Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 271 of 311
Found at i:89591669 original size:73 final size:73
Alignment explanation
Indices: 89591568--89592149 Score: 613
Period size: 73 Copynumber: 8.0 Consensus size: 73
89591558 ATGTTTCTAA
* *
89591568 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTT
*
89591632 TTATTTGTC
65 TTGTTTGTC
* *
89591641 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT-----CA-----AGGTATTTTCAATTAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTT
*
89591696 TGTTTTTC
66 TGTTTGTC
* * * *
89591704 AAAAAAATCAACTCATATTGTGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATT
89591769 TTTGTTTGTC
64 TTTGTTTGTC
* * *
89591779 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTT
*
89591844 TGTCTT-TAAA
66 TGT-TTGT--C
* * * * * *
89591854 AAAAATCAGCTCATGTTGCGAGAGGTGAGTTGAACTTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTT
*
89591919 TGTTTTTC
66 TGTTTGTC
* * *
89591927 AAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--ACGCTGAGGTAATTTCAAT
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAAT
89591990 TTTTGTTTGTC
63 TTTTGTTTGTC
* * *
89592001 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAAACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTT
*
89592066 TCTCTT-TC
66 TGT-TTGTC
* * * * *
89592074 AAAAAAAATCAGCTCATATTGTGAGAGGTGAGTTGAACCTCAAGACA--CTGAGGTGTTTTCCAT
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAAT
* *
89592137 TTCTGTTCGTC
63 TTTTGTTTGTC
89592148 AA
1 AA
89592150 TTTCTGTGTT
Statistics
Matches: 434, Mismatches: 48, Indels: 56
0.81 0.09 0.10
Matches are distributed among these distances:
62 5 0.01
63 15 0.03
65 34 0.08
68 2 0.00
70 2 0.00
71 41 0.09
73 121 0.28
74 52 0.12
75 85 0.20
76 77 0.18
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTT
TGTTTGTC
Found at i:89592018 original size:222 final size:219
Alignment explanation
Indices: 89591568--89592143 Score: 791
Period size: 222 Copynumber: 2.6 Consensus size: 219
89591558 ATGTTTCTAA
* * *
89591568 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
* *** * * **
89591632 -TTATTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTG------AG-C-CTCAAGGTATTT
65 CTTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACTCAAGACACTTGAGGTATTT
* *
89591688 TCAATTAT-TGTTTTTCAAAAAAATCAACTCATATTGTGATAGGTGAGTTGAGCCTCAGGACACG
130 TCAATT-TCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA-GACACG
89591752 CTGAGGTAATTTCAATTTTTGTTTGTC
193 CTGAGGTAATTTCAATTTTTGTTTGTC
*
89591779 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
*
89591844 TGTCTTTAAAAAAAATCAGCTCATGTTGCGAGAGGTGAGTTGAACTTCAAGACACGTTGAGGTAT
66 T-TCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAAC-TCAAGACAC-TTGAGGTAT
*
89591909 TTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA-AGAC
128 TTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAGACAC
89591973 GCTGAGGTAATTTCAATTTTTGTTTGTC
192 GCTGAGGTAATTTCAATTTTTGTTTGTC
*
89592001 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAAACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* *
89592066 TCTCTTTCAAAAAAAATCAGCTCATATTGTGAGAGGTGAGTTGAACCTCAAGACAC-TGAGGTGT
66 T-TCTTT-AAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAA-CTCAAGACACTTGAGGTAT
*
89592130 TTTCCATTTCTGTT
128 TTTCAATTTCTGTT
89592144 CGTCAATTTC
Statistics
Matches: 325, Mismatches: 23, Indels: 24
0.87 0.06 0.06
Matches are distributed among these distances:
210 5 0.02
211 54 0.17
212 1 0.00
213 33 0.10
220 2 0.01
221 21 0.06
222 102 0.31
223 67 0.21
224 40 0.12
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (219 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACTCAAGACACTTGAGGTATTTT
CAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAGACACGCTG
AGGTAATTTCAATTTTTGTTTGTC
Found at i:89592149 original size:147 final size:144
Alignment explanation
Indices: 89591568--89592149 Score: 621
Period size: 147 Copynumber: 4.0 Consensus size: 144
89591558 ATGTTTCTAA
* *
89591568 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTT
* * * *
89591632 TTATTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT-----CA---AGGTATTTT
65 CTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACTGAGGTATTTT
**
89591689 CAATTAT-TGTTTTTC
130 CAATT-TCTGTTCGTC
* * * *
89591704 AAAAAAATCAACTCATATTGTGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATT
* * *
89591769 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTAT
64 TCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC--TGAGGTAT
* *
89591834 TTTCAATTTCTG-TCTTTAAA
127 TTTCAATTTCTGTTC-GT--C
* * * * *
89591854 AAAAATCAGCTCATGTTGCGAGAGGTGAGTTGAACTTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* * * *
89591919 TGTTTTTCAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAGACGCTGAGGTAAT
66 TGTTTGTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACTGAGGTATT
* *
89591984 TTCAATTTTTGTTTGTC
128 TTCAATTTCTGTTCGTC
* *
89592001 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAAACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* * * *
89592066 TCTCTT-TCAAAAAAAATCAGCTCATATTGTGAGAGGTGAGTTGAACCTCAAGACACTGAGGTGT
66 TGT-TTGTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACTGAGGTAT
*
89592130 TTTCCATTTCTGTTCGTC
127 TTTCAATTTCTGTTCGTC
89592148 AA
1 AA
89592150 TTTCTGTGTT
Statistics
Matches: 381, Mismatches: 43, Indels: 31
0.84 0.09 0.07
Matches are distributed among these distances:
137 4 0.01
138 99 0.26
143 2 0.01
147 133 0.35
148 82 0.22
149 18 0.05
150 1 0.00
151 42 0.11
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (144 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACTGAGGTATTTTC
AATTTCTGTTCGTC
Found at i:89592256 original size:15 final size:14
Alignment explanation
Indices: 89592220--89592252 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
89592210 CGCTGAGGTA
89592220 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
89592234 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
89592248 TTTTC
1 TTTTC
89592253 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:89592358 original size:179 final size:173
Alignment explanation
Indices: 89592076--89592594 Score: 519
Period size: 179 Copynumber: 2.9 Consensus size: 173
89592066 TCTCTTTCAA
* * * * *
89592076 AAAAAATCAGCTCATATTGTGAGAGGTGAGTTGAACCTCAAGACACTGAGGTGTTTTCCATTTCT
1 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACTGAGGTATTTTCAATTT-T
** * * *
89592141 GTTCGTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGAGAGTGGTGAGTTGAGCCTAGACT
65 GTTTTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAG-CT
*
89592206 CACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTT-TGTTTTTCC
127 CACACGCTGAGGTATTTTCAAATTCTGTTTTTC-AATTTATG-CTTTCC
* * *
89592254 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACA--CTGAGGTATTTTCAATTT
* *
89592319 TTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
64 TGTTTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGC
