Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 30 of 182
Found at i:9820108 original size:17 final size:16
Alignment explanation
Indices: 9820083--9820126 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
9820073 AGTTTTATCC
9820083 AAAAAATAAAATATAA
1 AAAAAATAAAATATAA
9820099 AAAAACATAAAATATAA
1 AAAAA-ATAAAATATAA
* *
9820116 ATAAAGTAAAA
1 AAAAAATAAAA
9820127 AGATAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAAAATAAAATATAA
Found at i:9824152 original size:75 final size:75
Alignment explanation
Indices: 9823895--9824172 Score: 299
Period size: 75 Copynumber: 3.7 Consensus size: 75
9823885 ATATAGAGAG
* * * * * ** *
9823895 TGTGCCGAGCACTAGTCAGACAAACTAACAGAGGTGGGGCCCAGCACTAGTCGGATATACCGACG
1 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCACCCAGCACTAGTCGGATATAACGACG
*
9823960 ATTATAATTA
66 ATTATAATAA
* * * * *
9823970 TGTGCCCAACATTAGTCAAATAAACTGATAGAAGTTGCACCCAGCACTAGTCGGATAT-ACTGAT
1 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCACCCAGCACTAGTCGGATATAAC-GAC
9824034 GATTATAATAA
65 GATTATAATAA
* * * * * * *
9824045 TGTGCCCAGCACTAG-CAAGATAAACTGGCAGAAGATGCGCCCATCGCCAGTCGGATATAACAAC
1 TGTGCCCAGCACTAGTC-AGATAAACTGACAGAAGTTGCACCCAGCACTAGTCGGATATAACGAC
*
9824109 AATTATAATAA
65 GATTATAATAA
* **
9824120 TGTGCCTAGCACTAGTCAGATAAACTGACAGAAGTTGCACCCAGTGCTAGTCG
1 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCACCCAGCACTAGTCG
9824173 AATGAATCGA
Statistics
Matches: 165, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
74 2 0.01
75 160 0.97
76 3 0.02
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (75 bp):
TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCACCCAGCACTAGTCGGATATAACGACG
ATTATAATAA
Found at i:9824236 original size:20 final size:20
Alignment explanation
Indices: 9824211--9824248 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9824201 TACAAGTCCA
* *
9824211 TAATATTACTTTTCATAACT
1 TAATATCACATTTCATAACT
9824231 TAATATCACATTTCATAA
1 TAATATCACATTTCATAA
9824249 TCCAATAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATATCACATTTCATAACT
Found at i:9830644 original size:43 final size:42
Alignment explanation
Indices: 9830581--9830722 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 42
9830571 TTATGTGGAA
* * * * *
9830581 AAACGCTGCTATAGAGCATGACCTTTAGCGGCGCTTATCCCAC
1 AAACGCCGCTAAAGAACATGACATTTAGTGGCGCTT-TCCCAC
** *
9830624 AAACGCCGCTAAAGAACATGATTTTTAATGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACATTTAGTGGCGCTTT-CCCAC
** * * *
9830667 AAACGCCTTTAAAGAACATGACAATTAGTGGTGCTTTCCCTAA
1 AAACGCCGCTAAAGAACATGACATTTAGTGGCGCTTTCCC-AC
9830710 AAACGCCGCTAAA
1 AAACGCCGCTAAA
9830723 TGTCATGTTC
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 4 0.05
43 76 0.95
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGACATTTAGTGGCGCTTTCCCAC
Found at i:9831190 original size:66 final size:65
Alignment explanation
Indices: 9831064--9831204 Score: 178
Period size: 66 Copynumber: 2.2 Consensus size: 65
9831054 TCATATTTTG
* * * * *
9831064 AAGTTGTAGTTGGAGTTCATCATATTTTTTGCTTGCCTCTGCTTCCCTCGCTGCTGCCTCCGCTT
1 AAGTTGTAGCTGGAGTTCATCATATTTTTTGC-AGCCTCTACTTCCCTCGATGCTACCTCCGCTT
9831129 T
65 T
* *
9831130 AAGTTGTAGCTGGAGTTCTTCATATTTTCCTTG-AGCCTCTACTTCTCTCGATGCTACCTCCGCT
1 AAGTTGTAGCTGGAGTTCATCATATTTT--TTGCAGCCTCTACTTCCCTCGATGCTACCTCCGCT
9831194 TT
64 TT
9831196 AAGTT-TAGC
1 AAGTTGTAGC
9831205 AATTTGCTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
65 4 0.06
66 59 0.89
68 3 0.05
ACGTcount: A:0.14, C:0.26, G:0.18, T:0.41
Consensus pattern (65 bp):
AAGTTGTAGCTGGAGTTCATCATATTTTTTGCAGCCTCTACTTCCCTCGATGCTACCTCCGCTTT
Found at i:9832152 original size:30 final size:30
Alignment explanation
Indices: 9832118--9832180 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
9832108 ACTTATTTTA
9832118 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
9832148 TTGTTAATTTTGTTATTATTTTAGAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
9832178 TTG
1 TTG
9832181 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.02, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:9832316 original size:11 final size:11
Alignment explanation
Indices: 9832300--9832330 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9832290 ATTATATATT
9832300 TAAAAATTATA
1 TAAAAATTATA
*
9832311 TAAAAATAATA
1 TAAAAATTATA
9832322 TAAAAATTA
1 TAAAAATTA
9832331 ATACGGGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:9835740 original size:17 final size:17
Alignment explanation
Indices: 9835720--9835752 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9835710 CATGACAGTA
9835720 TAATTATTG-ACTTTTTT
1 TAATTA-TGAACTTTTTT
9835737 TAATTATGAACTTTTT
1 TAATTATGAACTTTTT
9835753 AGAAATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
TAATTATGAACTTTTTT
Found at i:9837913 original size:50 final size:50
Alignment explanation
Indices: 9837838--9838030 Score: 190
Period size: 50 Copynumber: 3.7 Consensus size: 50
9837828 TTTTCTTTAC
* * *
9837838 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGA
* * ** * *
9837888 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTT-TCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CTTCTCATATCGA
* * * *
9837938 TGCCAACGCCATGTCCCAGGCATTGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC---GA
*
9837994 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
9838031 TCTCATTCCC
Statistics
Matches: 112, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 2 0.02
50 72 0.64
51 2 0.02
53 2 0.02
56 34 0.30
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGA
Found at i:9837956 original size:100 final size:103
Alignment explanation
Indices: 9837838--9838024 Score: 236
Period size: 100 Copynumber: 1.8 Consensus size: 103
9837828 TTTTCTTTAC
* * ** *
9837838 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAT-A-TC-GATGCCCATGCCAT
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAACTCAGATGCCAATGCCAT
9837900 GTCCCAAACATGGTCTTACGGGGGACCTTTCATCTCGG
66 GTCCCAAACATGGTCTTACGGGGGACCTTTCATCTCGG
* * *
9837938 TGCCAACGCCATGTCCCAGGCATTGTCTTACATGGGACCTCTCATAACCTCAATGATGCCAATGC
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAA-CTC-A-GATGCCAATGC
* *
9838003 CATGTCCCAGATATGGTCTTAC
63 CATGTCCCAAACATGGTCTTAC
9838025 ATGGGATCTC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
100 38 0.54
101 1 0.01
103 2 0.03
106 30 0.42
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (103 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAACTCAGATGCCAATGCCAT
GTCCCAAACATGGTCTTACGGGGGACCTTTCATCTCGG
Found at i:9839651 original size:43 final size:43
Alignment explanation
Indices: 9839574--9839699 Score: 152
Period size: 43 Copynumber: 2.9 Consensus size: 43
9839564 CATAGGATTT
*
9839574 TCGATATGT-ACTATCATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTA-CATGTAAGACCACGTCTGGGACGTTGGCA
* *
9839617 TCGACT-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCGA-TATGTGATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCA
*
9839660 TCTATATGTGATTACATGTAAGACCACGTCTGGGACGTTG
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTG
9839700 TCATTGTACG
Statistics
Matches: 70, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
42 3 0.04
43 62 0.89
44 5 0.07
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:9840250 original size:16 final size:15
Alignment explanation
Indices: 9840204--9840251 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
9840194 TACTATGATC
9840204 ATGGATTAGTATAT-T
1 ATGG-TTAGTATATAT
*
9840219 ATGGTTAGTATTTAT
1 ATGGTTAGTATATAT
*
9840234 ATGGTATTGTATATAT
1 ATGGT-TAGTATATAT
9840250 AT
1 AT
9840252 ATATGTGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 8 0.29
15 10 0.36
16 10 0.36
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (15 bp):
ATGGTTAGTATATAT
Found at i:9840649 original size:23 final size:23
Alignment explanation
Indices: 9840595--9840902 Score: 298
Period size: 23 Copynumber: 13.3 Consensus size: 23
9840585 CAAAAATCGA
* *
9840595 ATATATGCTGCCCAATTTTGGTGT
1 ATATATGCTGTCCAATTTT-GTAT
*
9840619 ATAAATGCTGTCCAATTTTGTAT
1 ATATATGCTGTCCAATTTTGTAT
* *
9840642 ATATATGCTG-CCAAATTGGTAT
1 ATATATGCTGTCCAATTTTGTAT
*
9840664 ATATATGCTG-CCGAATTTTAGTGT
1 ATATATGCTGTCC-AATTTT-GTAT
* *
9840688 ATAAATGCTATCCAATTTTGTAT
1 ATATATGCTGTCCAATTTTGTAT
* * *
9840711 ATACATGCTGTCAAATTTTGTGT
1 ATATATGCTGTCCAATTTTGTAT
*
9840734 ATAAATGCTGTCCAATTTTGTAT
1 ATATATGCTGTCCAATTTTGTAT
* * *
9840757 ATACATGCTGTCAAATTTTGTGT
1 ATATATGCTGTCCAATTTTGTAT
* *
9840780 ATA-AGTGCTGTCCAAATTGGTAT
1 ATATA-TGCTGTCCAATTTTGTAT
* **
9840803 ATATATGCTGCCCAATTTTAGGGT
1 ATATATGCTGTCCAATTTT-GTAT
* *
9840827 ATAAATGCTCTCCAATTTTGTAT
1 ATATATGCTGTCCAATTTTGTAT
* **
9840850 ATATATGCTGTCAAATTTTGGTGG
1 ATATATGCTGTCCAATTTT-GTAT
* *
9840874 ATAAATGCTGTCTAATTTTGTAT
1 ATATATGCTGTCCAATTTTGTAT
9840897 ATATAT
1 ATATAT
9840903 ATGCTGCATA
Statistics
Matches: 231, Mismatches: 46, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
22 23 0.10
23 134 0.58
24 72 0.31
25 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.42
Consensus pattern (23 bp):
ATATATGCTGTCCAATTTTGTAT
Found at i:9840673 original size:69 final size:69
Alignment explanation
Indices: 9840595--9840866 Score: 352
Period size: 69 Copynumber: 3.9 Consensus size: 69
9840585 CAAAAATCGA
9840595 ATATATGCTGCCCAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCTGCCAAATTG
1 ATATATGCTGCCCAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCTGCCAAATTG
9840660 GTAT
66 GTAT
* * * * *
9840664 ATATATGCTGCCGAATTTTAGTGTATAAATGCTATCCAATTTTGTATATACATGCTGTCAAATTT
