63509152 original size:46 final size:46
Alignment explanation
Indices: 63509102--63509274 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
63509092 TTGCGCATCT
63509102 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
63509148 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* * *
63509195 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
63509240 TGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63509275 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 56 0.54
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:63509255 original size:93 final size:93
Alignment explanation
Indices: 63509096--63509267 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
63509086 GGATGGTTGC
* * * *
63509096 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAGT
63509161 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
63509189 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACGTCC-GAACTCGTTGAG
*
63509253 TTGAGTCTGAGTTCG
65 TTGAGTCCGAGTTCG
63509268 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:63512123 original size:86 final size:86
Alignment explanation
Indices: 63511978--63512151 Score: 339
Period size: 86 Copynumber: 2.0 Consensus size: 86
63511968 AATCTAAGTA
63511978 CGGTCTGAATATCTGATTCATCAAGTCCATAAAGATAGCAGGTGCATTAGTCAAACCGAAAGGCA
1 CGGTCTGAATATCTGATTCATCAAGTCCATAAAGATAGCAGGTGCATTAGTCAAACCGAAAGGCA
63512043 TAACTAAAAACTCATAATGGC
66 TAACTAAAAACTCATAATGGC
*
63512064 CGGTCTGAATATCTGATTCATCAAGTCCATAAAGATAGCAGGTGCATTAGTCAATCCGAAAGGCA
1 CGGTCTGAATATCTGATTCATCAAGTCCATAAAGATAGCAGGTGCATTAGTCAAACCGAAAGGCA
63512129 TAACTAAAAACTCATAATGGC
66 TAACTAAAAACTCATAATGGC
63512150 CG
1 CG
63512152 TACCTTGTTC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (86 bp):
CGGTCTGAATATCTGATTCATCAAGTCCATAAAGATAGCAGGTGCATTAGTCAAACCGAAAGGCA
TAACTAAAAACTCATAATGGC
Found at i:63516093 original size:42 final size:43
Alignment explanation
Indices: 63516024--63516128 Score: 142
Period size: 42 Copynumber: 2.4 Consensus size: 43
63516014 TCCCACAGGT
**
63516024 AATCAAATATCGATGCCTCTGTCCCAGACAAGGTCTTACACG-A
1 AATCAAATA-CGATGCCAATGTCCCAGACAAGGTCTTACACGTA
*
63516067 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAATGTCCCAGACAAGGTCTTACACGTA
63516110 AATCATAAGT-CGATGCCAA
1 AATCA-AA-TACGATGCCAA
63516129 CATCCAAGAC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
42 29 0.52
43 15 0.27
44 11 0.20
45 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (43 bp):
AATCAAATACGATGCCAATGTCCCAGACAAGGTCTTACACGTA
Found at i:63516139 original size:44 final size:42
Alignment explanation
Indices: 63516049--63516150 Score: 125
Period size: 44 Copynumber: 2.4 Consensus size: 42
63516039 CCTCTGTCCC
* ** *
63516049 AGACAAGGTCTTACACGAAATCAAATACGATGCCAATGTCCC
1 AGACATGGTCTTACACGAAATCAAATACGATGCCAACATCCA
63516091 AGACATGGTCTTACACGTAAATCATAAGT-CGATGCCAACATCCA
1 AGACATGGTCTTACACG-AAATCA-AA-TACGATGCCAACATCCA
*
63516135 AGACATTGTCTTACAC
1 AGACATGGTCTTACAC
63516151 AATAACACAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 16 0.31
43 6 0.12
44 29 0.56
45 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (42 bp):
AGACATGGTCTTACACGAAATCAAATACGATGCCAACATCCA
Found at i:63531691 original size:27 final size:27
Alignment explanation
Indices: 63531661--63531838 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
63531651 ATATTGAGCC
* *
63531661 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
63531688 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
63531715 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
63531743 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
63531770 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
63531797 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
63531824 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63531839 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:63531773 original size:55 final size:54
Alignment explanation
Indices: 63531661--63531838 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
63531651 ATATTGAGCC
* * * * *
63531661 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
63531715 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
63531770 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
63531824 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63531839 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:63539703 original size:27 final size:27
Alignment explanation
Indices: 63539673--63539850 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
63539663 ATATTGAGCC
* *
63539673 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
63539700 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
63539727 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
63539755 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
63539782 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
63539809 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
63539836 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63539851 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:63539785 original size:55 final size:54
Alignment explanation
Indices: 63539673--63539850 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
63539663 ATATTGAGCC
* * * * *
63539673 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
63539727 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
63539782 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
63539836 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63539851 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:63543636 original size:28 final size:27
Alignment explanation
Indices: 63543596--63543667 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
63543586 GATGTCTCGT
63543596 ACACTAAGTGCCATACTCAATATCTTTC
1 ACACTAAGTGCCATA-TCAATATCTTTC
* * *
63543624 ACACCAAGTGCCATTATTAATATTTTTC
1 ACACTAAGTGCCA-TATCAATATCTTTC
*
63543652 ACACTAAGTTCCATAT
1 ACACTAAGTGCCATAT
63543668 ACATATATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 3 0.08
28 33 0.87
29 2 0.05
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (27 bp):
ACACTAAGTGCCATATCAATATCTTTC
Found at i:63560708 original size:31 final size:31
Alignment explanation
Indices: 63560673--63560813 Score: 246
Period size: 31 Copynumber: 4.5 Consensus size: 31
63560663 TTTAACGGTT
63560673 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
63560704 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
63560735 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
63560766 ACTGGCCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
63560797 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
63560814 ACTGTAAATG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:63561102 original size:26 final size:26
Alignment explanation
Indices: 63561031--63561205 Score: 237
Period size: 26 Copynumber: 6.8 Consensus size: 26
63561021 CCTCTTTAAT
*
63561031 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
63561056 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
63561081 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
63561107 AACTGGGGCATAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
63561133 AACTGGGGCATAATCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
**
63561159 AACTAAGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
63561185 AACTGGGGCATATGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
63561206 GCAGTTCCTC
Statistics
Matches: 129, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 32 0.25
26 97 0.75
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:63561144 original size:52 final size:52
Alignment explanation
Indices: 63561031--63561205 Score: 273
Period size: 52 Copynumber: 3.4 Consensus size: 52
63561021 CCTCTTTAAT
63561031 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
* *
63561081 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
* ** *
63561133 AACTGGGGCATAATCCCTTTTCGGTAAACTAAGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
63561185 AACTGGGGCATATGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
63561206 GCAGTTCCTC
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 9 0.08
51 25 0.22
52 79 0.70
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:63561284 original size:20 final size:20
Alignment explanation
Indices: 63561255--63561302 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
63561245 TTATGAATAC
63561255 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
63561275 ATCGTGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
63561295 ATCATGTG
1 ATCATGTG
63561303 TGTAACACGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:63562683 original size:27 final size:27
Alignment explanation
Indices: 63562653--63562830 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
63562643 ATATTGAGTC
* * * *
63562653 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
63562680 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
63562707 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
63562735 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
63562762 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
63562789 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
63562816 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63562831 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:63562792 original size:82 final size:81
Alignment explanation
Indices: 63562674--63562829 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