* * * *
89592384 TCACACGCCGAGGTATTTTCAATTGATTTTTTTTTTCAATTTATGCTTTGC
126 TCACACGCTGAGGTATTTTCAA---ATTCTGTTTTTCAATTTATGCTTTCC
* * *
89592435 -AAAAATCAACTCATATTATGGGAGGTGAGTTGAGCCTCAGGTCACATACCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG--AC--ACTGAGGTATTTTC-AA
* * * * *
89592499 ATCTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAAGTG-GTTGAGCCTTG
61 TTTTGTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TA
** * *
89592560 GCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTT
124 GCTCACACGCTGAGGTATTTTCAAATTCTGTTTTT
89592595 AATGTCTAGT
Statistics
Matches: 285, Mismatches: 41, Indels: 33
0.79 0.11 0.09
Matches are distributed among these distances:
175 8 0.03
178 69 0.24
179 99 0.35
180 54 0.19
181 9 0.03
182 26 0.09
183 14 0.05
184 6 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (173 bp):
AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACTGAGGTATTTTCAATTTTG
TTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGCTCACA
CGCTGAGGTATTTTCAAATTCTGTTTTTCAATTTATGCTTTCC
Found at i:89592461 original size:92 final size:89
Alignment explanation
Indices: 89592163--89592557 Score: 398
Period size: 92 Copynumber: 4.4 Consensus size: 89
89592153 CTGTGTTTCA
* * * *
89592163 AAAAAATCAGCTCATATTGA-GAGTGGTGAGTTGAGCCT-AGACTCACACGCTGAGGTATTTTCA
1 AAAAAATCAACTCATATT-ACGAGAGGTGAGTTGAGCCTCAG-GTCACACGCCGAGGTATTTTCA
* * *
89592226 AATTCTGTTTTTCAAATTT-TGTTTTTCC
64 AATTTTTTTTTTC-AATTTATG--TTTGC
* * * *
89592254 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG--ACACGCTGAGATATTTTC-AA
1 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAA
89592316 TTTTTTTTTTCAATTTATGTTTGTC
66 TTTTTTTTTTCAATTTATGTTTG-C
*
89592341 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
89592406 TTGATTTTTTTTTTCAATTTATGCTTTGC
65 ---ATTTTTTTTTTCAATTTATG-TTTGC
* * **
89592435 -AAAAATCAACTCATATTATGGGAGGTGAGTTGAGCCTCAGGTCACATACCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAA
* * * *
89592499 ATCTGTTTTACAAATTT-TGTTT--
66 TTTTTTTTTTC-AATTTATGTTTGC
* * *
89592521 TAAAAATCAACTCATATTGCGAGAAGTG-GTTGAGCCT
1 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT
89592558 TGGCTCACGT
Statistics
Matches: 265, Mismatches: 25, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
86 12 0.05
87 29 0.11
88 57 0.22
89 27 0.10
90 21 0.08
91 34 0.13
92 60 0.23
94 21 0.08
95 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (89 bp):
AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAA
TTTTTTTTTTCAATTTATGTTTGC
Found at i:89593312 original size:30 final size:30
Alignment explanation
Indices: 89593276--89593404 Score: 204
Period size: 30 Copynumber: 4.3 Consensus size: 30
89593266 CTAGCCTTTG
89593276 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
89593306 CCACCACCAACTCCACTAGCCACACTTGTT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
89593336 CCACCACCTACTCCACTAGCCACACTTACT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * *
89593366 CCACCACCTACTCCATTGGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
89593396 CCACCACCA
1 CCACCACCA
89593405 CTTGTACCTA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 91 1.00
ACGTcount: A:0.26, C:0.50, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:89593899 original size:15 final size:15
Alignment explanation
Indices: 89593879--89593910 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
89593869 CTCTCTCTTT
*
89593879 TTTTTTATTATTATA
1 TTTTTTAATATTATA
89593894 TTTTTTAATATTATA
1 TTTTTTAATATTATA
89593909 TT
1 TT
89593911 ATATATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTTAATATTATA
Found at i:89593933 original size:22 final size:24
Alignment explanation
Indices: 89593884--89593929 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
89593874 TCTTTTTTTT
89593884 TATTATTATATT-TTTTAATATTA
1 TATTATTATATTCTTTTAATATTA
89593907 TATTATATATATTCTTTTAATAT
1 TATTAT-TATATTCTTTTAATAT
89593930 ATTAGGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATTATATTCTTTTAATATTA
Found at i:89593987 original size:25 final size:24
Alignment explanation
Indices: 89593959--89594027 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 24
89593949 CTATATTACG
89593959 TATATATATTATACTATTTGATGTA
1 TATATATATTATACTATTT-ATGTA
* * *
89593984 TATATCT-TTAAAACTATATTATTTA
1 TATATATATT-ATACTAT-TTATGTA
89594009 TATATATATATATA-TATTT
1 TATATATAT-TATACTATTT
89594028 TCTACATGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
24 4 0.11
25 25 0.71
26 5 0.14
27 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (24 bp):
TATATATATTATACTATTTATGTA
Found at i:89594066 original size:22 final size:24
Alignment explanation
Indices: 89594009--89594102 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 24
89593999 ATATTATTTA
* *
89594009 TATATATATATATATATTTTCTACATGT
1 TATAT-TATGTATATATTTT-GACA--T
*
89594037 TATCTTATGTATATATTTT-A-AT
1 TATATTATGTATATATTTTGACAT
* *
89594059 TATATTATGTATGTATTTTTGACAC
1 TATATTATGTATATA-TTTTGACAT
*
89594084 TATATTATGTACATATTTT
1 TATATTATGTATATATTTT
89594103 TTATATCTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
22 14 0.25
23 4 0.07
24 6 0.11
25 15 0.27
27 13 0.23
28 4 0.07
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
TATATTATGTATATATTTTGACAT
Found at i:89594192 original size:25 final size:24
Alignment explanation
Indices: 89594164--89594219 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
89594154 GTTATATTTT
*
89594164 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
89594189 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
89594212 CACTATTA
1 CACTATTA
89594220 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:89597160 original size:26 final size:26
Alignment explanation
Indices: 89597129--89597235 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
89597119 TGAAATGCCC
*
89597129 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
89597155 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
89597180 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
89597206 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
89597232 ATCA
1 ATCA
89597236 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 24 0.32
26 51 0.68
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:89597199 original size:51 final size:52
Alignment explanation
Indices: 89597129--89597235 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
89597119 TGAAATGCCC
89597129 ATCATGGAACATTTACCTAAACCATTATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
89597180 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
89597232 ATCA
1 ATCA
89597236 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 29 0.55
52 24 0.45
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:89601179 original size:26 final size:26
Alignment explanation
Indices: 89601150--89601202 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
89601140 TCAAACATGC