1 ATATATGCTGCCCAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCTGCCAAA-TT
* *
9840729 TGTGT
65 GGTAT
* * * * * *
9840734 ATAAATGCTGTCCAATTTT-GTATATACATGCTGTCAAATTTTGTGTATA-AGTGCTGTCCAAAT
1 ATATATGCTGCCCAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATA-TGCTG-CCAAAT
9840797 TGGTAT
64 TGGTAT
* *
9840803 ATATATGCTGCCCAATTTTAGG-GTATAAATGCTCTCCAATTTTGTATATATATGCTGTCAAATT
1 ATATATGCTGCCCAATTTT-GGTGTATAAATGCTGTCCAATTTTGTATATATATGCTGCCAAATT
9840867 TTGGTGGATA
Statistics
Matches: 171, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
68 1 0.01
69 115 0.67
70 53 0.31
71 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (69 bp):
ATATATGCTGCCCAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCTGCCAAATTG
GTAT
Found at i:9840737 original size:46 final size:46
Alignment explanation
Indices: 9840599--9840937 Score: 378
Period size: 46 Copynumber: 7.2 Consensus size: 46
9840589 AATCGAATAT
* * * * * *
9840599 ATGCTGCCCAATTTTGGTGTATAAATGCTGTCCAATTTTGTATATAT
1 ATGCTGTCCAATTTT-GTATATATATGCTGTCAAATTTTGTGTATAA
* * * *
9840646 ATGCTG-CCAAATTGGTATATATATGCTGCCGAATTTTAGTGTATAA
1 ATGCTGTCCAATTTTGTATATATATGCTGTCAAATTTT-GTGTATAA
* *
9840692 ATGCTATCCAATTTTGTATATACATGCTGTCAAATTTTGTGTATAA
1 ATGCTGTCCAATTTTGTATATATATGCTGTCAAATTTTGTGTATAA
*
9840738 ATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGTGTATAA
1 ATGCTGTCCAATTTTGTATATATATGCTGTCAAATTTTGTGTATAA
* * * * * *
9840784 GTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTAGGGTATAA
1 ATGCTGTCCAATTTTGTATATATATGCTGTCAAATTTT-GTGTATAA
* *
9840831 ATGCTCTCCAATTTTGTATATATATGCTGTCAAATTTTGGTGGATAA
1 ATGCTGTCCAATTTTGTATATATATGCTGTCAAATTTT-GTGTATAA
*
9840878 ATGCTGTCTAATTTTGTATATATATATGCTG-CATAATTTTGATGTATAA
1 ATGCTGTCCAATTTTG--TATATATATGCTGTCA-AATTTTG-TGTATAA
9840927 GA-GCTGTCCAA
1 -ATGCTGTCCAA
9840938 ACAGGGTAGA
Statistics
Matches: 249, Mismatches: 35, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
45 19 0.08
46 102 0.41
47 91 0.37
48 3 0.01
49 33 0.13
50 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (46 bp):
ATGCTGTCCAATTTTGTATATATATGCTGTCAAATTTTGTGTATAA
Found at i:9847160 original size:229 final size:229
Alignment explanation
Indices: 9846754--9847210 Score: 851
Period size: 229 Copynumber: 2.0 Consensus size: 229
9846744 AAACCCATGT
*
9846754 CTTAATTTTGTGAATTGTGAATAATTTTGAAATGTGCCATTGATGAATGCTTGAGTTTCCTGACG
1 CTTAATTTTGTGAATTGTGAATAATTTTGAAATGTGCCATTGATGAATGCTTGAGTTTCATGACG
*
9846819 CTAGTAGGTGAAATATGAAATATATTTGTTAGATTAACATGTATTGTTTTGAATTTTTGATAAAA
66 CTAGTAGGTGAAATATGAAATATATTTGTTAGATTAAAATGTATTGTTTTGAATTTTTGATAAAA
*
9846884 TTGAGTAATTAGGGTTAAATTGTGATAATAAATTTTTCAATGGACTAAAATGCTAAATAAATAAA
131 TTGAGTAATTAGGGTTAAATTGTGATAATAAATTTTTCAAGGGACTAAAATGCTAAATAAATAAA
9846949 AATATGGAATTATATGGACACTAGGAATATTCGG
196 AATATGGAATTATATGGACACTAGGAATATTCGG
* * *
9846983 CTTAATTTTGTGAATTGTGAATAATTTTGAAATGTGCCATTGATGAATGCTTGAGTTTTATTATG
1 CTTAATTTTGTGAATTGTGAATAATTTTGAAATGTGCCATTGATGAATGCTTGAGTTTCATGACG
*
9847048 CTAGTAGGTGAAATATGAAATATATTTGTTAGATTAAAATGTATTGTTTTGAATTTTTGATGAAA
66 CTAGTAGGTGAAATATGAAATATATTTGTTAGATTAAAATGTATTGTTTTGAATTTTTGATAAAA
9847113 TTGAGTAATTAGGGTTAAATTGTGATAATAAATTTTTCAAGGGACTAAAATGCTAAATAAATAAA
131 TTGAGTAATTAGGGTTAAATTGTGATAATAAATTTTTCAAGGGACTAAAATGCTAAATAAATAAA
9847178 AATATGGAATTATATGGACACTAGGAATATTCG
196 AATATGGAATTATATGGACACTAGGAATATTCG
9847211 ACCATTAGGA
Statistics
Matches: 221, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
229 221 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.39
Consensus pattern (229 bp):
CTTAATTTTGTGAATTGTGAATAATTTTGAAATGTGCCATTGATGAATGCTTGAGTTTCATGACG
CTAGTAGGTGAAATATGAAATATATTTGTTAGATTAAAATGTATTGTTTTGAATTTTTGATAAAA
TTGAGTAATTAGGGTTAAATTGTGATAATAAATTTTTCAAGGGACTAAAATGCTAAATAAATAAA
AATATGGAATTATATGGACACTAGGAATATTCGG
Found at i:9847754 original size:43 final size:43
Alignment explanation
Indices: 9847679--9847804 Score: 152
Period size: 43 Copynumber: 2.9 Consensus size: 43
9847669 CATAGGATTT
*
9847679 TCGATATGT-ACTATCGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCA
*
9847722 TCGACT-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCGA-TATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* *
9847765 TCTATATGTGATTACATGTAAGACCACGTCTGGGACGTTG
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTG
9847805 TCATTGTACG
Statistics
Matches: 71, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
42 3 0.04
43 63 0.89
44 5 0.07
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:9848074 original size:46 final size:46
Alignment explanation
Indices: 9848020--9848259 Score: 302
Period size: 46 Copynumber: 5.1 Consensus size: 46
9848010 TGTCGATAAN
*
9848020 TCCAATTTTGTATATACATGCTGTCAAATTTTGTGTATAAGTGCTG
1 TCCAATTTTGTATATATATGCTGTCAAATTTTGTGTATAAGTGCTG
* *
9848066 TCCAATTTTGTATATACATGCTGTCAAATTTTGTGTATAAGTGTTG
1 TCCAATTTTGTATATATATGCTGTCAAATTTTGTGTATAAGTGCTG
* * * * * * * *
9848112 TCCAAATTGGTATATATATGCTGCCCAGTTTTAGAGTATAAATGCTC
1 TCCAATTTTGTATATATATGCTGTCAAATTTT-GTGTATAAGTGCTG
*
9848159 TCCAATTTTGTATATATATGCTGTCAAATTTTGGTGTATAAATGCTG
1 TCCAATTTTGTATATATATGCTGTCAAATTTT-GTGTATAAGTGCTG
*
9848206 TCCAATTTTGTATATATATATGCTGCTC-AATTTTGATGTATAAGAGCTG
1 TCCAATTTTG--TATATATATGCTG-TCAAATTTTG-TGTATAAGTGCTG
9848255 TCCAA
1 TCCAA
9848260 ACAGGGTAGA
Statistics
Matches: 168, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
46 71 0.42
47 59 0.35
48 1 0.01
49 35 0.21
50 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (46 bp):
TCCAATTTTGTATATATATGCTGTCAAATTTTGTGTATAAGTGCTG
Found at i:9848151 original size:24 final size:24
Alignment explanation
Indices: 9848020--9848240 Score: 169
Period size: 23 Copynumber: 9.4 Consensus size: 24
9848010 TGTCGATAAN
*
9848020 TCCAATTTTGTATATACATGCTG-
1 TCCAATTTTGTATATATATGCTGC
* *
9848043 TCAAATTTTGTGTATA-AGTGCTG-
1 TCCAATTTTGTATATATA-TGCTGC
*
9848066 TCCAATTTTGTATATACATGCTG-
1 TCCAATTTTGTATATATATGCTGC
* * *
9848089 TCAAATTTTGTGTATA-AGTGTTG-
1 TCCAATTTTGTATATATA-TGCTGC
* *
9848112 TCCAAATTGGTATATATATGCTGC
1 TCCAATTTTGTATATATATGCTGC
* *
9848136 -CCAGTTTTAG-AGTATAAATGCT-C
1 TCCAATTTT-GTA-TATATATGCTGC
9848159 TCCAATTTTGTATATATATGCTG-
1 TCCAATTTTGTATATATATGCTGC
* * *
9848182 TCAAATTTTGGTGTATAAATGCTG-
1 TCCAATTTT-GTATATATATGCTGC
9848206 TCCAATTTTGTATATATATATGCTGC
1 TCCAATTTTG--TATATATATGCTGC
9848232 T-CAATTTTG
1 TCCAATTTTG
9848241 ATGTATAAGA
Statistics
Matches: 160, Mismatches: 24, Indels: 26
0.76 0.11 0.12
Matches are distributed among these distances:
22 2 0.01
23 98 0.61
24 40 0.25
25 19 0.12
26 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.43
Consensus pattern (24 bp):
TCCAATTTTGTATATATATGCTGC
Found at i:9848180 original size:93 final size:94
Alignment explanation
Indices: 9848054--9848224 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 94
9848044 CAAATTTTGT
* * * *
9848054 GTATAAGTGCTGTCCAATTTTGTATATACATGCTGTCAAATTTT-GTGTATAAGTGTTGTCCAAA
1 GTATAAATGCTCTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAA
9848118 TTGGTATATATATGCTGCCCAGTTTTAGA
66 TTGGTATATATATGCTGCCCAGTTTTAGA
* *
9848147 GTATAAATGCTCTCCAATTTTGTATATATATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAT
1 GTATAAATGCTCTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAA
*
9848212 TTTGTATATATAT
66 TTGGTATATATAT
9848225 ATGCTGCTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 41 0.59
94 29 0.41
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (94 bp):
GTATAAATGCTCTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTATAAATGCTGTCCAAA
TTGGTATATATATGCTGCCCAGTTTTAGA
Found at i:9859963 original size:10 final size:10
Alignment explanation
Indices: 9859948--9859978 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9859938 TACCTAATCT
9859948 TTTGCTTTGG
1 TTTGCTTTGG
9859958 TTTGCTTTGG
1 TTTGCTTTGG
*
9859968 TTTGATTTGG
1 TTTGCTTTGG
9859978 T
1 T
9859979 ATTTGAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.03, C:0.06, G:0.29, T:0.61
Consensus pattern (10 bp):
TTTGCTTTGG
Found at i:9877947 original size:42 final size:42
Alignment explanation
Indices: 9877888--9878024 Score: 211
Period size: 42 Copynumber: 3.3 Consensus size: 42
9877878 AGTCTAAAAC
* * *
9877888 TCACACGGCCAAGGACACACCCGTGTGTCTAGGCCGTATGGG
1 TCACATGGCCAAGGACACACCCGTGTGTCTAGGCTGTGTGGG
*
9877930 TCACATGGCCAAGGACACACCAGTGTGTCTAGGCTGTGTGGG
1 TCACATGGCCAAGGACACACCCGTGTGTCTAGGCTGTGTGGG
* *
9877972 TCACATTGCCAAGGACACATCCGTGTGTCTAGGCTGTGTGGG
1 TCACATGGCCAAGGACACACCCGTGTGTCTAGGCTGTGTGGG
*
9878014 TCACATTGCCA
1 TCACATGGCCA
9878025 TGTCGCCAGG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.21, C:0.27, G:0.30, T:0.22
Consensus pattern (42 bp):
TCACATGGCCAAGGACACACCCGTGTGTCTAGGCTGTGTGGG
Found at i:9886451 original size:26 final size:26
Alignment explanation
Indices: 9886422--9886483 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
9886412 TACCTACAGT
9886422 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* *
9886448 AGTTTCAGAATATCATAGCATCTATC
1 AGTTTCAGAATATCATAACATATATC
9886474 AGTTTCAGAA
1 AGTTTCAGAA
9886484 CACTTACAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:9887240 original size:34 final size:34
Alignment explanation
Indices: 9887187--9887254 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
9887177 GCACAGTTGA
* *
9887187 ACAGTCTTGGGCCAAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCAAAGCCCATCTCAGTA-CAGTG
**
9887222 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCAAAGCCCATCTCAGTACAGTG
9887255 TCAAAAATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (34 bp):
ACAGTCTTGGGCCAAAGCCCATCTCAGTACAGTG
Found at i:9891152 original size:12 final size:12
Alignment explanation
Indices: 9891114--9891180 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
9891104 CTGCCAGTAG
9891114 AAAA-TAAAATA
1 AAAATTAAAATA
*
9891125 AAGATTAGAATATA
1 AAAATTA-AA-ATA
*
9891139 AAAATTAAACTA
1 AAAATTAAAATA
* **
9891151 AAGACAAAAATA
1 AAAATTAAAATA
*
9891163 AAAAATAAAATA
1 AAAATTAAAATA
9891175 AAAATT
1 AAAATT
9891181 GGATAAATTA
Statistics
Matches: 42, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
11 3 0.07
12 26 0.62
13 4 0.10
14 9 0.21
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (12 bp):
AAAATTAAAATA
Found at i:9896110 original size:10 final size:10
Alignment explanation
Indices: 9896092--9896123 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
9896082 AGCATGAGCC
9896092 ATCATTATAT
1 ATCATTATAT
*
9896102 ATTATTATAT
1 ATCATTATAT
9896112 ATCATTATAT
1 ATCATTATAT
9896122 AT
1 AT
9896124 AATTTTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (10 bp):
ATCATTATAT
Found at i:9897613 original size:45 final size:45
Alignment explanation
Indices: 9897562--9897657 Score: 158
Period size: 45 Copynumber: 2.1 Consensus size: 45
9897552 TATAAATGGA
9897562 ACATTAGCCGATTGTTTATATAATGGAAAATTAGCTCA-AAATTTC
1 ACATTAGCCGATTGTTTATATAATGGAAAATTAGCT-AGAAATTTC
* *
9897607 ACATTAGCCTATTGTTTATATAATGGAACATTAGCTAGAAATTTC
1 ACATTAGCCGATTGTTTATATAATGGAAAATTAGCTAGAAATTTC
9897652 ACATTA
1 ACATTA
9897658 TTGCCTTGCT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (45 bp):
ACATTAGCCGATTGTTTATATAATGGAAAATTAGCTAGAAATTTC
Found at i:9899890 original size:9 final size:9
Alignment explanation
Indices: 9899876--9899913 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
9899866 TTACAAAAGG
*
9899876 GACGATGAA
1 GACGATGAC
9899885 GACGATGAC
1 GACGATGAC
9899894 GACGATGAC
1 GACGATGAC
*
9899903 GACGACGAC
1 GACGATGAC
9899912 GA
1 GA
9899914 TGAGGATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.37, C:0.21, G:0.34, T:0.08
Consensus pattern (9 bp):
GACGATGAC
Found at i:9900131 original size:16 final size:16
Alignment explanation
Indices: 9900110--9900143 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
9900100 GGTGACAGAA
9900110 TAAAATTAAGTATGTT
1 TAAAATTAAGTATGTT
9900126 TAAAATTAAGTATGTT
1 TAAAATTAAGTATGTT
9900142 TA
1 TA
9900144 TTGCTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
TAAAATTAAGTATGTT
Found at i:9900611 original size:22 final size:24
Alignment explanation
Indices: 9900586--9900639 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
9900576 AATTTGATAC
*
9900586 AATTTTAATAAC-AAT-TAGTTTT
1 AATTTTAATAACAAATATAATTTT
*
9900608 AATTTT-ATTACAAATATAATTTT
1 AATTTTAATAACAAATATAATTTT
9900631 AATTTTAAT
1 AATTTTAAT
9900640 TAAAATTGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.15
22 9 0.33
23 12 0.44
24 2 0.07
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
AATTTTAATAACAAATATAATTTT
Found at i:9901891 original size:34 final size:35
Alignment explanation
Indices: 9901848--9901915 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
9901838 TGTTACTGCT
** *
9901848 ACTGATACTGTGATGGGCTAAGGCCCAA-ACTGTC
1 ACTGATACTGAAAAGGGCTAAGGCCCAAGACTGTC
*
9901882 ACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 ACTGATACTGAAAAGGGCTAAGGCCCAAGACTGT
9901916 TCAACTGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 24 0.83
35 5 0.17
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.22
Consensus pattern (35 bp):
ACTGATACTGAAAAGGGCTAAGGCCCAAGACTGTC
Found at i:9912414 original size:44 final size:43
Alignment explanation
Indices: 9912276--9912637 Score: 164
Period size: 43 Copynumber: 8.5 Consensus size: 43
9912266 ATCTACTCTG
* *
9912276 CTGTAACCTCAGAGAGATAAGAT-C---CTTTAATCCGCTCCA
1 CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
* * ** * *
9912315 CTGTAACTTCGGGGAGATAAGATAGTGTCTTCGATCTGCTCCG
1 CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
* *
9912358 CTGTAA-TCTCAGGGAGATAAGAT-CTCTTATTTTAATCCGCTCCA
1 CTGTAACT-TCAGGGAGATAAGATACT-GT-CTTTAATCCGCTCCA
* ** ** * *
9912402 CTGTAACTTCAGGGAGATAGGATGGTGTCTTCGATCTGCTCCG
1 CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
** * *
9912445 CTGTAA-TCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCA
1 CTGTAACT-TCAGGGAGATAAGATACTG----TCTTTAATCCGCTCCA
* * * * ** *
9912491 CTGTAA-TCTCAGGGAGATAAGA-CCTG-ATGTGATCTTCTCTA
1 CTGTAACT-TCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
*
9912532 CTGTAACTTCAGAGAGATAAGAT-C---CTTTAATCCGCTCCA
1 CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
* * * * * * * *
9912571 TTGTAA-TCTCAAGGAGATAGGATTACTATCCTTGATCTGCTCCG
1 CTGTAACT-TCAGGGAGATAAGA-TACTGTCTTTAATCCGCTCCA
9912615 CTGTAA-TCTCAGGGAGATAAGAT
1 CTGTAACT-TCAGGGAGATAAGAT
9912638 CTGAAATTCT
Statistics
Matches: 246, Mismatches: 54, Indels: 42
0.72 0.16 0.12
Matches are distributed among these distances:
38 1 0.00
39 45 0.18
40 1 0.00
41 30 0.12
42 6 0.02
43 63 0.26
44 61 0.25
45 2 0.01
46 37 0.15
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (43 bp):
CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
Found at i:9912417 original size:87 final size:83
Alignment explanation
Indices: 9912264--9912639 Score: 338
Period size: 87 Copynumber: 4.4 Consensus size: 83
9912254 AGACTTGATG
* * * * *
9912264 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTAATCCGCTCCACTGTAA-CTTCGG
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTTAATCCGCTCCACTGTAATC-TCAG
*
9912327 GGAGATAAGATAGTGTCTT
65 GGAGATAAGATACTGTCTT
9912346 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAA-CT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTC----TTTAATCCGCTCCACTGTAATC-
* **
9912410 TCAGGGAGATAGGATGGTGTCTT
61 TCAGGGAGATAAGATACTGTCTT
** * *
9912433 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAAT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC------TCTTTAATCCGCTCCACTGTAAT
* *
9912498 CTCAGGGAGATAAGA-CCTGAT-GT
60 CTCAGGGAGATAAGATACTG-TCTT
* ** * * *
9912521 -GATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-CTTTAATCCGCTCCATTGTAATCTCAA
1 CGATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCTCTTTAATCCGCTCCACTGTAATCTCAG
* *
9912583 GGAGATAGGATTACTATCCTT
65 GGAGATAAGA-TACTGT-CTT
9912604 -GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
9912640 GAAATTCTTT
Statistics
Matches: 241, Mismatches: 33, Indels: 38
0.77 0.11 0.12
Matches are distributed among these distances:
80 30 0.12
81 1 0.00
82 34 0.14
83 31 0.13
84 1 0.00
86 1 0.00
87 107 0.44
88 3 0.01
89 30 0.12
90 1 0.00
93 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (83 bp):
CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTTAATCCGCTCCACTGTAATCTCAGG
GAGATAAGATACTGTCTT
Found at i:9912501 original size:46 final size:45
Alignment explanation
Indices: 9912300--9912682 Score: 245
Period size: 46 Copynumber: 8.8 Consensus size: 45
9912290 AGATAAGATC
* * * *
9912300 CTTTAATCCGCTCCACTGTAA-CTTCGGGGAGATAAGA--T-AGTGT
1 CTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT-T
* * *
9912343 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CTT
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATT
* * * * *
9912386 ATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA--TG-GTGT
1 -CTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT-T
* *
9912430 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATT
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATT
* * *
9912476 CTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A--
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATT
* * * *
9912518 -TGTGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC------
1 CTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAATT
* * * * * *
9912556 CTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACTAT
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-T
* *
9912600 CCTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATT
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATT
* *
9912646 CTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
9912683 CCTGTATAAT
Statistics
Matches: 263, Mismatches: 53, Indels: 45
0.73 0.15 0.12
Matches are distributed among these distances:
39 26 0.10
40 2 0.01
41 29 0.11
42 1 0.00
43 62 0.24
44 65 0.25
45 4 0.02
46 71 0.27
47 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (45 bp):
CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATT
Found at i:9921494 original size:51 final size:50
Alignment explanation
Indices: 9921431--9921532 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 50
9921421 CTAGTTTAGC
9921431 TATCCGGACCTTCAACTCCGTCTTCTCATCTTGGCAAACTAGTAGACTCT
1 TATCCGGACCTTCAACTCCGTCTTCTCATCTTGGCAAACTAGTAGACTCT
9921481 NTATCCGGACCTTCAACTCCGTCTTCTCATCTTGGCAAACTAGTAGACTCT
1 -TATCCGGACCTTCAACTCCGTCTTCTCATCTTGGCAAACTAGTAGACTCT
9921532 T
1 T
9921533 TCCCAAGGCG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 1 0.02
51 50 0.98
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.32
Consensus pattern (50 bp):
TATCCGGACCTTCAACTCCGTCTTCTCATCTTGGCAAACTAGTAGACTCT
Found at i:9934335 original size:50 final size:50
Alignment explanation
Indices: 9934255--9934356 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
9934245 ATCGACTAAA
*
9934255 TGGGTAATTAGTGAGGATGGTTGCCTAATATACAGACATACATATGCATG
1 TGGGTAATTAGTGAGGATGGTTGCCGAATATACAGACATACATATGCATG
9934305 TGGGTAATTAGTGAGGATGGTTGCCGAATATACAGACATACATATGCATG
1 TGGGTAATTAGTGAGGATGGTTGCCGAATATACAGACATACATATGCATG