63562664 TGCTATATAA
* *
63562674 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
63562739 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
63562756 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
63562820 CACTTAGTGC
65 CACTTAGTGC
63562830 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:63567909 original size:37 final size:37
Alignment explanation
Indices: 63567850--63567995 Score: 256
Period size: 37 Copynumber: 3.9 Consensus size: 37
63567840 AGCTCAGACG
* *
63567850 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
63567887 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
63567924 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
63567961 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
63567996 ATATATTTCC
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:63568210 original size:47 final size:47
Alignment explanation
Indices: 63568158--63568484 Score: 573
Period size: 47 Copynumber: 7.0 Consensus size: 47
63568148 TTTCACACTA
* * * *
63568158 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
63568205 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
63568252 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
63568299 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
63568346 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
63568393 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
63568440 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
63568485 AAAATCCTAA
Statistics
Matches: 269, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 269 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:63572440 original size:28 final size:28
Alignment explanation
Indices: 63572408--63572517 Score: 148
Period size: 28 Copynumber: 3.9 Consensus size: 28
63572398 ATGTTGTTGA
* *
63572408 ATACTCAATATATCACACACTAAGTACC
1 ATACTCAATATCTCACACACTAAGTGCC
*
63572436 ATACTCAATATCTCACACACTAAGTGTC
1 ATACTCAATATCTCACACACTAAGTGCC
* * *
63572464 ATACTCGATGTCTCACACACTAAGCGCC
1 ATACTCAATATCTCACACACTAAGTGCC
* *
63572492 ACACTCAATATCTCGCACACTAAGTG
1 ATACTCAATATCTCACACACTAAGTG
63572518 TTGTACATAG
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.35, C:0.31, G:0.09, T:0.25
Consensus pattern (28 bp):
ATACTCAATATCTCACACACTAAGTGCC
Found at i:63572558 original size:40 final size:41
Alignment explanation
Indices: 63572507--63572608 Score: 136
Period size: 40 Copynumber: 2.5 Consensus size: 41
63572497 CAATATCTCG
**
63572507 CACACTAAGTGTTGTACATAGCCGAAGCTATCTCGAATC-T
1 CACACTAAGTGTCATACATAGCCGAAGCTATCTCGAATCGT
* *
63572547 CACACTAAGTGTCATATATAGCCGAAGCTATGTCGAATCGT
1 CACACTAAGTGTCATACATAGCCGAAGCTATCTCGAATCGT
* *
63572588 -ACACTAAGTGACATAAATAGC
1 CACACTAAGTGTCATACATAGC
63572609 TGATTTGTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 54 0.98
41 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (41 bp):
CACACTAAGTGTCATACATAGCCGAAGCTATCTCGAATCGT
Found at i:63592240 original size:66 final size:65
Alignment explanation
Indices: 63592117--63592246 Score: 145
Period size: 66 Copynumber: 2.0 Consensus size: 65
63592107 GGCCAAGGAC
* * *
63592117 ATGCCTGTGTGCCAGGCCATGTGAAAATTGGAGGGTATACTGACTTATGCAATACGGCCAAGTCA
1 ATGCCTGTATGCCAGGCCATGTGAAAATTGGAGGGTATACTGACTTATACAACACGGCC-AGTCA
63592182 A
65 A
* * ** * * *
63592183 ATGCCTGTATGCTAGGCCGTGTGCCAATTAGG-GGGTATGCTGACTTGTACCACACGGCCAGTCA
1 ATGCCTGTATGCCAGGCCATGTGAAAATT-GGAGGGTATACTGACTTATACAACACGGCCAGTCA
63592247 CACGCTCGTG
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
65 5 0.09
66 46 0.87
67 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (65 bp):
ATGCCTGTATGCCAGGCCATGTGAAAATTGGAGGGTATACTGACTTATACAACACGGCCAGTCAA
Found at i:63601519 original size:151 final size:151
Alignment explanation
Indices: 63601245--63601546 Score: 604
Period size: 151 Copynumber: 2.0 Consensus size: 151
63601235 GTTCGACTTC
63601245 AGCGACGGTCTCGGGTATGGGACGTTACATTTGGTGGTATCAGAGCAGGTTTAGTCAGTTCTCGA
1 AGCGACGGTCTCGGGTATGGGACGTTACATTTGGTGGTATCAGAGCAGGTTTAGTCAGTTCTCGA
63601310 ACTAATGTGTTGTATGTACGGGTTTTGCTACACATGCCATATATATATTGTGGTAGTGTGACGAC
66 ACTAATGTGTTGTATGTACGGGTTTTGCTACACATGCCATATATATATTGTGGTAGTGTGACGAC
63601375 TTCTGACCTTTTAAATGATTT
131 TTCTGACCTTTTAAATGATTT
63601396 AGCGACGGTCTCGGGTATGGGACGTTACATTTGGTGGTATCAGAGCAGGTTTAGTCAGTTCTCGA
1 AGCGACGGTCTCGGGTATGGGACGTTACATTTGGTGGTATCAGAGCAGGTTTAGTCAGTTCTCGA
63601461 ACTAATGTGTTGTATGTACGGGTTTTGCTACACATGCCATATATATATTGTGGTAGTGTGACGAC
66 ACTAATGTGTTGTATGTACGGGTTTTGCTACACATGCCATATATATATTGTGGTAGTGTGACGAC
63601526 TTCTGACCTTTTAAATGATTT
131 TTCTGACCTTTTAAATGATTT
63601547 TTTTATAGTA
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (151 bp):
AGCGACGGTCTCGGGTATGGGACGTTACATTTGGTGGTATCAGAGCAGGTTTAGTCAGTTCTCGA
ACTAATGTGTTGTATGTACGGGTTTTGCTACACATGCCATATATATATTGTGGTAGTGTGACGAC
TTCTGACCTTTTAAATGATTT
Found at i:63603805 original size:16 final size:16
Alignment explanation
Indices: 63603784--63603814 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
63603774 CACATATTTC
63603784 GGCCATACTTGGACAA
1 GGCCATACTTGGACAA
63603800 GGCCATACTTGGACA
1 GGCCATACTTGGACA
63603815 GATTTGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (16 bp):
GGCCATACTTGGACAA
Found at i:63611122 original size:17 final size:18
Alignment explanation
Indices: 63611088--63611122 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
63611078 CATATGGCCT
*
63611088 GCCCGTGTGGGCCTACAC
1 GCCCGTGTGGGCCCACAC
63611106 GCCCGTGT-GGCCCACAC
1 GCCCGTGTGGGCCCACAC
63611123 ATCCCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.43, G:0.31, T:0.14
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:63612496 original size:28 final size:28
Alignment explanation
Indices: 63612460--63612595 Score: 193
Period size: 28 Copynumber: 4.9 Consensus size: 28
63612450 GCTGTTGAAT
* * *
63612460 ACTCAATATCTCACACACTAAGTACCAC
1 ACTCGATATCTCGCACACTAAGTGCCAC
63612488 ACTCGATATCTCGCACACTACA-TGCCAC
1 ACTCGATATCTCGCACACTA-AGTGCCAC
63612516 ACTCGATATCTCGCACACTAAGTGCCAC
1 ACTCGATATCTCGCACACTAAGTGCCAC
* *
63612544 ACTCGGTATCTCTCACACTAAGTGCCAC
1 ACTCGATATCTCGCACACTAAGTGCCAC
* *
63612572 ACTTGGTATCTCGCACACTAAGTG
1 ACTCGATATCTCGCACACTAAGTG
63612596 TCGTACAAAG
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 1 0.01
28 97 0.98
29 1 0.01
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (28 bp):
ACTCGATATCTCGCACACTAAGTGCCAC
Found at i:63612506 original size:16 final size:16
Alignment explanation
Indices: 63612485--63612534 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
63612475 CACTAAGTAC
63612485 CACACTCGATATCTCG
1 CACACTCGATATCTCG
* *
63612501 CACACT--ACAT-GC-
1 CACACTCGATATCTCG
63612513 CACACTCGATATCTCG
1 CACACTCGATATCTCG
63612529 CACACT
1 CACACT
63612535 AAGTGCCACA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
12 6 0.23
13 1 0.04
14 6 0.23
15 1 0.04
16 12 0.46
ACGTcount: A:0.28, C:0.40, G:0.10, T:0.22
Consensus pattern (16 bp):
CACACTCGATATCTCG
Found at i:63620273 original size:20 final size:20
Alignment explanation
Indices: 63620248--63620287 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
63620238 GTCCACCATG
63620248 GAAGGGGATTGTATCAGTTA
1 GAAGGGGATTGTATCAGTTA
63620268 GAAGGGGATTGTATCAGTTA
1 GAAGGGGATTGTATCAGTTA
63620288 TGCCAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (20 bp):
GAAGGGGATTGTATCAGTTA
Found at i:63622089 original size:44 final size:44
Alignment explanation
Indices: 63622026--63622544 Score: 207
Period size: 44 Copynumber: 11.6 Consensus size: 44
63622016 CATCGTAGCG
** * * * *
63622026 AATCTTATCTCATTGAAGTTGCAGTGGAGCAAATTAAAGCCAGA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
** * * * **
63622070 AATCTTATCTCCCTAAAGTTGCAAAGGGGCAGATTATAGATAGTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* * * * * * *
63622115 AATCTTATCTCTCTAAGGTTGTAATAGAGCAGGTTGAAGCTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
63622159 AATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
63622203 AGTCTTATCTCCCTAAAGTTGCAGTGAAGTAGATTAAAACT--A
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
63622245 AATCCTATAC-CTCTAGAGTTGCAGTAGG-TC-GAATTAAAACTACCATAGAA
1 AATCTTAT-CTCCCTAAAGTTGCAGT-GGAGCAG-ATTAAAGCTA-C-----A
* * *
63622295 AATCTTATCT-CTTGAAGTCGCAGTGGAGCAGATTAAAGCTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * **
63622338 AGTCTTATATCCTTGAAGTTGTAGTGGAGTGGATTTAAA-CTA-A
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TTAAAGCTACA
* * * * * *
63622381 ATTC-TATAC-CTCTAAAGTTGTAGTAGG-TCGGATTAAATCTACCATAGCA
1 AATCTTAT-CTCCCTAAAGTTGCAGT-GGAGCAGATT-AA---AGC-TA-CA
* * * *
63622430 AATCTTATCTTCCTGAAGTGGCAGTGGAGAAGATTAAAGCTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * ** *
63622474 AGTCTTATCTCCTTGAAGCTACAGTGGAATAGATTAAAACTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
** *
63622518 GTTCTTATAC-CCCAAAAGTTGCAGTGG
1 AATCTTAT-CTCCCTAAAGTTGCAGTGG
63622545 GTTAAAATGT
Statistics
Matches: 349, Mismatches: 95, Indels: 62
0.69 0.19 0.12
Matches are distributed among these distances:
41 3 0.01
42 49 0.14
43 17 0.05
44 176 0.50
45 41 0.12
46 3 0.01
47 2 0.01
48 3 0.01
49 29 0.08
50 26 0.07
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:63622501 original size:136 final size:136
Alignment explanation
Indices: 63622157--63622542 Score: 513
Period size: 135 Copynumber: 2.8 Consensus size: 136
63622147 GTTGAAGCTA
* * * * * *
63622157 CAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTAAAGT
1 CAAATCTTATCTTCCTGAAGTCGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCTTGAAGT
* * *
63622222 TGCAGTGAAGTAGATTAAAACTAAATCCTATACCTCTAGAGTTGCAGTAGGTCGAATTAAAACTA
66 TGCAGTGGAGTAGATTAAAACTAAATTCTATACCTCTAAAGTTGCAGTAGGTCGAATTAAAACTA
63622287 CCATAG
131 CCATAG
* * *
63622293 AAAATCTTATC-TCTTGAAGTCGCAGTGGAGCAGATTAAAGCTACAAGTCTTATATCCTTGAAGT
1 CAAATCTTATCTTCCTGAAGTCGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCTTGAAGT
* * * * * *
63622357 TGTAGTGGAGTGGATTTAAACTAAATTCTATACCTCTAAAGTTGTAGTAGGTCGGATTAAATCTA
66 TGCAGTGGAGTAGATTAAAACTAAATTCTATACCTCTAAAGTTGCAGTAGGTCGAATTAAAACTA
63622422 CCATAG
131 CCATAG
* * *
63622428 CAAATCTTATCTTCCTGAAGTGGCAGTGGAGAAGATTAAAGCTACAAGTCTTATCTCCTTGAAGC
1 CAAATCTTATCTTCCTGAAGTCGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCTTGAAGT
* * * * *
63622493 TACAGTGGAATAGATTAAAACTACAGTTCTTATACCCCAAAAGTTGCAGT
66 TGCAGTGGAGTAGATTAAAACTA-AATTC-TATACCTCTAAAGTTGCAGT
63622543 GGGTTAAAAT
Statistics
Matches: 214, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
135 118 0.55
136 75 0.35
137 4 0.02
138 17 0.08
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (136 bp):
CAAATCTTATCTTCCTGAAGTCGCAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCTTGAAGT
TGCAGTGGAGTAGATTAAAACTAAATTCTATACCTCTAAAGTTGCAGTAGGTCGAATTAAAACTA
CCATAG
Found at i:63622749 original size:20 final size:22
Alignment explanation
Indices: 63622715--63622765 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
63622705 ACAAGTAAAT
*
63622715 AAAAGAAAA-ATTACAA-ACCC
1 AAAATAAAATATTACAAGACCC
*
63622735 -AAATAAAATATTACAAGGCCC
1 AAAATAAAATATTACAAGACCC
63622756 AAAATAAAAT
1 AAAATAAAAT
63622766 GAAAACCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 7 0.27
20 7 0.27
21 3 0.12
22 9 0.35
ACGTcount: A:0.63, C:0.16, G:0.06, T:0.16
Consensus pattern (22 bp):
AAAATAAAATATTACAAGACCC
Found at i:63623863 original size:4 final size:4
Alignment explanation
Indices: 63623839--63623973 Score: 53
Period size: 4 Copynumber: 33.5 Consensus size: 4
63623829 TTTTTATTCT
* * * *
63623839 TTTA TTCA TTTA TTTA CTTA TTTA TTTA TTCA -TTA GTCCT- TTTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -T-TTA TTTA -TTTA
* * * * * * * * *
63623888 TTCA TTTA TTTA CTCA TCTA CTTA TCTA TTTA TATA -TTA TTCA CTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
63623935 TTTA TTT- TTTA TTTTA ATCA TTTTA TTCA TTTA TTTA TT
1 TTTA TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA TTTA TT
63623974 ATTCCTTCAT
Statistics
Matches: 90, Mismatches: 32, Indels: 18
0.64 0.23 0.13
Matches are distributed among these distances:
3 8 0.09
4 71 0.79
5 10 0.11
6 1 0.01
ACGTcount: A:0.24, C:0.11, G:0.01, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:63623940 original size:23 final size:23
Alignment explanation
Indices: 63623907--63623999 Score: 64
Period size: 23 Copynumber: 4.0 Consensus size: 23
63623897 TTACTCATCT
*
63623907 ACTTATCTATTTATATATTATTC
1 ACTTATTTATTTATATATTATTC
* * *
63623930 ACTTATTTATTTTTTATTTTAATC
1 ACTTATTTA-TTTATATATTATTC
* * *
63623954 ATTTTATTCATTTATTTATTATTC
1 A-CTTATTTATTTATATATTATTC
*
63623978 -CTTCATTTTTTTA-ATTATTATT
1 ACTT-ATTTATTTATA-TATTATT
63624000 TTTTTTCCTT
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
22 2 0.04
23 22 0.42
24 22 0.42
25 6 0.12
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.65
Consensus pattern (23 bp):
ACTTATTTATTTATATATTATTC
Found at i:63624038 original size:15 final size:15
Alignment explanation
Indices: 63624020--63624049 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63624010 TTCTCGATTA
*
63624020 TTTTTTTCTTTTTTC
1 TTTTTTTCTTCTTTC
63624035 TTTTTTTCTTCTTTC
1 TTTTTTTCTTCTTTC
63624050 GTGCTTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTCTTCTTTC
Found at i:63624210 original size:40 final size:42
Alignment explanation
Indices: 63624166--63624250 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 42
63624156 TATTGGTACA
*
63624166 TTTTTT-GTTTATTATTGTCA-TTTATTATTTTAT-TT-TTAT
1 TTTTTTAGTGTATTATTGTCATTTTATTA-TTTATCTTATTAT
* * *
63624205 TTTTTTAGTGTGTTCTTGTTATTTTATTATTTATCTTATTAT
1 TTTTTTAGTGTATTATTGTCATTTTATTATTTATCTTATTAT
63624247 TTTT
1 TTTT
63624251 AGTACTTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
39 6 0.16
40 15 0.39
41 9 0.24
42 8 0.21
ACGTcount: A:0.16, C:0.04, G:0.07, T:0.73
Consensus pattern (42 bp):
TTTTTTAGTGTATTATTGTCATTTTATTATTTATCTTATTAT
Found at i:63631295 original size:55 final size:58
Alignment explanation
Indices: 63631202--63631340 Score: 151
Period size: 55 Copynumber: 2.4 Consensus size: 58
63631192 ATGTATACAA
* ** ** * *
63631202 CAGGATTACCAGTCCAGGCTAAATCCTTTTTATGACATATGCT-TA-AGGACTTGAT-T
1 CAGGATTACCTGTCCAGGCTAAATCCAATCCATAACATATGCTCGAGAGGACTT-ATAT
* *
63631258 -TGGATTACCTGTCCAAGCTAAATCCAATCCATAACATATGCTCGAGAGGACTTATAT
1 CAGGATTACCTGTCCAGGCTAAATCCAATCCATAACATATGCTCGAGAGGACTTATAT
*
63631315 CAAGATTACCTGTCCAGGCTAAATCC
1 CAGGATTACCTGTCCAGGCTAAATCC
63631341 TTTCTGTAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
55 34 0.51
56 3 0.04
57 8 0.12
58 22 0.33
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (58 bp):
CAGGATTACCTGTCCAGGCTAAATCCAATCCATAACATATGCTCGAGAGGACTTATAT
Found at i:63654373 original size:85 final size:85
Alignment explanation
Indices: 63654227--63654405 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
63654217 GGCCGGCCAT
63654227 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
63654292 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
63654312 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
63654377 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
63654397 GAGCATGGG
1 GAGCATGGG
63654406 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:63662778 original size:47 final size:47
Alignment explanation
Indices: 63662715--63663003 Score: 389
Period size: 47 Copynumber: 6.1 Consensus size: 47
63662705 TTAGGATTTT
* * *
63662715 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* ** *
63662762 ATGCGATGAATGTGAACCCGTATATATATGTGTGATAGGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
63662813 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
63662860 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
63662907 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
63662954 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
63663001 ATG
1 ATG
63663004 CGAAACGTGT
Statistics
Matches: 215, Mismatches: 23, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
47 173 0.80
49 2 0.01
51 40 0.19
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:63662870 original size:145 final size:141
Alignment explanation
Indices: 63662716--63662998 Score: 431
Period size: 141 Copynumber: 2.0 Consensus size: 141
63662706 TAGGATTTTA
*
63662716 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGCGATGAATGTGAACCC
1 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAA--C
* * * * ** *
63662781 GTATATATATGTGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
64 --ATACATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATA
63662846 AGGCCGAATGGCCAC
127 AGGCCGAATGGCCAC
*
63662861 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
1 TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAACAT
* *
63662926 GCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAAGGC
66 ACATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGC
63662991 CGAATGGC
131 CGAATGGC
63662999 TAATGCGAAA
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
141 66 0.52
143 1 0.01
145 60 0.47
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (141 bp):
TGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAACAT
ACATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGC
CGAATGGCCAC
Found at i:63663066 original size:46 final size:46
Alignment explanation
Indices: 63662977--63663067 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
63662967 GAACATGAAT
* * * *
63662977 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
63663023 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
63663068 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:63663074 original size:141 final size:141
Alignment explanation
Indices: 63662722--63663052 Score: 348
Period size: 141 Copynumber: 2.3 Consensus size: 141
63662712 TTTATGTGAT
* * ** * **
63662722 GGATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGCGATGAATGTGAACCCGTATAT
1 GGATATGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAA--C--ATGC
* * * ** *
63662787 ATATGTGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCG
62 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCG
* * *
63662852 AATGGCCACTGTGAT
127 AATGGCCAATGCGAC
* * *
63662867 GGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 GGATATGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATAT
*
63662932 ATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATG
66 ATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATG
*
63662997 GCTAATGCGAAAC
131 GCCAATGCG--AC
* *
63663010 GTG-TATG-AGATG-GATATGTG-G-TAAAGCCAAATGGCTAATGTGA
1 G-GATATGAACATGCG-TATGTGTGATAAAGCCAAATGGCCAATGTGA
63663053 GATATGTACG
Statistics
Matches: 162, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
140 19 0.12
141 72 0.44
142 10 0.06
143 6 0.04
144 1 0.01
145 54 0.33
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.25
Consensus pattern (141 bp):
GGATATGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATAT
ATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATG
GCCAATGCGAC
Found at i:63667713 original size:14 final size:14
Alignment explanation