89601150 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
89601176 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
89601202 A
1 A
89601203 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:89602727 original size:26 final size:26
Alignment explanation
Indices: 89602689--89602746 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
89602679 CATGAAATTC
89602689 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
89602715 TTATCATGGAACATTTACCTAAGCTA
1 TTATCATGAAACATTTACCTAACCCA
89602741 TTATCA
1 TTATCA
89602747 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:89603840 original size:3 final size:3
Alignment explanation
Indices: 89603832--89603876 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
89603822 TGAATTTCTA
* *
89603832 TAT TAT TAT TAT TAT TAT TGT TAT TGT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89603877 ATAGCAGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:89603873 original size:158 final size:157
Alignment explanation
Indices: 89603702--89604017 Score: 388
Period size: 158 Copynumber: 2.0 Consensus size: 157
89603692 ATATTATTTG
** * *
89603702 ATTATCATTATTATTATATATTAGTGTATATTTTTTATT-TACATACGTATATGTATTTATATCT
1 ATTATCATTATTATTATATAGCAGTGTATATTTTTTATTAT-C-TACGTATATGTATATACATCT
*
89603766 ATACATAGTATTTTTTTAATTACTTTAT-TTTAA-TATTATTATATTATATCTACTTTTGAATTT
64 ATACATAGTATTATTTTAATTACTTTATATTTAATTA-TATTATATTATA-CTACTTTTGAATTT
* * *
89603829 CT-ATATTATTATTATTATTATTGTTATTGTT
127 -TGATATTATTACTATTATTATTATCATTGTT
* * * *
89603860 ATTATTATTATTATTATATAGCAGTGTATATTTTTTATTATCTATGTATATGTATATGCATTTAT
1 ATTATCATTATTATTATATAGCAGTGTATATTTTTTATTATCTACGTATATGTATATACATCTAT
* * * ** *
89603925 ATATAGTATTATTTTAATTACTTTATCATTTTATTATATTATATTGTACTTTTTTTGTATTTTGA
66 ACATAGTATTATTTTAATTACTTTAT-ATTTAATTATATTATATTATACTACTTTTGAATTTTGA
89603990 TATTATTACTATTATTATTATCATTGTT
130 TATTATTACTATTATTATTATCATTGTT
89604018 GATATAGTGA
Statistics
Matches: 135, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
157 43 0.32
158 74 0.55
159 16 0.12
160 2 0.01
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (157 bp):
ATTATCATTATTATTATATAGCAGTGTATATTTTTTATTATCTACGTATATGTATATACATCTAT
ACATAGTATTATTTTAATTACTTTATATTTAATTATATTATATTATACTACTTTTGAATTTTGAT
ATTATTACTATTATTATTATCATTGTT
Found at i:89604586 original size:23 final size:22
Alignment explanation
Indices: 89604555--89604632 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 22
89604545 ATATATAAGT
*
89604555 ATATATTTATATATATTATGTAC
1 ATATTTTTATATAT-TTATGTAC
* *
89604578 ATATTTTTA-ATGTTTTCATGTAT
1 ATATTTTTATAT-ATTT-ATGTAC
89604601 ATATTTCTTATACTATTCTATGTAC
1 ATATTT-TTATA-TATT-TATGTAC
*
89604626 GTATTTT
1 ATATTTT
89604633 GATCATCTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
22 4 0.09
23 20 0.47
24 4 0.09
25 13 0.30
26 2 0.05
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (22 bp):
ATATTTTTATATATTTATGTAC
Found at i:89605038 original size:25 final size:24
Alignment explanation
Indices: 89605005--89605051 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 24
89604995 TGTTATTAGT
89605005 ATTTCTAATACATATCGTATATATTC
1 ATTTCTAATA-ATAT-GTATATATTC
*
89605031 ATTT-TAATATTATGTATATAT
1 ATTTCTAATAATATGTATATAT
89605052 ATTATGTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 3 0.15
25 5 0.25
26 4 0.20
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTTCTAATAATATGTATATATTC
Found at i:89605063 original size:17 final size:17
Alignment explanation
Indices: 89605038--89605082 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
89605028 TTCATTTTAA
89605038 TATTATGTATAT-ATAT
1 TATTATGTATATAATAT
*
89605054 TATGTATGTATCTAATAT
1 TAT-TATGTATATAATAT
89605072 TATTATGTATA
1 TATTATGTATA
89605083 CAGTTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 15 0.60
18 7 0.28
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (17 bp):
TATTATGTATATAATAT
Found at i:89616282 original size:43 final size:43
Alignment explanation
Indices: 89616222--89616304 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
89616212 TTATGCCTAA
* *
89616222 AAAAAAGATCAAGGTGAAAACTCGAAAAGGGCGTCTTGATAAT
1 AAAAAAGATCAAGGTGAAAACCCGAAAAAGGCGTCTTGATAAT
*
89616265 AAAAAGGATCAAGGTGAAAACCCGAAAAAGGCGTCTTGAT
1 AAAAAAGATCAAGGTGAAAACCCGAAAAAGGCGTCTTGAT
89616305 TAACACAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (43 bp):
AAAAAAGATCAAGGTGAAAACCCGAAAAAGGCGTCTTGATAAT
Found at i:89616328 original size:44 final size:43
Alignment explanation
Indices: 89616222--89616335 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
89616212 TTATGCCTAA
* * * * *
89616222 AAAAAAGATCAAGGTGAAAACTCGAAAAGGGCGTCTTGATAAT
1 AAAAAGGATCAAGATGAAAACCCGAAAAAGGCGTCTTGATAAC
*
89616265 AAAAAGGATCAAGGTGAAAACCCGAAAAAGGCGTCTTGATTAAC
1 AAAAAGGATCAAGATGAAAACCCGAAAAAGGCGTCTTGA-TAAC
*
89616309 ACAAAA-GAT-TAGAATGAAAACCC-AAAA
1 A-AAAAGGATCAAG-ATGAAAACCCGAAAA
89616336 GGGCATTCTA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 42 0.68
44 16 0.26
45 4 0.06
ACGTcount: A:0.50, C:0.14, G:0.20, T:0.16
Consensus pattern (43 bp):
AAAAAGGATCAAGATGAAAACCCGAAAAAGGCGTCTTGATAAC
Found at i:89618785 original size:13 final size:14
Alignment explanation
Indices: 89618755--89618796 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
89618745 ATTAGAAACG
89618755 TACATAAAAATATA
1 TACATAAAAATATA
*
89618769 TACATAAAAA-ATT
1 TACATAAAAATATA
*
89618782 TACAAAAATAATATA
1 TACATAAA-AATATA
89618797 AAATAATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.39
14 12 0.52
15 2 0.09
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
TACATAAAAATATA
Found at i:89620382 original size:30 final size:30
Alignment explanation
Indices: 89620346--89620407 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
89620336 TTTTGAAAAA
89620346 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
89620376 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
89620406 CA
1 CA
89620408 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:89620584 original size:88 final size:88
Alignment explanation
Indices: 89620431--89620591 Score: 216
Period size: 88 Copynumber: 1.8 Consensus size: 88
89620421 TTTTTTGAAA
* * ** *
89620431 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCATTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACATATCGCAATATGAG
89620496 TTGATTTTCGAAAACAGAATCTG
66 TTGATTTTCGAAAACAGAATCTG
** * * *
89620519 AAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATATCGCAATGTGA
1 AAAAACAGAAATTGAAAATACCTCAG-CACGTGACCCAAGGCTCAACTCACATATCGCAATATGA
89620583 GTTGATTTT
65 GTTGATTTT
89620592 TTTGAAAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
87 1 0.02
88 61 0.98
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACATATCGCAATATGAG
TTGATTTTCGAAAACAGAATCTG
Found at i:89620752 original size:80 final size:78
Alignment explanation
Indices: 89620556--89620772 Score: 258
Period size: 77 Copynumber: 2.7 Consensus size: 78
89620546 ATGTGACCCG
* * * * * *
89620556 AGGCTCAACTCACATATCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAAATACC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG---AAAATACC
* * * *
89620621 TCAGTGTGTGATCTGA
63 TCAGCGCGTGAGCTCA
* *
89620637 A-GCTCGACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
89620701 GCGCGTGAGC-CA
66 GCGCGTGAGCTCA
*
89620713 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAGACAGAAATTGAAAA
89620773 ACGGAAGTTG
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
76 2 0.02
77 46 0.39
79 25 0.21
80 45 0.38
81 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (78 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
GCGCGTGAGCTCA
Found at i:89620835 original size:93 final size:93
Alignment explanation
Indices: 89620673--89620844 Score: 229
Period size: 93 Copynumber: 1.8 Consensus size: 93
89620663 GTTGATTTTT
* * * * *
89620673 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACATCTCACAATAC
89620738 GAGTTGATTTTTTTTTGAAAGGCAGAAA
66 GAGTTGATTTTTTTTTGAAAGGCAGAAA
* * * * * *
89620766 TTGAAAAACGGAAGTTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCATCTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACATCTCACAATA
89620830 CGAGTTGATTTTTTT
65 CGAGTTGATTTTTTT
89620845 GACAACAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
92 2 0.03
93 65 0.97
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (93 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACATCTCACAATAC
GAGTTGATTTTTTTTTGAAAGGCAGAAA
Found at i:89620995 original size:244 final size:243
Alignment explanation
Indices: 89620179--89621016 Score: 769
Period size: 253 Copynumber: 3.4 Consensus size: 243
89620169 CCAGACATTA
**
89620179 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCA--TGAGCCAAGGCTCAACTCATTTCTCGCAATATGAGT
** ** ** * *
89620244 TGA---TTTTTTG-AAACTTAACA-TGAAAAGTAGATTTTGAAAATACCTCGATATGTGA-CTGA
64 TGATTTTTTTTTGAAAACAGAA-ATTGAAAAACAGAAGTTGAAAATACCTCGACATGTGACCCG-
* * * * * * * *
89620303 AGGTTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTCAA
127 AGGCTCAACTCACATATCACAATACGAGTTGATTTTTTTGAAAAATATAAATTGAAAA-A-T-AC
* * * ** *
89620365 CTCAACTCTCGCAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
189 CTC-A---GCG-TGTACCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
89620428 AAAAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCATTTCTCGCAATAT
1 ----AAAACAGAAATTGAAAATAGCTCAGCA--TGAGCCAAGGCTCAACTCATTTCTCGCAATAT
* **
89620493 GAGTTGA----TTTTCGAAAACAG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGAC
60 GAGTTGATTTTTTTTTGAAAACAGAAAT-TGAAAAACAGAAGTTGAAAATACCTCGACATGTGAC
* **
89620553 CCGAGGCTCAACTCACATATCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAAAT
124 CCGAGGCTCAACTCACATATCACAATACGAGTTGATTTTTTTGAAAAATATAAATTG--AAAAAT
* * *
89620618 ACCTCAGTGTGTGATCTGAAGCTCGACTCACCTCTCGCAATATGAGTTGATTTTTTTG
187 ACCTCAGCGTGT-ACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* **
89620676 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAA-ACAGAAATTGAAAATAGCTCA--GCATGAGCCAAGGCTCAACTCATTTCTCGCAATATGAG
* * * * *
89620741 TTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAGTTGAAAATACCTCGGCGTGTGACCTG
63 TTGATTTTTTTTTGAAA-ACAGAAATTGAAAAACAGAAGTTGAAAATACCTCGACATGTGACCCG
* * * *
89620806 AGGCTCAACTCGCATCTCACAATACGAGTTGATTTTTTTGACAACA-A-AAATTG-AAATTACCT
127 AGGCTCAACTCACATATCACAATACGAGTTGATTTTTTTGA-AAAATATAAATTGAAAAATACCT
*
89620868 CAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
191 CAGCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** *
89620920 AATAACAGAAATTGAAAATACCTCAGCATG-TCTTGAGGCTCAACTCATTTCTCACAATATGAGT
1 AA-AACAGAAATTGAAAATAGCTCAGCATGAGC-CAAGGCTCAACTCATTTCTCGCAATATGAGT
89620984 TGATTTTTTTTTTTGAAAAACAGAAATTGAAAA
64 TGA--TTTTTTTTTG-AAAACAGAAATTGAAAA
89621017 TACCTCAGCA
Statistics
Matches: 505, Mismatches: 55, Indels: 59
0.82 0.09 0.10
Matches are distributed among these distances:
241 1 0.00
242 33 0.07
244 89 0.18
245 62 0.12
246 15 0.03
247 2 0.00
248 9 0.02
249 44 0.09
250 74 0.15
251 10 0.02
252 6 0.01
253 130 0.26
254 3 0.01
255 21 0.04
256 1 0.00
257 1 0.00
258 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (243 bp):
AAAACAGAAATTGAAAATAGCTCAGCATGAGCCAAGGCTCAACTCATTTCTCGCAATATGAGTTG
ATTTTTTTTTGAAAACAGAAATTGAAAAACAGAAGTTGAAAATACCTCGACATGTGACCCGAGGC
TCAACTCACATATCACAATACGAGTTGATTTTTTTGAAAAATATAAATTGAAAAATACCTCAGCG
TGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:89621025 original size:79 final size:75
Alignment explanation
Indices: 89620766--89621120 Score: 430
Period size: 79 Copynumber: 4.7 Consensus size: 75
89620756 AAGGCAGAAA
* * * * *** *
89620766 TTGAAAAACGGAAGTTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCATCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATAT
89620831 GAGTTGATTTTT
64 GAGTTGATTTTT
* * * * ** *
89620843 TTG-ACAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
89620907 GTTGATTTTT
66 GTTGATTTTT
* *
89620917 TTGAATAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
89620982 GTTGATTTTTTTTT
66 GTTGA----TTTTT
* * *
89620996 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
*
89621061 GTTGA--ATT
66 GTTGATTTTT
*
89621069 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
89621121 TGAACAGAAA
Statistics
Matches: 248, Mismatches: 25, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
72 46 0.19
73 5 0.02
74 40 0.16
75 58 0.23
76 24 0.10
77 3 0.01
79 72 0.29
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
GTTGATTTTT
Found at i:89621052 original size:154 final size:146
Alignment explanation
Indices: 89620770--89621120 Score: 441
Period size: 151 Copynumber: 2.3 Consensus size: 146
89620760 CAGAAATTGA
* * * * ***
89620770 AAAACGGAAGTTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCATCTCACAATACGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATACGAGT
* * * *
89620835 TGATTTTTTTGACAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
64 TGATTTTTTTGAAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTCTCGC
*
89620900 AATATGAGTTGATTTTTTTG
129 AATATGAGTTGA--ATTTTG
* *
89620920 AATAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTT
1 AA-AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGAGTT
* * **
89620985 GATTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTC
65 GA----TTTTTTTG-AAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTC
89621050 TCGCAATATGAGTTGAATTTTG
125 TCGCAATATGAGTTGAATTTTG
*
89621072 AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
89621121 TGAACAGAAA
Statistics
Matches: 175, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
149 31 0.18
150 2 0.01
151 69 0.39
152 7 0.04
153 8 0.05
154 58 0.33
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (146 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGAGTTG
ATTTTTTTGAAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTCTCGCAA
TATGAGTTGAATTTTG
Found at i:89621140 original size:49 final size:49
Alignment explanation