9934355 TG
1 TG
9934357 TAATTGAATT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (50 bp):
TGGGTAATTAGTGAGGATGGTTGCCGAATATACAGACATACATATGCATG
Found at i:9934785 original size:27 final size:28
Alignment explanation
Indices: 9934701--9934798 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
9934691 CATGAGATTG
* * * *
9934701 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
9934730 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
9934758 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
9934785 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
9934799 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:9934809 original size:27 final size:27
Alignment explanation
Indices: 9934729--9934811 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
9934719 TAAATTGTAC
* *
9934729 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
9934757 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
9934784 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
9934811 A
1 A
9934812 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:9950192 original size:40 final size:39
Alignment explanation
Indices: 9950148--9950252 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
9950138 AGTGACCATA
*
9950148 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
9950188 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
9950226 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
9950253 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:9950209 original size:39 final size:40
Alignment explanation
Indices: 9950108--9950271 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
9950098 TTGAATGATG
* *
9950108 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
9950148 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
9950187 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
9950227 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
9950267 TCCGG
1 TCCGG
9950272 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:9950271 original size:79 final size:80
Alignment explanation
Indices: 9950108--9950258 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
9950098 TTGAATGATG
*
9950108 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
9950173 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
9950188 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
9950250 TTGAACGAG
64 TTGAACGAG
9950259 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:9953193 original size:41 final size:41
Alignment explanation
Indices: 9953132--9953224 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 41
9953122 GAGATATTCT
* * *
9953132 AGGAA-TATTTTTTTTTTCTTTTAGTAGTTTATTAGAATAA
1 AGGAATTATTTTTCTTATCTTTTAGTAGTTTAATAGAATAA
*
9953172 AGGAATTATTTTTCTTATCTTTTAGTAGTTTAATATAATAA
1 AGGAATTATTTTTCTTATCTTTTAGTAGTTTAATAGAATAA
*
9953213 GGGAATTATTTT
1 AGGAATTATTTT
9953225 CCCAATTAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 5 0.11
41 42 0.89
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.53
Consensus pattern (41 bp):
AGGAATTATTTTTCTTATCTTTTAGTAGTTTAATAGAATAA
Found at i:9961039 original size:19 final size:18
Alignment explanation
Indices: 9961017--9961056 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
9961007 TGAATAAAAC
9961017 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
9961036 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
9961054 TTA
1 TTA
9961057 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:9965758 original size:29 final size:29
Alignment explanation
Indices: 9965716--9965775 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
9965706 CTATAGGTAG
*
9965716 TAATATTTTAAATGGGAAATTTATTTGGT
1 TAATATTTTAAATGGGAAACTTATTTGGT
*
9965745 TAATATTTTAAATGGGCAACTTATTTGGT
1 TAATATTTTAAATGGGAAACTTATTTGGT
9965774 TA
1 TA
9965776 CATTGAGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (29 bp):
TAATATTTTAAATGGGAAACTTATTTGGT
Found at i:9967637 original size:29 final size:30
Alignment explanation
Indices: 9967580--9967642 Score: 74
Period size: 32 Copynumber: 2.1 Consensus size: 30
9967570 CCAAGTGAAC
* * *
9967580 TCTTCAAGTATATTAGAATTTGAAACACTGCT
1 TCTTCAAGTATATTAAAATCT--AACACTACT
9967612 TCTTCAAGTATATTAAAATCT-ACACTACT
1 TCTTCAAGTATATTAAAATCTAACACTACT
9967641 TC
1 TC
9967643 ATTTTCCTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 9 0.32
32 19 0.68
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (30 bp):
TCTTCAAGTATATTAAAATCTAACACTACT
Found at i:9970300 original size:42 final size:42
Alignment explanation
Indices: 9970240--9970323 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
9970230 AATCCTAATT
*
9970240 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCCTTATTCTAAGAAACTACTAAAAGATAA
* * *
9970282 GGGAAAATTATTCTCTTATTCTAAGAAAGTACTAAAAGATAA
1 GGGAAAATAATTCCCTTATTCTAAGAAACTACTAAAAGATAA
9970324 AATAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (42 bp):
GGGAAAATAATTCCCTTATTCTAAGAAACTACTAAAAGATAA
Found at i:9970331 original size:42 final size:42
Alignment explanation
Indices: 9970242--9970336 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
9970232 TCCTAATTGG
* * **
9970242 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGG
1 GAAAATTATTCCCTTATTCTAAGAAACTACTAAAAGATAAAA
* *
9970284 GAAAATTATTCTCTTATTCTAAGAAAGTACTAAAAGATAAAA
1 GAAAATTATTCCCTTATTCTAAGAAACTACTAAAAGATAAAA
*
9970326 TAAAA-TATTCC
1 GAAAATTATTCC
9970337 TAGAATATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 5 0.11
42 40 0.89
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (42 bp):
GAAAATTATTCCCTTATTCTAAGAAACTACTAAAAGATAAAA
Found at i:9970376 original size:19 final size:18
Alignment explanation
Indices: 9970354--9970393 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
9970344 TGAATAAAAC
9970354 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
9970373 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
9970391 TTA
1 TTA
9970394 AAATATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:9973085 original size:17 final size:16
Alignment explanation
Indices: 9973059--9973093 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
9973049 TGTATCAAGC
9973059 CACTATCTTCAAGTGT
1 CACTATCTTCAAGTGT
9973075 CACTGATCTTCAAGTGT
1 CACT-ATCTTCAAGTGT
9973092 CA
1 CA
9973094 ATTTGGTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (16 bp):
CACTATCTTCAAGTGT
Found at i:9980724 original size:19 final size:18
Alignment explanation
Indices: 9980697--9980743 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
9980687 AAATAAGAGT
* *
9980697 TCATTTCTCACTTTTTCAA
1 TCATCTCTCACTTATTC-A
9980716 TCATCTCTCACTTATTCA
1 TCATCTCTCACTTATTCA
9980734 TCATTCTCTC
1 TCA-TCTCTC
9980744 CTCTCTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.19, C:0.32, G:0.00, T:0.49
Consensus pattern (18 bp):
TCATCTCTCACTTATTCA
Found at i:9983059 original size:27 final size:27
Alignment explanation
Indices: 9983020--9983117 Score: 126
Period size: 27 Copynumber: 3.6 Consensus size: 27
9983010 GAGATTTTAC
* *
9983020 CCTTACAAGGGTATTACGGTAATCCTA
1 CCTTACAAGGGTATTTCGGTAATTCTA
*
9983047 CCTTAC-AGAGGTATTTCAGTAATTCTA
1 CCTTACAAG-GGTATTTCGGTAATTCTA
*
9983074 CCTTACAAGGGTATTTCGGTGATTCTA
1 CCTTACAAGGGTATTTCGGTAATTCTA
* *
9983101 CCCTACAGGGGTATTTC
1 CCTTACAAGGGTATTTC
9983118 ACAAATTAGG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.03
27 58 0.94
28 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
CCTTACAAGGGTATTTCGGTAATTCTA
Found at i:9983143 original size:27 final size:27
Alignment explanation
Indices: 9983113--9983443 Score: 235
Period size: 27 Copynumber: 12.2 Consensus size: 27
9983103 CTACAGGGGT
* *
9983113 ATTTCACAAATTAGGGGTATTTCAGTA
1 ATTTTACAAATTAGGGGTATTTCGGTA
* * *
9983140 ATTTTACAAATCAAGGGTATTTTGGTA
1 ATTTTACAAATTAGGGGTATTTCGGTA
* * *
9983167 ATTTAACAAA-TCGAGGGTATTTTGGTA
1 ATTTTACAAATTAG-GGGTATTTCGGTA
* * *
9983194 ATTTTATAAATTAGGGTTATTTCAGTA
1 ATTTTACAAATTAGGGGTATTTCGGTA
* *
9983221 ATTTTACAAATCGAGGGGTATTTCGATA
1 ATTTTACAAAT-TAGGGGTATTTCGGTA
*
9983249 ATTTTGCAAATTAGGGGTACTTT-GGTA
1 ATTTTACAAATTAGGGGTA-TTTCGGTA
* ** **
9983276 ATTTCACAAA-CCGAGGGTATTTCAATA
1 ATTTTACAAATTAG-GGGTATTTCGGTA
* *
9983303 ATTTTGCAAATT-GGGTGTATTTTGGTA
1 ATTTTACAAATTAGGG-GTATTTCGGTA
** * * *
9983330 ATTTCCCAAATT-GAAGCTATTTCGATA
1 ATTTTACAAATTAG-GGGTATTTCGGTA
*
9983357 ATTTTGCAAATTAGGGGTACTTT-GGTA
1 ATTTTACAAATTAGGGGTA-TTTCGGTA
* * * *
9983384 ATTTCACAAACT-GAGGGCATTTTGGTA
1 ATTTTACAAATTAG-GGGTATTTCGGTA
* *
9983411 ATTTTGCAAATTAGGGGTACTTCGGTA
1 ATTTTACAAATTAGGGGTATTTCGGTA
*
9983438 AGTTTA
1 ATTTTA
9983444 AAAGTTGAAG
Statistics
Matches: 232, Mismatches: 58, Indels: 28
0.73 0.18 0.09
Matches are distributed among these distances:
26 10 0.04
27 189 0.81
28 33 0.14
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
ATTTTACAAATTAGGGGTATTTCGGTA
Found at i:9983215 original size:54 final size:54
Alignment explanation
Indices: 9983113--9983470 Score: 352
Period size: 54 Copynumber: 6.6 Consensus size: 54
9983103 CTACAGGGGT
* * * * *
9983113 ATTTCACAAAT-TAGGGGTATTTC-AGTAATTTTACAAATCAAGGGTATTTTGGTA
1 ATTTCACAAATCGA-GGGTATTTCGA-TAATTTTGCAAATTAGGGGTACTTTGGTA
* * * ** * *
9983167 ATTTAACAAATCGAGGGTATTTTGGTAATTTTATAAATTAGGGTTA-TTTCAGTA
1 ATTTCACAAATCGAGGGTATTTCGATAATTTTGCAAATTAGGGGTACTTT-GGTA
*
9983221 ATTTTACAAATCGAGGGGTATTTCGATAATTTTGCAAATTAGGGGTACTTTGGTA
1 ATTTCACAAATCGA-GGGTATTTCGATAATTTTGCAAATTAGGGGTACTTTGGTA
* * *
9983276 ATTTCACAAACCGAGGGTATTTCAATAATTTTGCAAATT-GGGTGTATTTTGGTA