Indices: 63667694--63667736 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
63667684 TGCTATGCAT
63667694 ACAAAATATAAAAG
1 ACAAAATATAAAAG
*
63667708 ACAAAAATATGAAAG
1 AC-AAAATATAAAAG
*
63667723 ACATAATAGTAAAA
1 ACAAAATA-TAAAA
63667737 TGTGAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.67, C:0.07, G:0.09, T:0.16
Consensus pattern (14 bp):
ACAAAATATAAAAG
Found at i:63667716 original size:15 final size:15
Alignment explanation
Indices: 63667696--63667725 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63667686 CTATGCATAC
63667696 AAAATATAAAAGACA
1 AAAATATAAAAGACA
*
63667711 AAAATATGAAAGACA
1 AAAATATAAAAGACA
63667726 TAATAGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAATATAAAAGACA
Found at i:63671336 original size:21 final size:21
Alignment explanation
Indices: 63671310--63671349 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
63671300 TGTGAATTAA
63671310 TTAATTAATCTAA-ACAATATT
1 TTAATTAATC-AACACAATATT
63671331 TTAATTAATCAACACAATA
1 TTAATTAATCAACACAATA
63671350 CTTGTATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAATTAATCAACACAATATT
Found at i:63672352 original size:2 final size:2
Alignment explanation
Indices: 63672345--63672384 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
63672335 CATGTGCACT
63672345 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
63672385 GATCTTTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:63684575 original size:24 final size:24
Alignment explanation
Indices: 63684521--63684683 Score: 157
Period size: 24 Copynumber: 6.7 Consensus size: 24
63684511 GAAATGACAT
*
63684521 TGGCACTAAGTGTGCGGATTTTGAA
1 TGGCACTATGTGTGCGGA-TTTGAA
*
63684546 TGGCACTATGTGTGCGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
63684570 TAGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
63684594 TGTCAATACGAGTGTGTGGATTTCTAA
1 TGGCACTA--TGTGTGCGGATTT-GAA
* * *
63684621 -GGCACTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
*
63684644 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
63684668 TAGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
63684684 AAATCGATTG
Statistics
Matches: 108, Mismatches: 26, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
23 1 0.01
24 73 0.68
25 17 0.16
26 15 0.14
27 2 0.02
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:63684632 original size:74 final size:75
Alignment explanation
Indices: 63684529--63684668 Score: 187
Period size: 74 Copynumber: 1.9 Consensus size: 75
63684519 ATTGGCACTA
* *
63684529 AGTGTGCGGATTTTGAATGGCACTATGTGTGCGGAATT-GAATAGCACTATGTGTGCTGATTTGA
1 AGTGTGCGGATTTTGAATGGCACTATGTGTGCGG-ATTAGAATAGCACTAAGTGTGCGGATTTGA
63684593 ATGTCAATACG
65 ATGTCAATACG
* * * *
63684604 AGTGTGTGGATTTCT-AA-GGCACTATGTGTGCGGGTTAGCATGGCACTAAGTGTGCGGATTTGA
1 AGTGTGCGGATTT-TGAATGGCACTATGTGTGCGGATTAGAATAGCACTAAGTGTGCGGATTTGA
63684667 AT
65 AT
63684669 AGCACTATGT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
73 2 0.04
74 40 0.70
75 14 0.25
76 1 0.02
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (75 bp):
AGTGTGCGGATTTTGAATGGCACTATGTGTGCGGATTAGAATAGCACTAAGTGTGCGGATTTGAA
TGTCAATACG
Found at i:63691379 original size:46 final size:47
Alignment explanation
Indices: 63691323--63691484 Score: 131
Period size: 47 Copynumber: 3.5 Consensus size: 47
63691313 CACACCAAAT
* * * * *
63691323 CCATAACCCAGCCATGGTTTTACATAG-ATCACATATCAT-ACCGATG
1 CCATATCCCAGACATGGTCTTACAAAGAAGCACATAT-ATCACCGATG
* *
63691369 CCATATCCCAGATATGGTCTTACAAAGAAGCACATATTTCACCGATG
1 CCATATCCCAGACATGGTCTTACAAAGAAGCACATATATCACCGATG
* *
63691416 CCATATCCCAGATATGCTCTTATACGAAA-AA--ACATATCA-CACCGATG
1 CCATATCCCAGACATGGTC-T-TAC-AAAGAAGCACATAT-ATCACCGATG
*
63691463 CCATAGCCCAG-CTATGGTCTTA
1 CCATATCCCAGAC-ATGGTCTTA
63691485 TACGGAAATC
Statistics
Matches: 97, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.02
46 24 0.25
47 62 0.64
48 1 0.01
49 5 0.05
50 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (47 bp):
CCATATCCCAGACATGGTCTTACAAAGAAGCACATATATCACCGATG
Found at i:63691485 original size:47 final size:49
Alignment explanation
Indices: 63691352--63691488 Score: 176
Period size: 47 Copynumber: 2.9 Consensus size: 49
63691342 TTACATAGAT
*
63691352 CACATATCATACCGATGCCATATCCCAGATATGGTC-T-TAC-AAAGAA
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAAGAA
** *
63691398 GCACATATTTCACCGATGCCATATCCCAGATATGCTCTTATACGAAA-AA
1 -CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAAGAA
* *
63691447 -ACATATCACACCGATGCCATAGCCCAGCTATGGTCTTATACG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACG
63691489 GAAATCATAT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
47 69 0.88
48 1 0.01
49 5 0.06
50 3 0.04
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.25
Consensus pattern (49 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAAGAA
Found at i:63692174 original size:336 final size:336
Alignment explanation
Indices: 63691559--63692567 Score: 1883
Period size: 336 Copynumber: 3.0 Consensus size: 336
63691549 GTCACTGAAT
63691559 GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
1 GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
* *
63691624 GACAATACCATACCATAGCATTCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
66 TACAATACCATACCATAGCATCCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
* *
63691689 TACCTGGGCAAATTTGCAAAGGTTGTACAAGTTCATGGACTAATCGGCTATTTTCTCTTTTCTAC
131 TACCTAGGCAAATTTGCAAAAGTTGTACAAGTTCATGGACTAATCGGCTATTTTCTCTTTTCTAC
63691754 GATTCACTTCGGGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
196 GATTCACTTCGGGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
* *
63691819 TACTCTACTTCATAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAGTT
261 TACTCTACTTCACAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
63691884 TTTACAATTTA
326 TTTACAATTTA
* * *
63691895 GAAAGTACTCAATCCGATTCAAGTATTCAGACTTTCACGATTATCTCAGCTTAATAACATTCATA
1 GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
63691960 TACAATACCATACCATAGCATCCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
66 TACAATACCATACCATAGCATCCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
63692025 TACCTAGGCAAATTTGCAAAAGTTGTACAAGTTCATGGACTAATCGGCTATTTTCTCTTTTCTAC
131 TACCTAGGCAAATTTGCAAAAGTTGTACAAGTTCATGGACTAATCGGCTATTTTCTCTTTTCTAC
63692090 GATTCACTTCGGGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
196 GATTCACTTCGGGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
63692155 TACTCTACTTCACAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
261 TACTCTACTTCACAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
63692220 TTTACAATTTA
326 TTTACAATTTA
63692231 GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
1 GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
63692296 TACAATACCATACCATAGCATCCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
66 TACAATACCATACCATAGCATCCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
*
63692361 TACCTAGGCAAATTTGCAAAAGTTGTACAAGTTCATGGACTAATCAGCTATTTTCTCTTTTCTAC
131 TACCTAGGCAAATTTGCAAAAGTTGTACAAGTTCATGGACTAATCGGCTATTTTCTCTTTTCTAC
* *
63692426 AATTCACTTCGAGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
196 GATTCACTTCGGGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
* * *
63692491 TACTCTACTTAACAGTCTACACCCTTCATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
261 TACTCTACTTCACAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
63692556 TTTACAATTTA
326 TTTACAATTTA
63692567 G
1 G
63692568 TCCTTGCTCA
Statistics
Matches: 655, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
336 655 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (336 bp):
GAAAGTACTCAATCCGATTCAAATATTCATACTTTCACAATTATCTCAGCTTAATAACATTCATA
TACAATACCATACCATAGCATCCATGAATTTTCATAACAATTCATTAAATTTAGCCATATGAACT
TACCTAGGCAAATTTGCAAAAGTTGTACAAGTTCATGGACTAATCGGCTATTTTCTCTTTTCTAC
GATTCACTTCGGGTTTTTGATCTATAATTGTAAAATCATTCATTTATTAGAATTCATTTCAATTT
TACTCTACTTCACAGTCTATACCCTTTATCCCCAAAATTACACTTTTGCCCTAAATTTTACAATT
TTTACAATTTA
Found at i:63695740 original size:274 final size:274
Alignment explanation
Indices: 63695388--63695946 Score: 1100
Period size: 274 Copynumber: 2.0 Consensus size: 274
63695378 AAACAATTTA
63695388 TTTTTAAAATTTTCAGTCAAGCTAGCAATCTGCATCACAGTCACTTAAAAATTCATATCTCGAGT
1 TTTTTAAAATTTTCAGTCAAGCTAGCAATCTGCATCACAGTCACTTAAAAATTCATATCTCGAGT
63695453 TCCGAAACTCGAAATCCAATTCCGTAAATTTTCCCTGAAACTATACTCATATATCTATTCACTAA
66 TCCGAAACTCGAAATCCAATTCCGTAAATTTTCCCTGAAACTATACTCATATATCTATTCACTAA
63695518 TTGTTTTCTAGAATTTTTGGTCAATCCAATTAGTACATTTTATTAGTTAAAGTCTCCCTTGTTTC
131 TTGTTTTCTAGAATTTTTGGTCAATCCAATTAGTACATTTTATTAGTTAAAGTCTCCCTTGTTTC
63695583 AGGGTTTGAATTCTCTGACCTCTGTATATTACGAATCAGATATCTCTCTGTACAGAATTTCAATG
196 AGGGTTTGAATTCTCTGACCTCTGTATATTACGAATCAGATATCTCTCTGTACAGAATTTCAATG
63695648 ACTATGAAATTTGT
261 ACTATGAAATTTGT
63695662 TTTTTAAAATTTTCAGTCAAGCTAGCAATCTGCATCACAGTCACTTAAAAATTCATATCTCGAGT
1 TTTTTAAAATTTTCAGTCAAGCTAGCAATCTGCATCACAGTCACTTAAAAATTCATATCTCGAGT
63695727 TCCGAAACTCGAAATCCAATTCCGTAAATTTTCCCTGAAACTATACTCATATATCTATTCACTAA
66 TCCGAAACTCGAAATCCAATTCCGTAAATTTTCCCTGAAACTATACTCATATATCTATTCACTAA
63695792 TTGTTTTCTAGAATTTTTGGTCAATCCAATTAGTACATTTTATTAGTTAAAGTCTCCCTTGTTTC
131 TTGTTTTCTAGAATTTTTGGTCAATCCAATTAGTACATTTTATTAGTTAAAGTCTCCCTTGTTTC
63695857 AGGGTTTGAATTCTCTGACCTCTGTATATTACGAATCAGATATCTCTCTGTACAGAATTTCAATG
196 AGGGTTTGAATTCTCTGACCTCTGTATATTACGAATCAGATATCTCTCTGTACAGAATTTCAATG
63695922 ACTATGAAATTTGT
261 ACTATGAAATTTGT
63695936 TTCTCTTAAAA