Indices: 89621074--89621169 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
89621064 GAATTTTGAA
*
89621074 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
89621123 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
89621170 CTCGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:89621342 original size:54 final size:55
Alignment explanation
Indices: 89621242--89621347 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
89621232 GAACCGAGGC
* * *
89621242 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTAGAAAAAGCAGAAATTGAAAAGGT
* * *
89621296 TCAACCCACCTCTCGCAATATGAGTTGATTCTAGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TAGAAAAAGCAGAAATTGAAAA
89621348 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 34 0.77
55 10 0.23
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTAGAAAAAGCAGAAATTGAAAAGGT
Found at i:89621415 original size:49 final size:49
Alignment explanation
Indices: 89621346--89621441 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 49
89621336 ATAAATTGAA
*
89621346 AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCATTTTG
* * *
89621395 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCATTT
89621442 CTCGGAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (49 bp):
AACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCATTTTG
Found at i:89621475 original size:72 final size:72
Alignment explanation
Indices: 89621395--89621619 Score: 283
Period size: 72 Copynumber: 3.0 Consensus size: 72
89621385 ACTCATTTTG
*
89621395 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGGAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
89621460 TTTTGAA
66 TTTTGAA
89621467 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
89621532 TTTTTTTTTGAA
66 -----TTTTGAA
* * * * ** *
89621544 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
89621608 TG-ATTTTGAA
62 TGAATTTTGAA
89621618 AA
1 AA
89621620 AGTAGAAATT
Statistics
Matches: 136, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
72 64 0.47
73 1 0.01
74 8 0.06
77 8 0.06
78 20 0.15
79 1 0.01
80 33 0.24
81 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:89621619 original size:272 final size:271
Alignment explanation
Indices: 89620848--89621619 Score: 791
Period size: 272 Copynumber: 2.8 Consensus size: 271
89620838 TTTTTTTGAC
* * * **
89620848 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
* * * *
89620913 TTTTTTGAATAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAAT
65 -ATTTTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
*
89620978 ATGAGTTGATTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGT---CTTGAGGCTC
128 ATGAGTTGA-ATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTC
* * * *
89621040 AACTAATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTT
191 AACTAA-TTCTCGCAATATGAGCTG-ATTTTGAAAACAGAAATTGAAAATACCTCAGCGTGACCT
89621105 GAGGCTCAACTCATTTTG
254 GAGGCTCAACTCATTTTG
89621123 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
* * * **
89621188 TTTTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACC
66 --------TTTTGAAA-ACAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCATT
* * * *
89621252 TCTCGCAATATGAGCTG-A-----TTTTGAAAAAGTAGAAATT-AAAAGGTTCAACC-CA-CCTC
119 TCTCGCAATATGAGTTGAATTTTTTTTTGAAAAA-CAGAAATTGAAAA---T--ACCTCAGCATG
* * * * **
89621308 TCGCAATATGA-G-T----TGATTCTAG-AACA--A-CAT-AAATTGAAAACAGAAATTGAAAAT
178 T-G-AA-CTGAGGCTCAACTAATTCTCGCAATATGAGC-TGATTTTGAAAACAGAAATTGAAAAT
89621362 ACCTCAGCGTGACCTGAGGCTCAACTCATTTTG
239 ACCTCAGCGTGACCTGAGGCTCAACTCATTTTG
*
89621395 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGGAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
*
89621460 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
66 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
* *
89621525 AGTTGAATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTC
131 AGTTGAATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAACTGAGGCTCAACT-
**
89621590 ACCTCTCGCAATATGAGCTGATTTTGAAAA
195 AATTCTCGCAATATGAGCTGATTTTGAAAA
89621620 AGTAGAAATT
Statistics
Matches: 400, Mismatches: 50, Indels: 97
0.73 0.09 0.18
Matches are distributed among these distances:
260 1 0.00
261 35 0.09
262 7 0.02
263 24 0.06
264 12 0.03
266 7 0.02
267 14 0.04
268 4 0.01
269 3 0.01
271 2 0.00
272 125 0.31
274 2 0.00
275 59 0.15
276 17 0.04
277 12 0.03
278 2 0.00
279 4 0.01
280 3 0.01
281 31 0.08
282 1 0.00
283 31 0.08
284 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (271 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGAATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAACTGAGGCTCAACTA
ATTCTCGCAATATGAGCTGATTTTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTC
AACTCATTTTG
Found at i:89621683 original size:54 final size:55
Alignment explanation
Indices: 89621583--89621688 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
89621573 GAACCGAGGC
* *
89621583 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
89621637 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
89621689 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:89621695 original size:13 final size:13
Alignment explanation
Indices: 89621668--89621701 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
89621658 GAGTTGATTC
*
89621668 TTGAACAACATAAA
1 TTGAA-AACAGAAA
89621682 TTGAAAACAGAAA
1 TTGAAAACAGAAA
89621695 TTGAAAA
1 TTGAAAA
89621702 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:89621749 original size:140 final size:140
Alignment explanation
Indices: 89621539--89622306 Score: 1421
Period size: 140 Copynumber: 5.5 Consensus size: 140
89621529 GAATTTTTTT
89621539 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
89621603 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
89621668 TTGAACAACATAAA
127 TTGAACAACGTAAA
89621682 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
**
89621747 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCATTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
89621812 ACAACGTAAA
131 ACAACGTAAA
*
89621822 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATAAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
**
89621887 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCATTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
89621952 ACAACGTAAA
131 ACAACGTAAA
89621962 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
89622027 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
89622092 ACAACGTAAA
131 ACAACGTAAA
* *
89622102 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCACAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
89622167 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
89622232 ACAACGTAAA
131 ACAACGTAAA
89622242 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
89622307 TTGAAATTAA
Statistics
Matches: 613, Mismatches: 11, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
139 3 0.00