1 ATTTCACAAATCGAGGGTATTTCGATAATTTTGCAAATTAGGG-GTACTTTGGTA
* * * *
9983330 ATTTCCCAAATTGAAGCTATTTCGATAATTTTGCAAATTAGGGGTACTTTGGTA
1 ATTTCACAAATCGAGGGTATTTCGATAATTTTGCAAATTAGGGGTACTTTGGTA
* * * *
9983384 ATTTCACAAA-CTGAGGGCATTTTGGTAATTTTGCAAATTAGGGGTACTTCGGTA
1 ATTTCACAAATC-GAGGGTATTTCGATAATTTTGCAAATTAGGGGTACTTTGGTA
* * *
9983438 AGTTT-A-AAAGTTGAAGGTATTTCAATAATTTTG
1 A-TTTCACAAA-TCGAGGGTATTTCGATAATTTTG
9983471 TAAACCAAGG
Statistics
Matches: 252, Mismatches: 41, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
53 9 0.04
54 191 0.76
55 49 0.19
56 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
ATTTCACAAATCGAGGGTATTTCGATAATTTTGCAAATTAGGGGTACTTTGGTA
Found at i:9983391 original size:108 final size:107
Alignment explanation
Indices: 9983128--9983470 Score: 397
Period size: 108 Copynumber: 3.2 Consensus size: 107
9983118 ACAAATTAGG
* * * * * *
9983128 GGTATTTC-AGTAATTTTACAAATCAAGGGTATTTTGGTAATTTAACAAATCGAGGGTATTTTGG
1 GGTATTTCGA-TAATTTTGCAAATTAGGGGTACTTTGGTAATTTCACAAACCGAGGGTATTTTGG
** * * *
9983192 TAATTTTATAAATTAGGGT-TATTTCAGTAATTTTACAAATCGAGG
65 TAATTTTGCAAATTAGGGTGTATTTCGGTAA-TTT-CAAATTGA-A
***
9983237 GGTATTTCGATAATTTTGCAAATTAGGGGTACTTTGGTAATTTCACAAACCGAGGGTATTTCAAT
1 GGTATTTCGATAATTTTGCAAATTAGGGGTACTTTGGTAATTTCACAAACCGAGGGTATTTTGGT
*
9983302 AATTTTGCAAATT-GGGTGTATTTTGGTAATTTCCCAAATTGAA
66 AATTTTGCAAATTAGGGTGTATTTCGGTAATTT--CAAATTGAA
* * *
9983345 GCTATTTCGATAATTTTGCAAATTAGGGGTACTTTGGTAATTTCACAAACTGAGGGCATTTTGGT
1 GGTATTTCGATAATTTTGCAAATTAGGGGTACTTTGGTAATTTCACAAACCGAGGGTATTTTGGT
* *
9983410 AATTTTGCAAATTAGGG-GTACTTCGGTAAGTTTAAAAGTTGAA
66 AATTTTGCAAATTAGGGTGTATTTCGGTAA-TTTCAAA-TTGAA
*
9983453 GGTATTTCAATAATTTTG
1 GGTATTTCGATAATTTTG
9983471 TAAACCAAGG
Statistics
Matches: 201, Mismatches: 27, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
107 3 0.01
108 110 0.55
109 87 0.43
110 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (107 bp):
GGTATTTCGATAATTTTGCAAATTAGGGGTACTTTGGTAATTTCACAAACCGAGGGTATTTTGGT
AATTTTGCAAATTAGGGTGTATTTCGGTAATTTCAAATTGAA
Found at i:9983480 original size:26 final size:26
Alignment explanation
Indices: 9983451--9983511 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
9983441 TTAAAAGTTG
9983451 AAGGTATTTCAATAATTTTGTAAACC
1 AAGGTATTTCAATAATTTTGTAAACC
* *
9983477 AAGGGTATTTTAGTAATTTTGTAAACC
1 AA-GGTATTTCAATAATTTTGTAAACC
*
9983504 AAAGTATT
1 AAGGTATT
9983512 CTAAACAGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (26 bp):
AAGGTATTTCAATAATTTTGTAAACC
Found at i:9983483 original size:27 final size:27
Alignment explanation
Indices: 9983453--9983505 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
9983443 AAAAGTTGAA
9983453 GGTATTTCAATAATTTTGTAAACCAAG
1 GGTATTTCAATAATTTTGTAAACCAAG
* *
9983480 GGTATTTTAGTAATTTTGTAAACCAA
1 GGTATTTCAATAATTTTGTAAACCAA
9983506 AGTATTCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (27 bp):
GGTATTTCAATAATTTTGTAAACCAAG
Found at i:9986723 original size:27 final size:27
Alignment explanation
Indices: 9986685--9986742 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
9986675 AGAGCATACG
*
9986685 TGGGTCAAAGCCCACT-ACAACATCAGT
1 TGGGTCAAAGCCCA-TAACAACAGCAGT
* *
9986712 TGGGTCACAGCCCATAACAACAGCATT
1 TGGGTCAAAGCCCATAACAACAGCAGT
9986739 TGGG
1 TGGG
9986743 CCTAGCCCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (27 bp):
TGGGTCAAAGCCCATAACAACAGCAGT
Found at i:9987030 original size:32 final size:31
Alignment explanation
Indices: 9986981--9987058 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 31
9986971 ATATATTTGA
*
9986981 CACAAAGCCTTCAGTAACAATATAAT-AATTGG
1 CACAAAGCCATCAGTAAC--TATAATAAATTGG
9987013 CACAAAGCCAT-AGGTAACTATAATACAATTGG
1 CACAAAGCCATCA-GTAACTATAATA-AATTGG
* *
9987045 CACATAGACATCAG
1 CACAAAGCCATCAG
9987059 CGACGGTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
30 6 0.15
31 1 0.03
32 31 0.79
33 1 0.03
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.22
Consensus pattern (31 bp):
CACAAAGCCATCAGTAACTATAATAAATTGG
Found at i:9987269 original size:27 final size:27
Alignment explanation
Indices: 9987239--9987559 Score: 272
Period size: 27 Copynumber: 11.9 Consensus size: 27
9987229 ATAAAGCCAT
* *
9987239 AAATCGGGGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTGC
9987266 AAATCGAGGGTATTTTGGTAATTTTGC
1 AAATCGAGGGTATTTTGGTAATTTTGC
* *
9987293 AAAT-TAGGAGTACTTTGGTAATTTTGC
1 AAATCGAGG-GTATTTTGGTAATTTTGC
9987320 AAA-CTGAGGGTATTTTGGTAATTTTGC
1 AAATC-GAGGGTATTTTGGTAATTTTGC
* * *
9987347 AAAT-TAGAGGTATCTCGGTAATTTTGC
1 AAATCGAG-GGTATTTTGGTAATTTTGC
* * *
9987374 AAATCGGGGGTATTTTTGTAATTTTCC
1 AAATCGAGGGTATTTTGGTAATTTTGC
* *
9987401 AAAGT-AAGGGTATTTTGGTAATTTTAC
1 AAA-TCGAGGGTATTTTGGTAATTTTGC
* ** *
9987428 AAATCAAGGGTACATTAGTAATTTTGC
1 AAATCGAGGGTATTTTGGTAATTTTGC
* * *
9987455 AAACCGAGGGTATTTTGATAATTTTGT
1 AAATCGAGGGTATTTTGGTAATTTTGC
* * * * * *
9987482 ATATTGTGGGTACTTCGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTGC
* * * * *
9987509 AAGTTGAGGGTATTGTAGTAATTTTGT
1 AAATCGAGGGTATTTTGGTAATTTTGC
* * **
9987536 AAACCAAGGGTATTTCAGTAATTT
1 AAATCGAGGGTATTTTGGTAATTT
9987560 GGTAAACCAA
Statistics
Matches: 232, Mismatches: 54, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
26 6 0.03
27 221 0.95
28 5 0.02
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (27 bp):
AAATCGAGGGTATTTTGGTAATTTTGC
Found at i:9987564 original size:27 final size:27
Alignment explanation
Indices: 9987515--9987594 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
9987505 TTACAAGTTG
9987515 AGGGTATTGT-AGTAATTTTGTAAACCA
1 AGGGTATT-TCAGTAATTTTGTAAACCA
*
9987542 AGGGTATTTCAGTAATTTGGTAAACCA
1 AGGGTATTTCAGTAATTTTGTAAACCA
*
9987569 AGTGTATTTCAGTAATTTTGTAAACC
1 AGGGTATTTCAGTAATTTTGTAAACC
9987595 GAAGTATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 48 0.98
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTGTAAACCA
Found at i:9989535 original size:41 final size:41
Alignment explanation
Indices: 9989440--9989551 Score: 118
Period size: 41 Copynumber: 2.7 Consensus size: 41
9989430 AATATGATAT
** * **
9989440 ACCGGCACGAAGCCTGCTAGGCGTAAAGGCTATTATGGTAC
1 ACCGGCATAAAGCCTGCTAGGCGTAAAGCCTATTATAATAC
* * * *
9989481 ACTGGCGTTAAGCCTGCTAGGCGTAAAGCCTGA-TATAATTC
1 ACCGGCATAAAGCCTGCTAGGCGTAAAGCCT-ATTATAATAC
*
9989522 ACCGGCATAAAGCCTGCTAGGCATAAAGCC
1 ACCGGCATAAAGCCTGCTAGGCGTAAAGCC
9989552 CAATTATCAC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
41 57 0.98
42 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.21
Consensus pattern (41 bp):
ACCGGCATAAAGCCTGCTAGGCGTAAAGCCTATTATAATAC
Found at i:10002841 original size:49 final size:49
Alignment explanation
Indices: 10002777--10002874 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
10002767 CAACTTCTAC
* **
10002777 CCACTTAGAGACATAATCTATGGTCATAACTACATACATATTACCCTAA
1 CCACTTAAAGACATAATCTATGACCATAACTACATACATATTACCCTAA
**
10002826 CCACTTAAAGACATAATCTATGACCATAACTATGTACATATTACCCTAA
1 CCACTTAAAGACATAATCTATGACCATAACTACATACATATTACCCTAA
10002875 AAAGGTGGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (49 bp):
CCACTTAAAGACATAATCTATGACCATAACTACATACATATTACCCTAA
Found at i:10007737 original size:14 final size:12
Alignment explanation
Indices: 10007708--10007749 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
10007698 CCACCACCAG
*
10007708 ACCACCGTTA-C
1 ACCACCGTGACC
10007719 ACCACCGTCGGACC
1 ACCACCGT--GACC
10007733 ACCACCGTGACC
1 ACCACCGTGACC
10007745 ACCAC
1 ACCAC
10007750 TCTCCTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 8 0.30
12 9 0.33
13 1 0.04
14 9 0.33
ACGTcount: A:0.26, C:0.50, G:0.14, T:0.10
Consensus pattern (12 bp):
ACCACCGTGACC
Found at i:10008536 original size:23 final size:24
Alignment explanation
Indices: 10008506--10008557 Score: 97
Period size: 23 Copynumber: 2.2 Consensus size: 24
10008496 CTAATTCTAG
10008506 TATTTAAATAAATATTATTATTT-
1 TATTTAAATAAATATTATTATTTA
10008529 TATTTAAATAAATATTATTATTTA
1 TATTTAAATAAATATTATTATTTA
10008553 TATTT
1 TATTT
10008558 TTTATTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTTAAATAAATATTATTATTTA
Found at i:10009674 original size:14 final size:16
Alignment explanation
Indices: 10009651--10009682 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10009641 TTAAATTTTA
10009651 TTTTATTTTA-TTATT
1 TTTTATTTTATTTATT
10009666 TTTTA-TTTATTTATT
1 TTTTATTTTATTTATT
10009681 TT
1 TT
10009683 GATTTTCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTTTATTTATT
Found at i:10016765 original size:144 final size:144
Alignment explanation
Indices: 10016505--10016784 Score: 384
Period size: 144 Copynumber: 1.9 Consensus size: 144
10016495 TAAATAATTG
* **
10016505 CAAATATCGTTGATTTATCCAACTTGAGCTAGGCTCACTATTTATTTCATTGGTTTATCCGACTA
1 CAAATATCGTTGATTTATCAAACTTGAGCTAGGCTCACTATTTATTTCATTGGTTTAAACGACTA
* * * * *
10016570 GCGTTGGGCACAACTTCTGTCAGTTTATCTGACTACTGCTGGGCATACATTCGTCGGTTTATCCA
66 ACGTTGGGCACAACTTCCGCCAGTTTATCTGACTACTGCTGGGCACACATTCGTCGATTTATCCA
10016635 ACTAGCATTAGGCA
131 ACTAGCATTAGGCA
* * *
10016649 CAAATATTGTTGATTTATCAAACTTGGGCTAGGCTCACTATTTTTTTC-TTCGGTTTAAACGACT
1 CAAATATCGTTGATTTATCAAACTTGAGCTAGGCTCACTATTTATTTCATT-GGTTTAAACGACT
* * * * *
10016713 AACGCTT-GGCTCAACTTCCGCCAGTTTATCTGACTAGTGTTGGGTACACATTCGTTGATTTATC
65 AACG-TTGGGCACAACTTCCGCCAGTTTATCTGACTACTGCTGGGCACACATTCGTCGATTTATC
10016777 CAACTAGC
129 CAACTAGC
10016785 GCTAGGCGCA
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
143 2 0.02
144 114 0.97
145 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (144 bp):