1 TT-T-TTAAAA
63695947 CTAGACTCGA
Statistics
Matches: 283, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
274 276 0.98
275 1 0.00
276 6 0.02
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (274 bp):
TTTTTAAAATTTTCAGTCAAGCTAGCAATCTGCATCACAGTCACTTAAAAATTCATATCTCGAGT
TCCGAAACTCGAAATCCAATTCCGTAAATTTTCCCTGAAACTATACTCATATATCTATTCACTAA
TTGTTTTCTAGAATTTTTGGTCAATCCAATTAGTACATTTTATTAGTTAAAGTCTCCCTTGTTTC
AGGGTTTGAATTCTCTGACCTCTGTATATTACGAATCAGATATCTCTCTGTACAGAATTTCAATG
ACTATGAAATTTGT
Found at i:63698340 original size:41 final size:42
Alignment explanation
Indices: 63698295--63698379 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 42
63698285 GATTTGTGGT
* *
63698295 CACGAAACCACTATTATGATTAGG-CCTAATTCGGGATATTA
1 CACGAAACCACTATTACGACTAGGCCCTAATTCGGGATATTA
* * * *
63698336 CACGAAACCACTGTTCCGACTAGGCCCTATTTCGGGATGTTA
1 CACGAAACCACTATTACGACTAGGCCCTAATTCGGGATATTA
63698378 CA
1 CA
63698380 TTTCTTCCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 20 0.54
42 17 0.46
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
CACGAAACCACTATTACGACTAGGCCCTAATTCGGGATATTA
Found at i:63706632 original size:20 final size:19
Alignment explanation
Indices: 63706591--63706632 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
63706581 CCTTTCAAAT
*
63706591 TTTCTTACTTTCATTTGTA
1 TTTCTTACTTTCATTTGCA
63706610 TTTCATTACTTTCCA-TTGCA
1 TTTC-TTACTTT-CATTTGCA
63706630 TTT
1 TTT
63706633 ACTTTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 14 0.70
21 2 0.10
ACGTcount: A:0.17, C:0.19, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTCTTACTTTCATTTGCA
Found at i:63719057 original size:11 final size:11
Alignment explanation
Indices: 63719051--63719093 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
63719041 TGAAATTTTC
63719051 TCAAAATTCTA
1 TCAAAATTCTA
*
63719062 TCAAATTTCTA
1 TCAAAATTCTA
63719073 TCAAAATTCTA
1 TCAAAATTCTA
63719084 TCAAAATTCT
1 TCAAAATTCT
63719094 TTGTTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:63719062 original size:32 final size:33
Alignment explanation
Indices: 63719019--63719093 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 33
63719009 AATATTCCCT
* ** * *
63719019 TCAAAAATCTATCAAATTTC-ATTGAAATTTTC
1 TCAAAATTCTATCAAATTTCTATCAAAATTCTA
63719051 TCAAAATTCTATCAAATTTCTATCAAAATTCTA
1 TCAAAATTCTATCAAATTTCTATCAAAATTCTA
63719084 TCAAAATTCT
1 TCAAAATTCT
63719094 TTGTTTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 19 0.51
33 18 0.49
ACGTcount: A:0.41, C:0.17, G:0.01, T:0.40
Consensus pattern (33 bp):
TCAAAATTCTATCAAATTTCTATCAAAATTCTA
Found at i:63719076 original size:22 final size:22
Alignment explanation
Indices: 63719026--63719093 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
63719016 CCTTCAAAAA
* *
63719026 TCTATCAAATTTC-ATTGAAATT
1 TCTATCAAAATTCTA-TCAAATT
*
63719048 T-TCTCAAAATTCTATCAAATT
1 TCTATCAAAATTCTATCAAATT
*
63719069 TCTATCAAAATTCTATCAAAAT
1 TCTATCAAAATTCTATCAAATT
63719091 TCT
1 TCT
63719094 TTGTTTAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
21 16 0.41
22 23 0.59
ACGTcount: A:0.38, C:0.18, G:0.01, T:0.43
Consensus pattern (22 bp):
TCTATCAAAATTCTATCAAATT
Found at i:63720332 original size:7 final size:7
Alignment explanation
Indices: 63720312--63720354 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
63720302 CATAATAAAA
63720312 TAGTCATT
1 TAGT-ATT
*
63720320 TTGTATT
1 TAGTATT
63720327 TAGTATT
1 TAGTATT
63720334 TAGTATT
1 TAGTATT
*
63720341 TAGCATT
1 TAGTATT
63720348 TAGTATT
1 TAGTATT
63720355 ATGTATTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
7 28 0.90
8 3 0.10
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.56
Consensus pattern (7 bp):
TAGTATT
Found at i:63720341 original size:21 final size:20
Alignment explanation
Indices: 63720312--63720368 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
63720302 CATAATAAAA
63720312 TAGTCATTTTGTATTTAGTATT
1 TAGT-ATTTTGTATTTAGTA-T
* *
63720334 TAGTATTTAGCATTTAGTAT
1 TAGTATTTTGTATTTAGTAT
*
63720354 TATGTATTATGTATT
1 TA-GTATTTTGTATT
63720369 ATGTATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 3 0.10
21 22 0.76
22 4 0.14
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (20 bp):
TAGTATTTTGTATTTAGTAT
Found at i:63720360 original size:7 final size:7
Alignment explanation
Indices: 63720350--63720374 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
63720340 TTAGCATTTA
63720350 GTATTAT
1 GTATTAT
63720357 GTATTAT
1 GTATTAT
63720364 GTATTAT
1 GTATTAT
63720371 GTAT
1 GTAT
63720375 ATAAGTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:63727347 original size:12 final size:13
Alignment explanation
Indices: 63727330--63727358 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
63727320 CTCATACATG
63727330 AATAAATAAA-GC
1 AATAAATAAATGC
63727342 AATAAATAAATGC
1 AATAAATAAATGC
63727355 AATA
1 AATA
63727359 GTTATGGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:63731901 original size:40 final size:40
Alignment explanation
Indices: 63731819--63732035 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
63731809 AAGCCAAGTA
* * * *
63731819 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
63731857 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
63731897 CCTTCGAGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
63731937 CCTTCGGGACTTAGCCCGGATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
63731977 CCTTTGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
63732017 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
63732036 TTATCATCCG
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
38 12 0.08
39 17 0.11
40 128 0.82
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:63739134 original size:126 final size:126
Alignment explanation
Indices: 63738972--63739352 Score: 618
Period size: 126 Copynumber: 3.0 Consensus size: 126
63738962 TTATAGCCTC
63738972 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTG
* * *
63739037 ACAGTGCATCCTGCTTGAAGTGTTTTCGACACTATTTGTTCAAAAACGTCTCCTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
*
63739098 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTG
* * * * * *
63739163 ACAGTGCATCTTGCTTGAAACGTTTTTGACACTATTTATTCAGAAACATCTACTTAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
63739224 ATTTTTCTATGAACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCAGAAATTTTACTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTG
* * *
63739289 ACAATGAATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
63739350 ATT
1 ATT
63739353 CTTGCAGAAA
Statistics
Matches: 232, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 232 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:63739928 original size:19 final size:19
Alignment explanation
Indices: 63739890--63739960 Score: 103
Period size: 19 Copynumber: 3.8 Consensus size: 19
63739880 ATGATTATGT
63739890 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCT-AATTTA
*
63739910 ATCAATTAACCTTAATTTA
1 ATCAATTAACCCTAATTTA
63739929 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAATTTA
63739945 ATCAATTAACCCTAAT
1 ATCAATTAACCCTAAT
63739961 ACCCTAAACT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
16 14 0.30
17 1 0.02
18 1 0.02
19 18 0.39
20 12 0.26
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:63740466 original size:36 final size:31
Alignment explanation
Indices: 63740392--63740455 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
63740382 TAAAATGACC
* *
63740392 ATTTTAAATTAATATCAGTAAATTATATTTT
1 ATTTTAAATTAATAACAGTAAATTAAATTTT
63740423 ATTTTAAATTAATAACAGTAAATTAAATTTT
1 ATTTTAAATTAATAACAGTAAATTAAATTTT
63740454 AT
1 AT
63740456 CTTTTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (31 bp):
ATTTTAAATTAATAACAGTAAATTAAATTTT
Found at i:63740531 original size:25 final size:26
Alignment explanation
Indices: 63740489--63740537 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
63740479 TGATTCAATC
* *
63740489 TATTAAAAATTATAAAAA-TATATCA
1 TATTAAAAAATACAAAAATTATATCA
*
63740514 TATTAAAAAATACCAAAATTATAT
1 TATTAAAAAATACAAAAATTATAT
63740538 TTTTACTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
TATTAAAAAATACAAAAATTATATCA
Found at i:63745838 original size:40 final size:40
Alignment explanation
Indices: 63745794--63745941 Score: 251
Period size: 40 Copynumber: 3.7 Consensus size: 40
63745784 GCAAACACAT
* * *
63745794 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
63745834 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
63745874 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
63745914 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
63745942 TCCAATGCTC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:63754450 original size:40 final size:40
Alignment explanation
Indices: 63754406--63754553 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
63754396 GCAAACACAT
* * *
63754406 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
63754446 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
63754486 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
63754526 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
63754554 TCCAATGCTC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:63767511 original size:27 final size:28
Alignment explanation
Indices: 63767481--63767578 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
63767471 ATATTAAGTC
*
63767481 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* **
63767508 CGCACAGTTAGTATTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