140 581 0.95
142 23 0.04
143 6 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:89622103 original size:54 final size:54
Alignment explanation
Indices: 89622003--89622108 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
89621993 GACCTGAGGC
*
89622003 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
89622057 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
89622109 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:89622243 original size:54 final size:54
Alignment explanation
Indices: 89622144--89622248 Score: 142
Period size: 54 Copynumber: 1.9 Consensus size: 54
89622134 ACCTGAGGCA
*
89622144 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGTT
1 CAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGTT
* *
89622198 CAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 CAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
89622249 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
CAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGTT
Found at i:89622373 original size:72 final size:71
Alignment explanation
Indices: 89622239--89622404 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 71
89622229 TGAACAACGT
* * * * *
89622239 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACATCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
89622304 GAGTTG
66 GAGTTG
*
89622310 AAATTAAAACACAAAAATTGAAAATACATCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACATCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
89622375 TGAGTTG
65 TGAGTTG
**
89622382 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
89622405 GGCTTAACTC
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 12 0.14
72 69 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACATCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:89622499 original size:122 final size:124
Alignment explanation
Indices: 89622279--89622525 Score: 356
Period size: 122 Copynumber: 2.0 Consensus size: 124
89622269 GCGTGACCTG
* * *
89622279 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACATCAGCG
1 AGGCTCAACTCACCTCTCACAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACATCAGCG
89622344 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * * *
89622404 AGGCTTAACTCACCTCTCACAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCACAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACATCAGCG
* * * *
89622466 TGCCCCGAGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTGAAAATAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
89622525 A
1 A
89622526 ATACCTCAAC
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
121 15 0.14
122 61 0.55
123 7 0.06
124 1 0.01
125 26 0.24
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCACAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACATCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:89622517 original size:69 final size:71
Alignment explanation
Indices: 89622404--89622578 Score: 187
Period size: 71 Copynumber: 2.5 Consensus size: 71
89622394 AAAAATTAAA
* * * * * *
89622404 AGGCTTAACTCACCTCTCACAATATGAG-TCAATTTAAAACAT-AAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAAACTAAAAATACCTCAACGT
89622467 GCCCCG
66 GCCCCG
* * *
89622473 AGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTGAAA-ATAAAAATTAAAAATACCTCAACG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAT-AAAACTAAAAATACCTCAACG
* **
89622537 TGTCTTG
65 TGCCCCG
*
89622544 AGGCTCAACCCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
89622579 CCCCTGAAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
69 26 0.30
70 9 0.10
71 53 0.60
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (71 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAAACTAAAAATACCTCAACGT
GCCCCG
Found at i:89632681 original size:19 final size:20
Alignment explanation
Indices: 89632635--89632682 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
89632625 CAACAATAAT
*
89632635 ATAAAATA-ATGATATGTGC
1 ATAAAATATATGATATGTAC
89632654 A-AAATATATAT-ATATGTAC
1 ATAAA-ATATATGATATGTAC
89632673 ATAAAATATA
1 ATAAAATATA
89632683 CACTAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.12
19 17 0.68
20 5 0.20
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.33
Consensus pattern (20 bp):
ATAAAATATATGATATGTAC
Found at i:89633357 original size:21 final size:21
Alignment explanation
Indices: 89633331--89633377 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
89633321 GGTTTCTTGG
89633331 TTTTTTTGGGGGGGTTAGGTT
1 TTTTTTTGGGGGGGTTAGGTT
****
89633352 TTTTTTTTTTTGGGTTAGGTT
1 TTTTTTTGGGGGGGTTAGGTT
89633373 TTTTT
1 TTTTT
89633378 AGGGGGGCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.00, G:0.30, T:0.66
Consensus pattern (21 bp):
TTTTTTTGGGGGGGTTAGGTT
Found at i:89635214 original size:14 final size:14
Alignment explanation
Indices: 89635195--89635243 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
89635185 ATTACATTTG
89635195 TAAAAAAAATCCAA
1 TAAAAAAAATCCAA
89635209 TAAAAAAAGA---AA
1 TAAAAAAA-ATCCAA
*
89635221 GACAAAAAAATCCAA
1 TA-AAAAAAATCCAA
89635236 TAAAAAAA
1 TAAAAAAA
89635244 GAAAGACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
12 4 0.14
13 6 0.21
14 14 0.50
15 4 0.14
ACGTcount: A:0.76, C:0.10, G:0.04, T:0.10
Consensus pattern (14 bp):
TAAAAAAAATCCAA
Found at i:89635235 original size:27 final size:27
Alignment explanation
Indices: 89635197--89635253 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
89635187 TACATTTGTA
89635197 AAAAAAATCCAATAAAAAAAGAAAGAC
1 AAAAAAATCCAATAAAAAAAGAAAGAC
89635224 AAAAAAATCCAATAAAAAAAGAAAGAC
1 AAAAAAATCCAATAAAAAAAGAAAGAC
89635251 AAA
1 AAA
89635254 CTTACACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.75, C:0.11, G:0.07, T:0.07
Consensus pattern (27 bp):
AAAAAAATCCAATAAAAAAAGAAAGAC
Found at i:89637365 original size:16 final size:16
Alignment explanation
Indices: 89637346--89637381 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
89637336 CTTTATATAC
89637346 TTTATGTATTATTTAT
1 TTTATGTATTATTTAT
* *
89637362 TTTATTTTTTATTTAT
1 TTTATGTATTATTTAT
89637378 TTTA
1 TTTA
89637382 CGATCTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTATGTATTATTTAT
Found at i:89637716 original size:19 final size:19
Alignment explanation
Indices: 89637694--89637731 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
89637684 ATGAGATTGC
*
89637694 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
89637713 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
89637732 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:89639165 original size:100 final size:100
Alignment explanation
Indices: 89638958--89639244 Score: 450
Period size: 100 Copynumber: 2.9 Consensus size: 100
89638948 GAGAAAATAA
***** *
89638958 AATCTTGGGTCGCGAACAGTCCCATAATTTAAAAAAAAAAAAAGCCTAATCTAATACTTTAAAAA
1 AATCTTGGGTCGCGAACAGTCCCATAATTTTTTTTAAAAAAGAGCCTAATCTAATACTTTAAAAA
* *
89639023 AAAGCCA-TCTTTTGGAAATTTAACCATTCTATAG