CAAATATCGTTGATTTATCAAACTTGAGCTAGGCTCACTATTTATTTCATTGGTTTAAACGACTA
ACGTTGGGCACAACTTCCGCCAGTTTATCTGACTACTGCTGGGCACACATTCGTCGATTTATCCA
ACTAGCATTAGGCA
Found at i:10033699 original size:31 final size:30
Alignment explanation
Indices: 10033664--10033723 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
10033654 AGAGGTGGGA
*
10033664 TGGGATGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGGA-GAGAATAAAAATTTTAGGGGAAAAG
* * *
10033695 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
10033724 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:10033892 original size:21 final size:21
Alignment explanation
Indices: 10033858--10033898 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10033848 GAGGGAAACT
*
10033858 GGGAATAAGTAAAAGTTTTGA
1 GGGAATAAGTAAAAGATTTGA
10033879 GGGAA-AAGTAAAAAGATTTG
1 GGGAATAAGT-AAAAGATTTG
10033899 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.24
Consensus pattern (21 bp):
GGGAATAAGTAAAAGATTTGA
Found at i:10036725 original size:4 final size:4
Alignment explanation
Indices: 10036716--10036749 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
10036706 CACATATAAC
10036716 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
10036750 CCTAATAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:10046241 original size:43 final size:43
Alignment explanation
Indices: 10046193--10046311 Score: 111
Period size: 43 Copynumber: 2.8 Consensus size: 43
10046183 AAGCTCGTAT
*
10046193 AATGCCAAC-ATCCCATAC-GTGGTCTTACAAGTAATCAAATAAC
1 AATGCCAACTATCCCAGACAG-GGTCTTACAAGTAATCAAAT-AC
* *
10046236 AATGCC-ACTATCCCAGACAGGGTCTTACACGTAATCATATAC
1 AATGCCAACTATCCCAGACAGGGTCTTACAAGTAATCAAATAC
* * * * * *
10046278 GATGCCAA-TGTCCCAAACACGATCTTACACGTAA
1 AATGCCAACTATCCCAGACAGGGTCTTACAAGTAA
10046312 ATCTCAAATC
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 31 0.48
43 33 0.51
44 1 0.02
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (43 bp):
AATGCCAACTATCCCAGACAGGGTCTTACAAGTAATCAAATAC
Found at i:10046304 original size:42 final size:43
Alignment explanation
Indices: 10046215--10046311 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
10046205 CCATACGTGG
* * * * *
10046215 TCTTACAAGTAATCAAATAACAATGCCACTATCCCAGACAGGG
1 TCTTACACGTAATCAAATAACAATGCCAATATCCCAAACACGA
* * *
10046258 TCTTACACGTAATCATAT-ACGATGCCAATGTCCCAAACACGA
1 TCTTACACGTAATCAAATAACAATGCCAATATCCCAAACACGA
10046300 TCTTACACGTAA
1 TCTTACACGTAA
10046312 ATCTCAAATC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 30 0.65
43 16 0.35
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (43 bp):
TCTTACACGTAATCAAATAACAATGCCAATATCCCAAACACGA
Found at i:10049979 original size:18 final size:17
Alignment explanation
Indices: 10049948--10049981 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10049938 CGACGATTTG
*
10049948 CTAAAAATATGGTTTTA
1 CTAAAAATAAGGTTTTA
10049965 CTAAAAATAAAGGTTTT
1 CTAAAAAT-AAGGTTTT
10049982 TTGAAAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (17 bp):
CTAAAAATAAGGTTTTA
Found at i:10050758 original size:11 final size:12
Alignment explanation
Indices: 10050742--10050774 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
10050732 GGACCCAAGA
10050742 TGAATTAATTT-
1 TGAATTAATTTG
*
10050753 TGAATTCATTTG
1 TGAATTAATTTG
10050765 TGAATTAATT
1 TGAATTAATT
10050775 CACTTGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (12 bp):
TGAATTAATTTG
Found at i:10052114 original size:10 final size:10
Alignment explanation
Indices: 10052099--10052133 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
10052089 AATATTCTAT
10052099 TAATTTAATA
1 TAATTTAATA
10052109 TAATTTAATA
1 TAATTTAATA
*
10052119 TTAATTTAATC
1 -TAATTTAATA
10052130 TAAT
1 TAAT
10052134 ATTTATCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (10 bp):
TAATTTAATA
Found at i:10052122 original size:16 final size:16
Alignment explanation
Indices: 10052098--10052136 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
10052088 AAATATTCTA
10052098 TTAAT-TTAATATAAT
1 TTAATATTAATATAAT
*
10052113 TTAATATTAATTTAAT
1 TTAATATTAATATAAT
*
10052129 CTAATATT
1 TTAATATT
10052137 TATCTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAATATTAATATAAT
Found at i:10052125 original size:11 final size:11
Alignment explanation
Indices: 10052096--10052128 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
10052086 ATAAATATTC
10052096 TATTAATTTAA
1 TATTAATTTAA
10052107 TA-TAATTTAA
1 TATTAATTTAA
10052117 TATTAATTTAA
1 TATTAATTTAA
10052128 T
1 T
10052129 CTAATATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:10052139 original size:61 final size:59
Alignment explanation
Indices: 10052051--10052167 Score: 155
Period size: 58 Copynumber: 1.9 Consensus size: 59
10052041 AGTGATTATC
* * ** *
10052051 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATATAAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-TA-ATAAATATTAGATTAAATTAATATAAT
10052113 TTAATATT-AATTTAATCTAATATTTATCTTAATAAATATTAGATTAAATTAATAT
1 TTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTAGATTAAATTAATAT
10052168 TAAAGTGATT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
58 21 0.42
59 2 0.04
60 1 0.02
61 18 0.36
62 8 0.16
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTAGATTAAATTAATATAAT
Found at i:10052316 original size:25 final size:25
Alignment explanation
Indices: 10052276--10052325 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
10052266 AGTTGTAAAG
*
10052276 AGAAAATTCTCTAAATAAATTATTTC
1 AGAAAATTATCTAAATAAATT-TTTC
*
10052302 AGAAAA-TATCTAAATATATTTTTC
1 AGAAAATTATCTAAATAAATTTTTC
10052326 TTATTTATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 12 0.55
26 6 0.27
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (25 bp):
AGAAAATTATCTAAATAAATTTTTC
Found at i:10060398 original size:51 final size:50
Alignment explanation
Indices: 10060271--10060460 Score: 211
Period size: 51 Copynumber: 3.8 Consensus size: 50
10060261 GTGAAAGTGA
* * *
10060271 TGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATA-GAT
* * * *
10060321 GGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAG-AT
* * * * * *
10060372 TGATCACGTATGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGGAAA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAG-AT
* *
10060423 TGGTCACATGTGTAGTACTATGTGTAGGCTACTGTGTG
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
10060461 AATCGGGTAC
Statistics
Matches: 115, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
50 40 0.35
51 75 0.65
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGAT
Found at i:10060536 original size:44 final size:45
Alignment explanation
Indices: 10060471--10060560 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 45
10060461 AATCGGGTAC
*
10060471 CATTGACTATAAAGGTGGTTGCTATATGTTGATTCCACCGAGTAT
1 CATTGACTATAAAGGTGGTTGCTATATGCTGATTCCACCGAGTAT
* * *
10060516 CATTGATTAT-AAGGTGGTTGCTATGTGCTGATTCCACCGTGTAT
1 CATTGACTATAAAGGTGGTTGCTATATGCTGATTCCACCGAGTAT
10060560 C
1 C
10060561 TGTTATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 32 0.78
45 9 0.22
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (45 bp):
CATTGACTATAAAGGTGGTTGCTATATGCTGATTCCACCGAGTAT
Found at i:10065048 original size:12 final size:12
Alignment explanation
Indices: 10065031--10065059 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
10065021 GGGTGGCAAC
10065031 GATGCATTGCTA
1 GATGCATTGCTA
10065043 GATGCATTGCTA
1 GATGCATTGCTA
10065055 GATGC
1 GATGC
10065060 CACTCATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (12 bp):
GATGCATTGCTA
Found at i:10066114 original size:32 final size:32
Alignment explanation
Indices: 10066078--10066143 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
10066068 TCTTTAACTT
10066078 TAATAAGCTCTACATGCATTTTATGTTTATTC
1 TAATAAGCTCTACATGCATTTTATGTTTATTC
10066110 TAATAAGCTCTACATGCATTTTATGTTTATTC
1 TAATAAGCTCTACATGCATTTTATGTTTATTC
10066142 TA
1 TA
10066144 TGTTATTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (32 bp):
TAATAAGCTCTACATGCATTTTATGTTTATTC
Found at i:10072764 original size:15 final size:15
Alignment explanation
Indices: 10072744--10072794 Score: 93
Period size: 15 Copynumber: 3.4 Consensus size: 15
10072734 AAAAAAATGT
10072744 ATCAAATTATGACAA
1 ATCAAATTATGACAA
*
10072759 ATCAAATTATGAGAA
1 ATCAAATTATGACAA
10072774 ATCAAATTATGACAA
1 ATCAAATTATGACAA
10072789 ATCAAA
1 ATCAAA
10072795 CTCCCCCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (15 bp):
ATCAAATTATGACAA
Found at i:10080410 original size:17 final size:18
Alignment explanation
Indices: 10080375--10080415 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10080365 AAAAATATTT
* *
10080375 AAAAATAATAAAACTCTA
1 AAAAATAACAAAACACTA
10080393 AAAAATAACAAAA-ACTA
1 AAAAATAACAAAACACTA
10080410 AAAAAT
1 AAAAAT
10080416 GTATTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAATAACAAAACACTA
Found at i:10090917 original size:18 final size:18
Alignment explanation
Indices: 10090873--10090918 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
10090863 TATTCGGAAA
* *
10090873 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
10090891 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
10090909 AGGAAACATA
1 AGGATACATA
10090919 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:10091575 original size:7 final size:7
Alignment explanation
Indices: 10091563--10091587 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10091553 TTATACACAT
10091563 AATACTA
1 AATACTA
10091570 AATACTA
1 AATACTA
10091577 AATACTA
1 AATACTA
10091584 AATA
1 AATA