63767536 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
63767565 CGCACACTTAGTGC
1 CGCACACTTAGTGC
63767579 CAATCTCATG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 19 0.33
28 20 0.34
29 19 0.33
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:63767546 original size:28 final size:27
Alignment explanation
Indices: 63767481--63767547 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
63767471 ATATTAAGTC
* *
63767481 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTACTATATAATCAACT
* *
63767508 CGCACAGTTAGTATTATATAATCAAACT
1 CGCACACTTAGTACTATATAATC-AACT
63767536 CGCACACTTAGT
1 CGCACACTTAGT
63767548 GCTGTACAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 19 0.56
28 15 0.44
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTACTATATAATCAACT
Found at i:63770517 original size:37 final size:37
Alignment explanation
Indices: 63770467--63770545 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
63770457 TTATTACAAA
* *
63770467 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
63770504 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
63770541 GTCTT
1 GTCTT
63770546 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:63770742 original size:47 final size:47
Alignment explanation
Indices: 63770664--63771199 Score: 964
Period size: 47 Copynumber: 11.4 Consensus size: 47
63770654 CCCTTTGGGA
* * * * * * *
63770664 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63770711 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63770758 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63770805 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63770852 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63770899 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63770946 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63770993 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
63771040 CTTATCACATATATACACTTTCACATTCATCACATCGGATATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63771087 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63771134 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63771181 CTTATCACATATATACACT
1 CTTATCACATATATACACT
63771200 GTCTTGGTTG
Statistics
Matches: 473, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 473 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:63774225 original size:43 final size:42
Alignment explanation
Indices: 63774164--63774266 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 42
63774154 CAATGTCGAC
* * * * **
63774164 GTCCCGGACATGGTCTTACATGTAATTCA-ATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACG-AAATCAGATA-CGATACCGAT
*
63774207 GTCCCAGACAAGGTCTTACACGAAATCAGATACGATACCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAGATACGATACCGAT
63774249 GTCCCAGACATGGTCTTA
1 GTCCCAGACATGGTCTTA
63774267 TACGTAAACC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.57
43 22 0.43
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAGATACGATACCGAT
Found at i:63774845 original size:27 final size:29
Alignment explanation
Indices: 63774782--63774846 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
63774772 CATACAACAT
63774782 GTTCAA-TTCACAATTTAGTCCCCAAAAC
1 GTTCAATTTCACAATTTAGTCCCCAAAAC
* *
63774810 ATT-ATTTTCACAATTTA-T-CCCAAATA-
1 GTTCAATTTCACAATTTAGTCCCCAAA-AC
63774836 GTTCAATTTCA
1 GTTCAATTTCA
63774847 TCAAAATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
26 8 0.27
27 9 0.30
28 13 0.43
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (29 bp):
GTTCAATTTCACAATTTAGTCCCCAAAAC
Found at i:63779237 original size:79 final size:81
Alignment explanation
Indices: 63779135--63779319 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
63779125 GCTCCTCGTT
* *
63779135 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
63779198 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
63779215 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
63779279 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
63779295 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63779320 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:63779319 original size:40 final size:40
Alignment explanation
Indices: 63779135--63779319 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
63779125 GCTCCTCGTT
* *
63779135 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
63779175 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
63779215 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
63779254 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
63779295 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63779320 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:63787207 original size:79 final size:81
Alignment explanation
Indices: 63787105--63787289 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
63787095 GCTCCTCGTT
* *
63787105 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
63787168 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
63787185 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
63787249 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
63787265 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63787290 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:63787289 original size:40 final size:40
Alignment explanation
Indices: 63787105--63787289 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
63787095 GCTCCTCGTT
* *
63787105 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
63787145 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
63787185 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
63787224 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
63787265 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63787290 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:63798695 original size:19 final size:19
Alignment explanation
Indices: 63798671--63798712 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
63798661 GCTATAATGA
63798671 GAAATTTAATACATTACTT
1 GAAATTTAATACATTACTT
63798690 GAAATTTAATACATTACTT
1 GAAATTTAATACATTACTT
63798709 GAAA
1 GAAA
63798713 AAGTAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (19 bp):
GAAATTTAATACATTACTT
Found at i:63803691 original size:49 final size:48
Alignment explanation
Indices: 63803624--63803932 Score: 217
Period size: 48 Copynumber: 6.5 Consensus size: 48
63803614 ATTAAAGTCA
* *
63803624 ATGCGTGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTTG
1 ATGCATGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCG
* ** *
63803672 ATGCAATATCCCAGACAGGTCTTACACTGGCTCT-CATCTATCG-GTGTCG
1 ATGC-ATGTCCCAGACAGGTCTTACACTAACT-TACATATATCGAG-GTCG
* * * *
63803721 ATGTCATGTCCCAGGCAGGTCTTACACTGACTTTCATTTAT-G-GTGTCG
1 ATG-CATGTCCCAGACAGGTCTTACACTAACTTACATATATCGAG-GTCG
* * * *
63803769 ATGCCATGTCCCAGACAGGTCTTACACTGAC--ACACA-A-CAAGCT-G
1 ATG-CATGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCG
* ** **
63803813 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGTCG
1 ATG-CATGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCG
* * * * * * * * *
63803862 ACGCATGTCCCAGACATGTCTTACACTAGC-T-CTTGTCTCAATGCCG
1 ATGCATGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCG
*
63803908 ATGCATGTCCCAGACATGTCTTACA
1 ATGCATGTCCCAGACAGGTCTTACA
63803933 TTGGCTCACA
Statistics
Matches: 214, Mismatches: 35, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
44 30 0.14
45 2 0.01
46 37 0.17
47 1 0.00
48 72 0.34
49 70 0.33
50 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGCATGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCG
Found at i:63803782 original size:48 final size:49
Alignment explanation
Indices: 63803629--63803888 Score: 220
Period size: 49 Copynumber: 5.4 Consensus size: 49
63803619 AGTCAATGCG
* * * *
63803629 TGTCCCAGACAGGTCTTACACTAACTTACATATATCGAG-GTTGATGCAA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCG-GTGTCGATGCCA
* * * * *
63803678 TATCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGTCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGGTGTCGATGCCA
* *
63803727 TGTCCCAGGCAGGTCTTACACTGACTTTCATTTAT-GGTGTCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGGTGTCGATGCCA
* * **
63803775 TGTCCCAGACAGGTCTTACACTGAC--ACACA-A-C-AAG-CTGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGGTGTC-GATGCCA
** *
63803819 TGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCCCGAG-GTCGACG-CA
1 TGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCG-GTGTCGATGCCA
*
63803867 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACAGGTCTTACACT
63803889 AGCTCTTGTC
Statistics
Matches: 172, Mismatches: 27, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
43 2 0.01
44 31 0.18
45 1 0.01
46 4 0.02
48 61 0.35
49 72 0.42
50 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGGTGTCGATGCCA
Found at i:63803822 original size:97 final size:98
Alignment explanation
Indices: 63803629--63803888 Score: 239
Period size: 92 Copynumber: 2.7 Consensus size: 98
63803619 AGTCAATGCG
*
63803629 TGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTTGATGCAATATCCCAGACAGGTCT
1 TGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCGATGCAATATCCCAGACAGGTCT
* * * * * * * *
63803694 TACACTGGCTCTCATCTATCGGTGTCGATGTCA
66 TACACTGACACACAACAAGCGATGTCCATGTCA
* * * * * *
63803727 TGTCCCAGGCAGGTCTTACACTGACTTTCATTTAT-G-GTGTCGATGCCATGTCCCAGACAGGTC
1 TGTCCCAGACAGGTCTTACACTAACTTACATATATCGAG-GTCGATGCAATATCCCAGACAGGTC
*