66 AAAGACATTTTTTTGGAAATTTAACCATTCTATAG
* *
89639057 AATCTTGGGTCGTGAACAGTCCCATAATTTTTTTTAAAAAAGAGCCTAATCTAATACTTAAAAAA
1 AATCTTGGGTCGCGAACAGTCCCATAATTTTTTTTAAAAAAGAGCCTAATCTAATACTTTAAAAA
**
89639122 AAAGACATTTTTTTAAAAATTTAACCATTCTATAG
66 AAAGACATTTTTTTGGAAATTTAACCATTCTATAG
*
89639157 AATCTTGGGTCGCGAACAGTCCCATAAATTTTTTTAAAAAAGAGCCTAATCTAATACTTTAAAAA
1 AATCTTGGGTCGCGAACAGTCCCATAATTTTTTTTAAAAAAGAGCCTAATCTAATACTTTAAAAA
89639222 AAAGACATTTTTTTGGAAATTTA
66 AAAGACATTTTTTTGGAAATTTA
89639245 CCCACTCTTT
Statistics
Matches: 170, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
99 63 0.37
100 107 0.63
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.32
Consensus pattern (100 bp):
AATCTTGGGTCGCGAACAGTCCCATAATTTTTTTTAAAAAAGAGCCTAATCTAATACTTTAAAAA
AAAGACATTTTTTTGGAAATTTAACCATTCTATAG
Found at i:89640222 original size:23 final size:24
Alignment explanation
Indices: 89640194--89640245 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
89640184 TCACGCCAAC
89640194 AAAAATTAAAAATAAATA-TTTAA
1 AAAAATTAAAAATAAATATTTTAA
*
89640217 AAAAA-TAAAAATAAATATTTTTA
1 AAAAATTAAAAATAAATATTTTAA
89640240 AAAAAT
1 AAAAAT
89640246 ATTCATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAAATTAAAAATAAATATTTTAA
Found at i:89640225 original size:22 final size:23
Alignment explanation
Indices: 89640194--89640246 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
89640184 TCACGCCAAC
*
89640194 AAAAATTAAAAATAAATA-TTTA
1 AAAAAATAAAAATAAATATTTTA
*
89640216 AAAAAATAAAAATAAATATTTTT
1 AAAAAATAAAAATAAATATTTTA
89640239 AAAAAATA
1 AAAAAATA
89640247 TTCATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAAAATAAAAATAAATATTTTA
Found at i:89640373 original size:20 final size:20
Alignment explanation
Indices: 89640338--89640391 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
89640328 GATATATTTC
*
89640338 AAAAAAAT-TTATAAATTTGT
1 AAAAAAATATTA-AAATTTAT
* *
89640358 AAAATATTATTAAAATTTAT
1 AAAAAAATATTAAAATTTAT
89640378 AAAAAAATATTAAA
1 AAAAAAATATTAAA
89640392 TAAAATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAAAAATATTAAAATTTAT
Found at i:89640403 original size:24 final size:23
Alignment explanation
Indices: 89640358--89640419 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
89640348 ATAAATTTGT
* *
89640358 AAAATATTATTAAAATTTATAAA
1 AAAATATTAATAAAATTAATAAA
89640381 AAAATATTAAATAAAATTAATAAA
1 AAAATATT-AATAAAATTAATAAA
89640405 TTAAAA-ATTAATAAA
1 --AAAATATTAATAAA
89640420 TCCATTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 8 0.24
24 19 0.56
25 3 0.09
26 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAATATTAATAAAATTAATAAA
Found at i:89641900 original size:29 final size:27
Alignment explanation
Indices: 89641860--89641917 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 27
89641850 TTTGCTATGA
*
89641860 TTTTATTTAATTAAATAATTAATAAAC
1 TTTTATTTAATTAAATAATTAACAAAC
* *
89641887 TTTTAATTGTAATTTAATAGTTAACAAAC
1 TTTT-ATT-TAATTAAATAATTAACAAAC
89641916 TT
1 TT
89641918 GCTTTGATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.15
28 3 0.12
29 19 0.73
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (27 bp):
TTTTATTTAATTAAATAATTAACAAAC
Found at i:89642814 original size:20 final size:21
Alignment explanation
Indices: 89642773--89642814 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
89642763 TGAGGTACTT
*
89642773 ATAAAACAATTTTTTTGGTAA
1 ATAAAACAATTTTTTTGATAA
89642794 ATAAAAC-ATTTCTTTT-ATAA
1 ATAAAACAATTT-TTTTGATAA
89642814 A
1 A
89642815 ACAATGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (21 bp):
ATAAAACAATTTTTTTGATAA
Found at i:89643399 original size:23 final size:23
Alignment explanation
Indices: 89643373--89643466 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
89643363 AAGTTAGAAG
89643373 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
89643396 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
89643419 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
89643442 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
89643465 AG
1 AG
89643467 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:89647906 original size:23 final size:23
Alignment explanation
Indices: 89647880--89647973 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
89647870 AAGTTAGAAG
89647880 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
89647903 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
89647926 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
89647949 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
89647972 AG
1 AG
89647974 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:89653651 original size:15 final size:15
Alignment explanation
Indices: 89653631--89653660 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
89653621 CTCCTTATCT
89653631 GATAGTGGTCGAAGA
1 GATAGTGGTCGAAGA
89653646 GATAGTGGTCGAAGA
1 GATAGTGGTCGAAGA
89653661 CTAAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.40, T:0.20
Consensus pattern (15 bp):
GATAGTGGTCGAAGA
Found at i:89663713 original size:45 final size:45
Alignment explanation
Indices: 89663663--89663752 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
89663653 TCGATTTTCT
89663663 CATTTCATTTATTCACCCTATTAACAAAACTTGGATCTTGACGAA
1 CATTTCATTTATTCACCCTATTAACAAAACTTGGATCTTGACGAA
*
89663708 CATTTCATTTATTCACTCTATTAACAAAACTTGGATCTTGACGAA
1 CATTTCATTTATTCACCCTATTAACAAAACTTGGATCTTGACGAA
89663753 TACACGAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (45 bp):
CATTTCATTTATTCACCCTATTAACAAAACTTGGATCTTGACGAA
Found at i:89663787 original size:24 final size:23
Alignment explanation
Indices: 89663760--89663875 Score: 92
Period size: 23 Copynumber: 5.0 Consensus size: 23
89663750 GAATACACGA
*
89663760 ATTCTAACCAAACACACTAGAATG
1 ATTCT-ACCAAACACACCAGAATG
89663784 ATTCTACCAAACACACCAGAATG
1 ATTCTACCAAACACACCAGAATG
* * * **
89663807 A-TCCATCCAAACATACCAAAACA
1 ATTCTA-CCAAACACACCAGAATG
* * *
89663830 ATCCTCCCAAACACACCAAAAT-
1 ATTCTACCAAACACACCAGAATG
* *
89663852 AATCCACCCAAACACACCAGAATG
1 ATTCTA-CCAAACACACCAGAATG
89663876 GCACTAAGTG
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
22 5 0.07
23 61 0.85
24 6 0.08
ACGTcount: A:0.47, C:0.34, G:0.05, T:0.15
Consensus pattern (23 bp):
ATTCTACCAAACACACCAGAATG
Found at i:89664071 original size:24 final size:23
Alignment explanation
Indices: 89664023--89664071 Score: 55
Period size: 24 Copynumber: 2.0 Consensus size: 23
89664013 TATTCAATTT
*
89664023 TCATATTTCAATTCCATCACTTTC
1 TCATATTTCAATTCAATCAC-TTC
89664047 TCATATTTTCAATTCAAATCA-TTC
1 TCATA-TTTCAATTC-AATCACTTC
89664071 T
1 T
89664072 TAATTTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 9 0.41
25 9 0.41
26 4 0.18
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (23 bp):
TCATATTTCAATTCAATCACTTC
Found at i:89665194 original size:20 final size:22
Alignment explanation
Indices: 89665161--89665211 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