10091588 TCAATCGACT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:10092718 original size:30 final size:30
Alignment explanation
Indices: 10092654--10092716 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
10092644 GCCATTGATG
*
10092654 AAAATATAAAAAAATTTAAAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTAAA
*
10092684 AAAATATAAAAAAA-TTATAATTATTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTAAA
10092713 AAAA
1 AAAA
10092717 ATGGATTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTAAA
Found at i:10092788 original size:22 final size:22
Alignment explanation
Indices: 10092763--10092813 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
10092753 AAATATGAGT
10092763 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
10092785 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
10092807 TTGAGAG
1 TTGAGAG
10092814 GATTAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:10094711 original size:31 final size:30
Alignment explanation
Indices: 10094676--10094774 Score: 112
Period size: 31 Copynumber: 3.3 Consensus size: 30
10094666 ACTACTAAAA
* *
10094676 TAGTCACTTTTGTTTGGCACAGGTTACATTT
1 TAGTCACTTATGTTT-GCACATGTTACATTT
* *
10094707 TAGTCACTTATGTTTG-AAATGTTACGTTT
1 TAGTCACTTATGTTTGCACATGTTACATTT
*
10094736 TAGTCACTTATGTTAT-CACATTGTAACATTT
1 TAGTCACTTATGTT-TGCACA-TGTTACATTT
10094767 TAGTCACT
1 TAGTCACT
10094775 GAGCCGTTAG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
29 24 0.41
30 4 0.07
31 30 0.52
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (30 bp):
TAGTCACTTATGTTTGCACATGTTACATTT
Found at i:10095640 original size:29 final size:30
Alignment explanation
Indices: 10095608--10095670 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
10095598 AACCAAAAAA
10095608 GGCCGGTTTTTTCAA-AATTTACCGAAATG
1 GGCCGGTTTTTTCAATAATTTACCGAAATG
* * *
10095637 GGCCGGTTTTTTTAATTATTTACCGGAATG
1 GGCCGGTTTTTTCAATAATTTACCGAAATG
10095667 GGCC
1 GGCC
10095671 ATTTTCCGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (30 bp):
GGCCGGTTTTTTCAATAATTTACCGAAATG
Found at i:10096551 original size:40 final size:40
Alignment explanation
Indices: 10096507--10096596 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 40
10096497 TCCTAGAGGG
10096507 CGCGATTTCCTTCCACGT-CAAC-AAATCGCGCTGACGTGGA
1 CGCGATTTCC-TCCACGTAC-ACGAAATCGCGCTGACGTGGA
* * * *
10096547 CGCGATTTCCTGCGCGTACCCTGACATCGCGCTGACGTGGA
1 CGCGATTTCCTCCACGTACAC-GAAATCGCGCTGACGTGGA
10096588 CGCGATTTC
1 CGCGATTTC
10096597 ACGAAAAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
39 6 0.14
40 11 0.26
41 26 0.60
ACGTcount: A:0.18, C:0.33, G:0.26, T:0.23
Consensus pattern (40 bp):
CGCGATTTCCTCCACGTACACGAAATCGCGCTGACGTGGA
Found at i:10098631 original size:19 final size:20
Alignment explanation
Indices: 10098592--10098634 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
10098582 TAATAATAAT
* *
10098592 ATATTTTTTAATTGTTATCA
1 ATATGTTTTAAATGTTATCA
10098612 ATATGTTTTAAATG-TATCA
1 ATATGTTTTAAATGTTATCA
10098631 ATAT
1 ATAT
10098635 TATTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (20 bp):
ATATGTTTTAAATGTTATCA
Found at i:10098640 original size:19 final size:19
Alignment explanation
Indices: 10098596--10098642 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
10098586 AATAATATAT
*
10098596 TTTTTAATTGTTATCAATA
1 TTTTTAAATGTTATCAATA
10098615 TGTTTTAAATG-TATCAATA
1 T-TTTTAAATGTTATCAATA
10098634 TTATTTAAA
1 TT-TTTAAA
10098643 AATACATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 8 0.32
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.53
Consensus pattern (19 bp):
TTTTTAAATGTTATCAATA
Found at i:10102148 original size:26 final size:27
Alignment explanation
Indices: 10102099--10102157 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
10102089 ACCCGTAATT
* *
10102099 ATATATGTTATATAATAAGACCCATGC
1 ATATATGTTACATAATAAGACCCACGC
*
10102126 ATATATG-TACATAGTAAGACCCACGC
1 ATATATGTTACATAATAAGACCCACGC
*
10102152 AAATAT
1 ATATAT
10102158 ATTATATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (27 bp):
ATATATGTTACATAATAAGACCCACGC
Found at i:10102288 original size:62 final size:65
Alignment explanation
Indices: 10102222--10102346 Score: 184
Period size: 66 Copynumber: 2.0 Consensus size: 65
10102212 TATATATTGT
* * *
10102222 ATACAACATAACCATGCATAT-T-TATTATATATA-ACACCAAAATCCATTAATATATATACCGC
1 ATACAACAGAACCATGCATATGTATATTATATATAGACACCAAAACCCATCAATATATATACCGC
*
10102284 ATACAATAGAACCATGCATATGTATATTATATATATGACACCAAAACCCATCAATATATATAC
1 ATACAACAGAACCATGCATATGTATATTATATATA-GACACCAAAACCCATCAATATATATAC
10102347 TATATATAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
62 19 0.35
63 1 0.02
64 11 0.20
66 24 0.44
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.30
Consensus pattern (65 bp):
ATACAACAGAACCATGCATATGTATATTATATATAGACACCAAAACCCATCAATATATATACCGC
Found at i:10104068 original size:41 final size:41
Alignment explanation
Indices: 10104011--10104125 Score: 128
Period size: 41 Copynumber: 2.8 Consensus size: 41
10104001 CTTTGAGTCC
* *
10104011 AGCAGACTTCGTGCCGGTGATTTATA-CTAGGCTCTCTACCT
1 AGCAGGCTTCATGCCGGTGATTTATATC-AGGCTCTCTACCT
* *
10104052 AGCAGGC-TCTATGCCGGTG-TGTTGTATCAGGCTCTGTACCT
1 AGCAGGCTTC-ATGCCGGTGAT-TTATATCAGGCTCTCTACCT
* *
10104093 AGCAGGCTTCGTGCCAGTGATTTATATCAGGCT
1 AGCAGGCTTCATGCCGGTGATTTATATCAGGCT
10104126 TTGTGCTGGT
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
40 3 0.05
41 55 0.89
42 4 0.06
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.31
Consensus pattern (41 bp):
AGCAGGCTTCATGCCGGTGATTTATATCAGGCTCTCTACCT
Found at i:10111044 original size:28 final size:28
Alignment explanation
Indices: 10110999--10111081 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
10110989 ACTGTACTTG
10110999 TTACTGTATTGGGA-TAAGGCCCACACTA
1 TTACTGTATT-GGACTAAGGCCCACACTA
* *
10111027 TTACTGTATTGGACTAAGGCCCACATTG
1 TTACTGTATTGGACTAAGGCCCACACTA
* *
10111055 TTA-TCGTTTTGGGCTAAGGCCCACACT
1 TTACT-GTATTGGACTAAGGCCCACACT
10111082 GTACTGTTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.08
28 44 0.92
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (28 bp):
TTACTGTATTGGACTAAGGCCCACACTA
Found at i:10113707 original size:20 final size:20
Alignment explanation
Indices: 10113682--10113721 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10113672 TAACAGTTAG
10113682 TATC-AAGATTTTGACAAGAT
1 TATCAAAGA-TTTGACAAGAT
10113702 TATCAAAGATTTGACAAGAT
1 TATCAAAGATTTGACAAGAT
10113722 AAAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (20 bp):
TATCAAAGATTTGACAAGAT
Found at i:10114262 original size:12 final size:11
Alignment explanation
Indices: 10114245--10114292 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 11
10114235 TTTAAATTTT
10114245 AAAAATTATTAA
1 AAAAATTA-TAA
10114257 AAAAATTATAA
1 AAAAATTATAA
*
10114268 ACAAACTTCATAA
1 A-AAAATT-ATAA
10114281 AAAAATTTATAA
1 AAAAA-TTATAA
10114293 CAAATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 4 0.13
12 20 0.65
13 7 0.23
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:10134460 original size:6 final size:6
Alignment explanation
Indices: 10134449--10134482 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
10134439 AATATGTGTG
10134449 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
10134483 TTGCAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:10138094 original size:20 final size:18
Alignment explanation
Indices: 10138028--10138121 Score: 78
Period size: 17 Copynumber: 5.5 Consensus size: 18
10138018 ATTTTAATAG
10138028 TTTAATATTAAAT-TTAA
1 TTTAATATTAAATATTAA
* *
10138045 TTTAATACT-AATCTTAA
1 TTTAATATTAAATATTAA
*
10138062 --TAATATT--TTATTAA
1 TTTAATATTAAATATTAA
10138076 TTTAATATTAAAGTGATT-A
1 TTTAATATTAAA-T-ATTAA
10138095 TCTTAATATTAAAT-TTAA
1 T-TTAATATTAAATATTAA
10138113 TTTAATATT
1 TTTAATATT
10138122 TATCTTGTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
14 5 0.08
15 6 0.10
16 10 0.16
17 22 0.35
18 2 0.03
19 4 0.06
20 14 0.22
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTAATATTAAATATTAA
Found at i:10138183 original size:18 final size:17
Alignment explanation
Indices: 10138162--10138197 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
10138152 ATGAGATTTA
10138162 ATATTAAATATAAATATT
1 ATATTAAAT-TAAATATT
*
10138180 ATATTAAATTTAATATT
1 ATATTAAATTAAATATT
10138197 A
1 A
10138198 AAGTGACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTAAATTAAATATT
Found at i:10146310 original size:27 final size:27
Alignment explanation
Indices: 10146279--10146456 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
10146269 ATATTGAGCC
* *
10146279 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
10146306 TGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
10146333 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
10146361 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
10146388 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
10146415 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
10146442 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10146457 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:10150974 original size:35 final size:35
Alignment explanation
Indices: 10150905--10150975 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
10150895 TCACAGCGGA
*
10150905 TTAAAACGAAATAACAACAAAATAAAAGATCAGAT
1 TTAAAACGAAATAACAACAAAATAAAAGACCAGAT
* *
10150940 TTAAAAGGAAATAA-AA-ATAAATGAAAGAACCAGAT
1 TTAAAACGAAATAACAACA-AAATAAAAG-ACCAGAT
10150975 T
1 T