63803790 TTACACTGACACACAACAAGC--TG---ATGCCA
65 TTACACTGACACACAACAAGCGATGTCCATGTCA
* ** ** * * *
63803819 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGTCGACGC-ATGTCCCAGACATGTCT
1 TGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCGATGCAATATCCCAGACAGGTCT
63803883 TACACT
66 TACACT
63803889 AGCTCTTGTC
Statistics
Matches: 135, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
92 54 0.40
93 8 0.06
94 1 0.01
95 2 0.01
96 1 0.01
97 38 0.28
98 31 0.23
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (98 bp):
TGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCGATGCAATATCCCAGACAGGTCT
TACACTGACACACAACAAGCGATGTCCATGTCA
Found at i:63803925 original size:46 final size:48
Alignment explanation
Indices: 63803812--63803932 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 48
63803802 ACAACAAGCT
* * * *
63803812 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGTC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTCTATATCCCAAGGCC
* * * *
63803861 GACGCATGTCCCAGACATGTCTTACACTAGC-TCT-TGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTCTATATCCCAAGGCC
63803907 GATGCATGTCCCAGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
63803933 TTGGCTCACA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 32 0.51
47 2 0.03
48 26 0.41
49 3 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTCTATATCCCAAGGCC
Found at i:63807692 original size:49 final size:48
Alignment explanation
Indices: 63807576--63807749 Score: 172
Period size: 49 Copynumber: 3.6 Consensus size: 48
63807566 ACATTAAAGC
* * * * *
63807576 CGATGCCGTGTCCCAGACAGGTCTTACACT-AACTTTTATATATTGAG-GT
1 CGATGCCATGTCCCAGACAGGTCTTACAATGAA-TCTCATCTA-TG-GTGT
* * **
63807625 CGATGCCATATCCCAGACAGGTCTTACAGTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACAATGAATCTCATCTAT-GGTGT
* * ** *
63807674 TGATGTCATGTCTGAGACAGGTCTTACAATGAATTTCATCTATGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACAATGAATCTCATCTATGGTGT
63807722 CGATGCCATGTCCCAGACAGGTCTTACA
1 CGATGCCATGTCCCAGACAGGTCTTACA
63807750 CTGACACACA
Statistics
Matches: 101, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
48 31 0.31
49 70 0.69
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGGTCTTACAATGAATCTCATCTATGGTGT
Found at i:63807879 original size:46 final size:45
Alignment explanation
Indices: 63807764--63807940 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 45
63807754 CACACAACAA
* * * *
63807764 GCTGATGCCATGTCCCAGACAGGGCTTACACTAGCTTGTATATCTCGAA-
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGC---TCTCTCTC-AAT
* *
63807813 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTC-TCTCAAT
* *
63807859 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTC-AT-AATGT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAA--T
*
63807904 GCCTGATGCATGTCCCAGACATGTCTTACACTGGCTC
1 G-CTGATGCATGTCCCAGACATGTCTTACACTAGCTC
63807941 ACGTACCACC
Statistics
Matches: 113, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 6 0.05
46 74 0.65
48 24 0.21
49 6 0.05
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAAT
Found at i:63809405 original size:43 final size:42
Alignment explanation
Indices: 63809358--63809511 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 42
63809348 TGTGTTCTTG
**
63809358 TGTAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATT-CA
* * * ** *
63809401 TGTAAGA-CATGTTTAGGACATCAGCATCG-TATTTGATTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTCA
* *
63809441 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTTATTGCA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGATT-CA
* *
63809484 TGTACGACCACATCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
63809512 TATATGATAT
Statistics
Matches: 87, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
40 9 0.10
41 23 0.26
42 22 0.25
43 32 0.37
44 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTCA
Found at i:63809461 original size:41 final size:42
Alignment explanation
Indices: 63809382--63809487 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 42
63809372 TGGGATGTTG
*
63809382 GCATCGATATGTGATTACATGTAAGACATGTTTAGGACATCA
1 GCATCGATATGTGATTACATGTAAGACATGTCTAGGACATCA
* * * *
63809424 GCATCG-TATTTGATT-CATGTAAGACCCTGTCTGGGACAGT-G
1 GCATCGATATGTGATTACATGTAAGA-CATGTCTAGGACA-TCA
* *
63809465 GCATCGATATGTTATTGCATGTA
1 GCATCGATATGTGATTACATGTA
63809488 CGACCACATC
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
40 9 0.17
41 24 0.45
42 14 0.26
43 6 0.11
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
GCATCGATATGTGATTACATGTAAGACATGTCTAGGACATCA
Found at i:63812790 original size:57 final size:57
Alignment explanation
Indices: 63812727--63812843 Score: 182
Period size: 57 Copynumber: 2.1 Consensus size: 57
63812717 GGAAATAGTG
* *
63812727 AAATGGAGAATAGGAAAT-ATTTGGAAATAACTATGGTTTTCTTCAAAATGAAAATGA
1 AAATGGAGAA-AGGAAATCATTTGGAAATAAATATGGTTTTCTCCAAAATGAAAATGA
* *
63812784 AAATGGAGAAATGAAATCATTTGTAAATAAATATGGTTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAAGGAAATCATTTGGAAATAAATATGGTTTTCTCCAAAATGAAAATGA
63812841 AAA
1 AAA
63812844 AAAAAGAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 6 0.11
57 49 0.89
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (57 bp):
AAATGGAGAAAGGAAATCATTTGGAAATAAATATGGTTTTCTCCAAAATGAAAATGA
Found at i:63815970 original size:43 final size:42
Alignment explanation
Indices: 63815867--63815978 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
63815857 TGTGTTATTG
* * *
63815867 TGTAAGACCACGTCTGGGAC-GTTGGCATCGTATATGATTTCA
1 TGTAAGACCATGTCTGGGACAG-TGGCATCATATATGATTACA
* *
63815909 TGTAAGACCCTGTCTGGGACAGTGGCATCAATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATC-ATATATGATTACA
* * *
63815952 TGTAAGACTATGTTTGGGACATTGGCA
1 TGTAAGACCATGTCTGGGACAGTGGCA
63815979 ATGTACGAGC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCATATATGATTACA
Found at i:63821198 original size:43 final size:43
Alignment explanation
Indices: 63821137--63821220 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
63821127 GGAATTAAGA
* *
63821137 AATCCGAGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAG
1 AATCCGAACTCGTTGAGTGGTCCAAGTTCGTGATATATGTGAG
*
63821180 AATCCGAACTTGTTGAGTGGTCCAAGTTCGTGATATATGTG
1 AATCCGAACTCGTTGAGTGGTCCAAGTTCGTGATATATGTG
63821221 CTATCTGAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (43 bp):
AATCCGAACTCGTTGAGTGGTCCAAGTTCGTGATATATGTGAG
Found at i:63821352 original size:51 final size:51
Alignment explanation
Indices: 63821265--63821364 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 51
63821255 TGGATGCGAG
* * * *
63821265 CATTTGAGCTCGTTGAGTGGTCCAAGGTCATAATGGATGCGATACATGTAA
1 CATTCGAGCTCATTGAGAGGGCCAAGGTCATAATGGATGCGATACATGTAA
* * * * *
63821316 CATTCGAGCTCATTGAGAGGGCCGAGTTCATTATGGATGTGTTACATGT
1 CATTCGAGCTCATTGAGAGGGCCAAGGTCATAATGGATGCGATACATGT
63821365 TATAAGGTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
CATTCGAGCTCATTGAGAGGGCCAAGGTCATAATGGATGCGATACATGTAA
Found at i:63826078 original size:40 final size:40
Alignment explanation
Indices: 63826031--63826109 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
63826021 ACACACCATG
* * *
63826031 TGGGGATAAAATCGACCCGCCCAGGCCTACACACCAAGTA
1 TGGGGATAAAATCAACCCACCCAGCCCTACACACCAAGTA
*
63826071 TGGGGATAAAATCAACCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCAACCCACCCAGCCCTACACACCAAGT
63826110 GGTACTATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.33, G:0.19, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAGCCCTACACACCAAGTA
Found at i:63829701 original size:24 final size:24
Alignment explanation
Indices: 63829652--63829751 Score: 130
Period size: 24 Copynumber: 4.2 Consensus size: 24
63829642 CCAACTCCTG
* *
63829652 CTCCTTGATTAGCTCCT-AATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
63829675 CTCCTTTATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
* * *
63829699 CTCCCTTATCAGCTCTTAAATCCT
1 CTCCTTTATCAGCTCCTAAATCTT
* *
63829723 CTCCCTTATCAGCTCTTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
63829747 CTCCT
1 CTCCT
63829752 CACAGCCTGT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
23 15 0.22
24 54 0.78
ACGTcount: A:0.19, C:0.35, G:0.05, T:0.41
Consensus pattern (24 bp):
CTCCTTTATCAGCTCCTAAATCTT
Found at i:63836992 original size:12 final size:12
Alignment explanation
Indices: 63836959--63836993 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
63836949 TATGCTACAT
63836959 TATCTATAGTAC
1 TATCTATAGTAC
63836971 TATCT-TAGTAC
1 TATCTATAGTAC
*
63836982 TATCTACAGTAC
1 TATCTATAGTAC
63836994 AGTTTAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (12 bp):
TATCTATAGTAC
Found at i:63839679 original size:24 final size:24
Alignment explanation
Indices: 63839640--63839745 Score: 149
Period size: 24 Copynumber: 4.4 Consensus size: 24
63839630 GCCGGCCAAC
*
63839640 TCCTGCTCCTTGATCAGCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAA
* *
63839665 TCTTCTCCTTTATCAACTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
63839689 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
63839713 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
63839737 TCTTCTCCT
1 TCCTCTCCT
63839746 GATAGCCTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 70 0.96
25 3 0.04
ACGTcount: A:0.20, C:0.39, G:0.05, T:0.37
Consensus pattern (24 bp):
TCCTCTCCTTTATCAGCTCCTAAA
Found at i:63845805 original size:38 final size:39
Alignment explanation
Indices: 63845763--63845850 Score: 97
Period size: 40 Copynumber: 2.3 Consensus size: 39
63845753 GTCCAACCGA
* **
63845763 ACACACCACG-TGGGGATAAGTTCGACCCACCCAGCCCT
1 ACACACCAAGATGGGGATAAAATCGACCCACCCAGCCCT
* * *
63845801 ACACACCAAGTATGGGGATAAAATCGGCCTATCCAGCCCT
1 ACACACCAAG-ATGGGGATAAAATCGACCCACCCAGCCCT
*
63845841 ACACATCAAG
1 ACACACCAAG
63845851 TGGTACTGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 9 0.22
40 32 0.78
ACGTcount: A:0.32, C:0.34, G:0.19, T:0.15
Consensus pattern (39 bp):
ACACACCAAGATGGGGATAAAATCGACCCACCCAGCCCT
Found at i:63845820 original size:40 final size:40
Alignment explanation
Indices: 63845773--63845851 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
63845763 ACACACCACG
**
63845773 TGGGGATAAGTTCGACCCACCCAGCCCTACACACCAAGTA
1 TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
* * * *
63845813 TGGGGATAAAATCGGCCTATCCAGCCCTACACATCAAGT
1 TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGT
63845852 GGTACTGTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
Found at i:63849475 original size:18 final size:18
Alignment explanation
Indices: 63849448--63849482 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
63849438 CGTTCACATT
*
63849448 TTTTTCATTTTTACTTTA
1 TTTTTAATTTTTACTTTA
63849466 TTTTTAATTTTTACTTT
1 TTTTTAATTTTTACTTT
63849483 TAAAGATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTAATTTTTACTTTA
Found at i:63852883 original size:16 final size:15
Alignment explanation
Indices: 63852862--63852891 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
63852852 CTATTAGAGA
63852862 AAAATAAATGAATAAT
1 AAAATAAAT-AATAAT
63852878 AAAATAAATAATAA
1 AAAATAAATAATAA
63852892 CAATAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AAAATAAATAATAAT
Found at i:63853581 original size:24 final size:24
Alignment explanation
Indices: 63853549--63853611 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
63853539 AGGAGTAATA
* * * *
63853549 AATAAATAATATGAACAATAAACG
1 AATAAATAACATAAAAAACAAACG
*
63853573 AATAAATAACATAAAAAACAAATG
1 AATAAATAACATAAAAAACAAACG
63853597 AATAAATAAC-TAAAA
1 AATAAATAACATAAAA
63853612 TAAGAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 5 0.15
24 29 0.85
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.19
Consensus pattern (24 bp):
AATAAATAACATAAAAAACAAACG
Found at i:63854187 original size:2 final size:2
Alignment explanation
Indices: 63854176--63854205 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
63854166 TTCAAAAACA
63854176 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
63854206 CCCTCCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:63855024 original size:17 final size:18
Alignment explanation
Indices: 63854978--63855024 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
63854968 AGTATAATGA
*
63854978 GCCCATATGCCCGTGTGG
1 GCCCACATGCCCGTGTGG
* *
63854996 GCCTACACGCCCGTGT-G
1 GCCCACATGCCCGTGTGG
63855013 GCCCACATGCCC
1 GCCCACATGCCC
63855025 AAATTGACCT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.13, C:0.43, G:0.28, T:0.17
Consensus pattern (18 bp):
GCCCACATGCCCGTGTGG
Found at i:63856917 original size:24 final size:24
Alignment explanation
Indices: 63856871--63856917 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
63856861 ATTGGAAATA
* *
63856871 AATTTTATTTTTCAATTTTTTTAT
1 AATTTTATTTATCAATTTATTTAT
63856895 AATTTTA-TTATCAATTTGATTTA
1 AATTTTATTTATCAATTT-ATTTA
63856918 GGTACATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (24 bp):
AATTTTATTTATCAATTTATTTAT
Found at i:63857929 original size:22 final size:19
Alignment explanation
Indices: 63857883--63857943 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
63857873 TCAATAATTC
63857883 TTATTTTATATTTTTAAAA
1 TTATTTTATATTTTTAAAA
* *
63857902 TGATTTTATATGTATTTTAAAG
1 TTATTTTATA--T-TTTTAAAA
*
63857924 TTATTTT-TACTTTTTTAAA
1 TTATTTTATA-TTTTTAAAA
63857943 T
1 T
63857944 ATAAATTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 16 0.48
20 1 0.03
21 3 0.09
22 13 0.39
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTTTATATTTTTAAAA
Found at i:63858644 original size:20 final size:20
Alignment explanation
Indices: 63858587--63858654 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
63858577 TTTAAATAAA
* *
63858587 TAAATTTT-AAATTTTTAGG
1 TAAATTTTGAAAATTTTACG
* *
63858606 TAAACTTTGAAAGA-GTTACG
1 TAAATTTTGAAA-ATTTTACG
*
63858626 TAAATTTTGAAAATTTTACC
1 TAAATTTTGAAAATTTTACG
63858646 TAAACTTTT
1 TAAA-TTTT
63858655 TAGATGAGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 8 0.21
20 26 0.68
21 4 0.11
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.44
Consensus pattern (20 bp):
TAAATTTTGAAAATTTTACG
Found at i:63858732 original size:26 final size:26
Alignment explanation
Indices: 63858702--63858753 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
63858692 AATAAATAAT
*
63858702 ATTATCATCAATATAAATATTATTTA
1 ATTATCATCAAGATAAATATTATTTA
* *
63858728 ATTATCATTAAGATAAATATTGTTTA
1 ATTATCATCAAGATAAATATTATTTA
63858754 TGTCAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (26 bp):
ATTATCATCAAGATAAATATTATTTA
Found at i:63861190 original size:20 final size:19
Alignment explanation
Indices: 63861165--63861204 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
63861155 TATAAATATT
63861165 TTAATTTTAAATTTATAAAA
1 TTAA-TTTAAATTTATAAAA
**
63861185 TTAATTTATTTTTATAAAA
1 TTAATTTAAATTTATAAAA
63861204 T
1 T
63861205 GATAACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAATTTAAATTTATAAAA
Found at i:63867508 original size:10 final size:10
Alignment explanation
Indices: 63867493--63867541 Score: 70
Period size: 10 Copynumber: 5.3 Consensus size: 10
63867483 ATTTTATCAT
63867493 AAAAATATTA
1 AAAAATATTA
63867503 AAAAATATT-
1 AAAAATATTA
63867512 AAAAAT-TTA
1 AAAAATATTA
63867521 AAAAATATT-
1 AAAAATATTA
63867530 -AAAATATTA
1 AAAAATATTA
63867539 AAA
1 AAA
63867542 TTGATATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 10 0.29
9 12 0.34
10 13 0.37
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAATATTA
Found at i:63867521 original size:18 final size:19
Alignment explanation
Indices: 63867492--63867541 Score: 86
Period size: 18 Copynumber: 2.7 Consensus size: 19
63867482 TATTTTATCA
63867492 TAAAAATATTAAAAAATAT
1 TAAAAATATTAAAAAATAT
63867511 TAAAAAT-TTAAAAAATAT
1 TAAAAATATTAAAAAATAT
63867529 T-AAAATATTAAAA
1 TAAAAATATTAAAA
63867542 TTGATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.17
18 18 0.60
19 7 0.23
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAATATTAAAAAATAT
Found at i:63867596 original size:30 final size:29
Alignment explanation
Indices: 63867557--63867625 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 29
63867547 ATAAACTTAT
63867557 AATT-TAAAAAAATC-ATACAACCTTATAAAA
1 AATTATAAAAAAATCAATA-AA--TTATAAAA
*
63867587 AA-TATAAAAAGATCTAATAAATTATAAAA
1 AATTATAAAAAAATC-AATAAATTATAAAA
63867616 AATTATAAAA
1 AATTATAAAA
63867626 TTAATAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
29 11 0.32
30 18 0.53
31 2 0.06
32 3 0.09
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.28
Consensus pattern (29 bp):
AATTATAAAAAAATCAATAAATTATAAAA
Found at i:63867620 original size:10 final size:10
Alignment explanation
Indices: 63867579--63867625 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
63867569 TCATACAACC
63867579 TTATAAAAAA
1 TTATAAAAAA
63867589 -TATAAAAAGA
1 TTATAAAAA-A
* *
63867599 -TCTAATAAA
1 TTATAAAAAA
63867608 TTATAAAAAA
1 TTATAAAAAA
63867618 TTATAAAA
1 TTATAAAA
63867626 TTAATAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 9 0.29
10 22 0.71
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:63867668 original size:11 final size:10
Alignment explanation
Indices: 63867641--63867675 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
63867631 AAAACGTATT
63867641 TAAAATTTTA
1 TAAAATTTTA
63867651 TAAAATTTTA
1 TAAAATTTTA
* *
63867661 TAAAAATTCA
1 TAAAATTTTA
63867671 TAAAA
1 TAAAA
63867676 CTCATAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (10 bp):
TAAAATTTTA
Found at i:63867680 original size:9 final size:9
Alignment explanation
Indices: 63867663--63867692 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
63867653 AAATTTTATA
*
63867663 AAAATTCAT
1 AAAACTCAT
63867672 AAAACTCAT
1 AAAACTCAT
63867681 AAAACTCAT
1 AAAACTCAT
63867690 AAA
1 AAA
63867693 TAATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAACTCAT
Found at i:63879904 original size:19 final size:20
Alignment explanation
Indices: 63879847--63879925 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
63879837 TTCCTTAAAG
* *
63879847 TAAAGTATTGATACTTTTCT
1 TAAAGTATTGATACCTTTAT
* * *
63879867 CAAAGTTTTGATACTTTTAT
1 TAAAGTATTGATACCTTTAT
63879887 TAAAGTATT-ATACCTTTAT
1 TAAAGTATTGATACCTTTAT
*
63879906 TATAGTATTGATACCTTTAT
1 TAAAGTATTGATACCTTTAT
63879926 CCTAGTATCG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
19 17 0.33
20 34 0.67
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (20 bp):
TAAAGTATTGATACCTTTAT
Found at i:63879925 original size:39 final size:40
Alignment explanation
Indices: 63879847--63879925 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 40
63879837 TTCCTTAAAG
* * * *
63879847 TAAAGTATTGATACTTTTCTCAAAGTTTTGATACTTTTAT
1 TAAAGTATTGATACCTTTATCAAAGTATTGATACCTTTAT
* *
63879887 TAAAGTATT-ATACCTTTATTATAGTATTGATACCTTTAT
1 TAAAGTATTGATACCTTTATCAAAGTATTGATACCTTTAT
63879926 CCTAGTATCG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 24 0.73
40 9 0.27
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (40 bp):
TAAAGTATTGATACCTTTATCAAAGTATTGATACCTTTAT
Done.