10150976 GTAACACACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 1 0.03
34 10 0.32
35 20 0.65
ACGTcount: A:0.62, C:0.08, G:0.11, T:0.18
Consensus pattern (35 bp):
TTAAAACGAAATAACAACAAAATAAAAGACCAGAT
Found at i:10155002 original size:39 final size:40
Alignment explanation
Indices: 10154959--10155062 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 40
10154949 CTATTCCAAA
*
10154959 AATAATATTATTTTAATAGTTTAATATTAAATTTAAT-TT
1 AATAATATTATCTTAATAGTTTAATATTAAATTTAATATT
*
10154998 AAT-A-ATTATCTTAATAGTATT-TTATT-AATTTAATATT
1 AATAATATTATCTTAATAGT-TTAATATTAAATTTAATATT
* *
10155035 AA-ATTAATTATCTTAATA-TTAAATATTA
1 AATAAT-ATTATCTTAATAGTTTAATATTA
10155063 TTTAATGTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
36 8 0.15
37 22 0.42
38 8 0.15
39 15 0.28
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (40 bp):
AATAATATTATCTTAATAGTTTAATATTAAATTTAATATT
Found at i:10155050 original size:20 final size:20
Alignment explanation
Indices: 10155000--10155058 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
10154990 TTTAATTTAA
* *
10155000 TAATTATCTTAATAGT-ATT
1 TAATTATCTTAATATTAAAT
*
10155019 TTATTAAT-TTAATATTAAAT
1 TAATT-ATCTTAATATTAAAT
10155039 TAATTATCTTAATATTAAAT
1 TAATTATCTTAATATTAAAT
10155059 ATTATTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (20 bp):
TAATTATCTTAATATTAAAT
Found at i:10161969 original size:11 final size:11
Alignment explanation
Indices: 10161943--10161975 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
10161933 AAATGACGAA
10161943 TTAAAT-ATAC
1 TTAAATGATAC
10161953 -TAAATGATAC
1 TTAAATGATAC
10161963 TTAAATGATAC
1 TTAAATGATAC
10161974 TT
1 TT
10161976 TTCCCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.24
10 4 0.19
11 12 0.57
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (11 bp):
TTAAATGATAC
Found at i:10162245 original size:21 final size:21
Alignment explanation
Indices: 10162221--10162270 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
10162211 TTCTGCTTTG
*
10162221 CTCTGCTTCCCTCGTTGCTGC
1 CTCTGCTTCCCTCATTGCTGC
* *
10162242 CTCTACTTCCCTCATTGTTGC
1 CTCTGCTTCCCTCATTGCTGC
*
10162263 CTCCGCTT
1 CTCTGCTT
10162271 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.42, G:0.14, T:0.40
Consensus pattern (21 bp):
CTCTGCTTCCCTCATTGCTGC
Found at i:10168220 original size:3 final size:3
Alignment explanation
Indices: 10168203--10168262 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
10168193 TAATTACTCA
* * * * *
10168203 ATT ATT -TT CATT ATT ATT GTT ATT ATT ATT AAT GTT ATT ATA ACT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
10168248 ATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT
10168263 TATATTAGTT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:10168659 original size:28 final size:27
Alignment explanation
Indices: 10168605--10168666 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
10168595 ACCGTATTTT
10168605 TAATTTATTTCAAATTTTCATTTATATA
1 TAATTTATTTCAAATTTT-ATTTATATA
* *
10168633 TTATTTATTTTAAA-TTTATTTTAATATA
1 TAATTTATTTCAAATTTTA-TTT-ATATA
10168661 TAATTT
1 TAATTT
10168667 CCTTTCTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.03
27 6 0.21
28 22 0.76
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (27 bp):
TAATTTATTTCAAATTTTATTTATATA
Found at i:10173432 original size:19 final size:19
Alignment explanation
Indices: 10173395--10173441 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
10173385 AAAAATAGAA
*
10173395 AAAAAATAATTTTACAATCCC
1 AAAAAAT-ATTCTACAAT-CC
*
10173416 AAAAAATATTCTA-AATCT
1 AAAAAATATTCTACAATCC
10173434 AAAAAATA
1 AAAAAATA
10173442 AAAAAATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 3 0.12
20 5 0.21
21 7 0.29
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAAATATTCTACAATCC
Found at i:10173810 original size:25 final size:26
Alignment explanation
Indices: 10173777--10173830 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
10173767 TTTTTTTATT
10173777 TTTAGTTTTTTAAAATTTTAAAAATA
1 TTTAGTTTTTTAAAATTTTAAAAATA
* ** *
10173803 TTTA-TTTTTTGACTTTTTTAAAATA
1 TTTAGTTTTTTAAAATTTTAAAAATA
10173828 TTT
1 TTT
10173831 TAAGTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTAGTTTTTTAAAATTTTAAAAATA
Found at i:10175524 original size:32 final size:32
Alignment explanation
Indices: 10175481--10175550 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
10175471 GAATGTATTG
10175481 CAGTGTAGAATTTCCAAACAAGTCTTCTCATT
1 CAGTGTAGAATTTCCAAACAAGTCTTCTCATT
*
10175513 CGGTGTAGAATTTCCAAACAAGTCTTCTCATT
1 CAGTGTAGAATTTCCAAACAAGTCTTCTCATT
10175545 CAGTGT
1 CAGTGT
10175551 CTCCATGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (32 bp):
CAGTGTAGAATTTCCAAACAAGTCTTCTCATT
Found at i:10176369 original size:18 final size:19
Alignment explanation
Indices: 10176338--10176378 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
10176328 CAAGATAATT
10176338 AATGAAATTATAATGCAGG
1 AATGAAATTATAATGCAGG
*
10176357 AATG-AATTTTAATGCAGG
1 AATGAAATTATAATGCAGG
10176375 AATG
1 AATG
10176379 CTTTGATTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (19 bp):
AATGAAATTATAATGCAGG
Found at i:10178283 original size:18 final size:18
Alignment explanation
Indices: 10178262--10178298 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10178252 AATATTTTTC
*
10178262 AAAAATATCAATTTTTAA
1 AAAAATAGCAATTTTTAA
10178280 AAAAATAGCAATTTTTAA
1 AAAAATAGCAATTTTTAA
10178298 A
1 A
10178299 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (18 bp):
AAAAATAGCAATTTTTAA
Found at i:10188318 original size:69 final size:67
Alignment explanation
Indices: 10188235--10188362 Score: 177
Period size: 69 Copynumber: 1.9 Consensus size: 67
10188225 TGATTAAACT
* * *
10188235 TAATCATTTTAATATTAAATTAATATAAT-ATTTATCAAGATAAATATTAAATTAAATTAAATAT
1 TAATCACTTTAATATTAAAGTAATAAAATAATTT-T-AAGATAAATATTAAA-TAAATTAAATAT
10188299 TAAGA
63 TAAGA
* *
10188304 TAATCACTTTAATATTAAAGTAATAAAATAATTTTAAGATAAGTATTAAATATATTAAA
1 TAATCACTTTAATATTAAAGTAATAAAATAATTTTAAGATAAATATTAAATAAATTAAA
10188363 ATAATATTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
67 8 0.15
68 14 0.26
69 27 0.51
70 4 0.08
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (67 bp):
TAATCACTTTAATATTAAAGTAATAAAATAATTTTAAGATAAATATTAAATAAATTAAATATTAA
GA
Found at i:10190066 original size:30 final size:30
Alignment explanation
Indices: 10190032--10190223 Score: 180
Period size: 30 Copynumber: 6.5 Consensus size: 30
10190022 CAAATCTATT
10190032 CCTTTTCATTATTTGATGGTCGTCACCATC
1 CCTTTTCATTATTTGATGGTCGTCACCATC
10190062 CCTTTTCATTA-TTGATGGTCGTCACCATC
1 CCTTTTCATTATTTGATGGTCGTCACCATC
* * * * *
10190091 CCTCTTCATTAATTGATAG-C-TGAAGCTATC
1 CCTTTTCATTATTTGATGGTCGT-CA-CCATC
* *
10190121 CCTTTTCGTTATTCGATGGTCGTCACCATC
1 CCTTTTCATTATTTGATGGTCGTCACCATC
* *
10190151 CCTTTTCATT-TTTGATGATCATCACCAT-
1 CCTTTTCATTATTTGATGGTCGTCACCATC
* * ***
10190179 CCTATTTCATAATTTGATAGTCGAT-GTTATC
1 CCT-TTTCATTATTTGATGGTCG-TCACCATC
10190210 CCTTTTCATTATTT
1 CCTTTTCATTATTT
10190224 TGATAACCGA
Statistics
Matches: 130, Mismatches: 23, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
28 4 0.03
29 51 0.39
30 68 0.52
31 6 0.05
32 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (30 bp):
CCTTTTCATTATTTGATGGTCGTCACCATC
Found at i:10190085 original size:29 final size:29
Alignment explanation
Indices: 10190032--10190188 Score: 167
Period size: 29 Copynumber: 5.3 Consensus size: 29
10190022 CAAATCTATT
10190032 CCTTTTCATTATTTGATGGTCGTCACCATC
1 CCTTTTCATTA-TTGATGGTCGTCACCATC
10190062 CCTTTTCATTATTGATGGTCGTCACCATC
1 CCTTTTCATTATTGATGGTCGTCACCATC
* * * *
10190091 CCTCTTCATTAATTGATAG-C-TGAAGCTATC
1 CCTTTTCATT-ATTGATGGTCGT-CA-CCATC
*
10190121 CCTTTTCGTTATTCGATGGTCGTCACCATC
1 CCTTTTCATTATT-GATGGTCGTCACCATC
* * *
10190151 CCTTTTCATTTTTGATGATCATCACCAT-
1 CCTTTTCATTATTGATGGTCGTCACCATC
10190179 CCTATTTCAT
1 CCT-TTTCAT
10190189 AATTTGATAG
Statistics
Matches: 107, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
28 4 0.04
29 51 0.48
30 49 0.46
31 2 0.02
32 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (29 bp):
CCTTTTCATTATTGATGGTCGTCACCATC
Found at i:10190109 original size:89 final size:89
Alignment explanation
Indices: 10190016--10190222 Score: 256
Period size: 89 Copynumber: 2.3 Consensus size: 89
10190006 TTCGCAACTC
* * * *
10190016 GATAGCCAAATCTATTCCTTTTCATTATTTGATGGTCGTCACCATCCCTTTTCATTATTGATGGT
1 GATAGCCAAAGCTATCCCTTTTCATTATTCGATGGTCGTCACCATCCCTTTTCATTATTGATGAT
*
10190081 CGTCACCATCCCTCTTCATTAATT
66 CATCACCATCCCTCTTCATTAATT
** * *
10190105 GATAGCTGAAGCTATCCCTTTTCGTTATTCGATGGTCGTCACCATCCCTTTTCATTTTTGATGAT
1 GATAGCCAAAGCTATCCCTTTTCATTATTCGATGGTCGTCACCATCCCTTTTCATTATTGATGAT
*
10190170 CATCACCAT-CCTATTTCA-TAATTT
66 CATCACCATCCCT-CTTCATTAA-TT
* * * *
10190194 GATAGTCGATGTTATCCCTTTTCATTATT
1 GATAGCCAAAGCTATCCCTTTTCATTATT
10190223 TTGATAACCG
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
88 6 0.06
89 95 0.94
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (89 bp):
GATAGCCAAAGCTATCCCTTTTCATTATTCGATGGTCGTCACCATCCCTTTTCATTATTGATGAT
CATCACCATCCCTCTTCATTAATT
Found at i:10190227 original size:31 final size:31
Alignment explanation
Indices: 10190183--10190251 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
10190173 CACCATCCTA
** * *
10190183 TTTCA-TAATTTGATAGTCGATGTTATCCCT
1 TTTCATTAATTTGATAACCGAGGCTATCCCT
*
10190213 TTTCATTATTTTGATAACCGAGGCTATCCCT
1 TTTCATTAATTTGATAACCGAGGCTATCCCT
10190244 TTTCATTA
1 TTTCATTA
10190252 GCTGATAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (31 bp):
TTTCATTAATTTGATAACCGAGGCTATCCCT
Done.