89665151 TATAATAACT
*
89665161 TAATTTAATAATATAT-TT-TA
1 TAATTAAATAATATATATTATA
*
89665181 TAATTAAATCATATATAATTATA
1 TAATTAAATAATATAT-ATTATA
89665204 TAATTAAA
1 TAATTAAA
89665212 ATCTAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 14 0.54
22 2 0.08
23 10 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATTAAATAATATATATTATA
Found at i:89671241 original size:23 final size:23
Alignment explanation
Indices: 89671211--89671272 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
89671201 TGGTTAGAGG
*
89671211 CCAAACACACCAAAATAATCCTC
1 CCAAACACACCAAAATAATCCAC
*
89671234 CCAAACACACCAGAATAATCCAC
1 CCAAACACACCAAAATAATCCAC
*
89671257 CCAAATACACCAAAAT
1 CCAAACACACCAAAAT
89671273 GGCAGTAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.50, C:0.37, G:0.02, T:0.11
Consensus pattern (23 bp):
CCAAACACACCAAAATAATCCAC
Found at i:89671469 original size:24 final size:24
Alignment explanation
Indices: 89671421--89671475 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
89671411 TATTCAATTT
*
89671421 TCATA-TTTCAATTCCATCACTTTC
1 TCATATTTTCAATTCAATCAC-TTC
89671445 TCATATTTTCAATTCAAATCA-TTC
1 TCATATTTTCAATTC-AATCACTTC
89671469 TCA-ATTT
1 TCATATTT
89671476 AATCACAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.14
24 11 0.39
25 9 0.32
26 4 0.14
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (24 bp):
TCATATTTTCAATTCAATCACTTC
Found at i:89672665 original size:20 final size:22
Alignment explanation
Indices: 89672632--89672682 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
89672622 TATAATAACT
*
89672632 TAATTTAATAATATAT-TT-TA
1 TAATTAAATAATATATATTATA
*
89672652 TAATTAAATCATATATAATTATA
1 TAATTAAATAATATAT-ATTATA
89672675 TAATTAAA
1 TAATTAAA
89672683 ATCTAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 14 0.54
22 2 0.08
23 10 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATTAAATAATATATATTATA
Found at i:89676702 original size:18 final size:18
Alignment explanation
Indices: 89676678--89676719 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
89676668 TTTATTTTTC
89676678 TATAAATAATTTTATGAAA
1 TATAAATAA-TTTATGAAA
*
89676697 -ATAAATTATTTATGAAA
1 TATAAATAATTTATGAAA
89676714 TATAAA
1 TATAAA
89676720 ATTTATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
TATAAATAATTTATGAAA
Found at i:89676710 original size:17 final size:20
Alignment explanation
Indices: 89676688--89676729 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 20
89676678 TATAAATAAT
89676688 TTTATGAAA-AT-AAA-TTA
1 TTTATGAAATATAAAATTTA
89676705 TTTATGAAATATAAAATTTA
1 TTTATGAAATATAAAATTTA
89676725 TTTAT
1 TTTAT
89676730 TTTATATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 2 0.09
19 3 0.14
20 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
TTTATGAAATATAAAATTTA
Found at i:89680937 original size:43 final size:43
Alignment explanation
Indices: 89680876--89680961 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
89680866 ATTCTGAAAG
* *
89680876 AAAGAATCACGTATAAGAAGAAGCTAAAAACCAGAACATTTAT
1 AAAGAATCACGTATAAGAACAAGCCAAAAACCAGAACATTTAT
89680919 AAAGAATCACGTATAAGAACAAGCCAAAAACCAGAACATTTAT
1 AAAGAATCACGTATAAGAACAAGCCAAAAACCAGAACATTTAT
89680962 GCTATTACCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.17
Consensus pattern (43 bp):
AAAGAATCACGTATAAGAACAAGCCAAAAACCAGAACATTTAT
Found at i:89689254 original size:44 final size:44
Alignment explanation
Indices: 89689204--89689290 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
89689194 ATATTTGGGG
*
89689204 CATATAAACAAATGTACTACGCATTCTATCAAACATGTATTTTC
1 CATATAAACAAATGTAATACGCATTCTATCAAACATGTATTTTC
*
89689248 CATATAAGCAAATGTAATACGCATTCTATCAAACATGTATTTT
1 CATATAAACAAATGTAATACGCATTCTATCAAACATGTATTTT
89689291 GGGAAAAGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (44 bp):
CATATAAACAAATGTAATACGCATTCTATCAAACATGTATTTTC
Found at i:89695228 original size:20 final size:19
Alignment explanation
Indices: 89695199--89695253 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
89695189 GAAGATAGGG
*
89695199 GGACATGCCCGTGTGGCTT
1 GGACATGCCCGTGTGGCCT
*
89695218 AGGACACGCCCGTGTGGCCT
1 -GGACATGCCCGTGTGGCCT
89695238 GGAACATGCCCGTGTG
1 GG-ACATGCCCGTGTG
89695254 CTGCAGCCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.20
Consensus pattern (19 bp):
GGACATGCCCGTGTGGCCT
Found at i:89695527 original size:21 final size:17
Alignment explanation
Indices: 89695485--89695528 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
89695475 TACCTAAAAA
89695485 ATTTCAACAAAACAATT
1 ATTTCAACAAAACAATT
89695502 ATTTCAAGCCAAAACAAGTAT
1 ATTTCAA--CAAAACAA-T-T
89695523 ATTTCA
1 ATTTCA
89695529 TTTTCCAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.30
19 8 0.35
20 1 0.04
21 7 0.30
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.30
Consensus pattern (17 bp):
ATTTCAACAAAACAATT
Found at i:89696211 original size:52 final size:51
Alignment explanation
Indices: 89696055--89696214 Score: 144
Period size: 52 Copynumber: 3.1 Consensus size: 51
89696045 CGGATCACAT
* * * *
89696055 ATCATACCGATGCCAT-GTCCCAGATATGATCTTATACTGAATCATATTATTAC
1 ATCATACCGATGCCATAG-CCCAGCTATGGTCTTATAC-GAAACATA-TATCAC
* * * **
89696108 ATCACACCGATGCCATAGTCCAGCTATAGTCTTATACGAGAACGCGA-ATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGA-AAC-ATATATCAC
** *
89696160 ATTGTACCGATGCCATAGCCCGGCTATGGTCTTATACAGAAACATATATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATAC-GAAACATATATCAC
89696212 ATC
1 ATC
89696215 TTTTCTGTCA
Statistics
Matches: 84, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
51 1 0.01
52 47 0.56
53 34 0.40
54 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (51 bp):
ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGAAACATATATCAC
Found at i:89702357 original size:40 final size:40
Alignment explanation
Indices: 89702274--89702494 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
89702264 ACCCAAGTAT
** * *
89702274 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
89702312 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
89702352 CTTCGGGACTTATCCCGGATATAGTCGCTAACACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
89702392 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
89702432 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
89702473 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
89702495 CATTCGAATA
Statistics
Matches: 147, Mismatches: 32, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 92 0.63
41 28 0.19
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:89706033 original size:38 final size:38
Alignment explanation
Indices: 89705986--89706102 Score: 180
Period size: 38 Copynumber: 3.0 Consensus size: 38
89705976 AAACCCAAAC
*
89705986 ATAACACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
89706024 ATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
89706062 ATAATACCAGCATGAAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGAT
89706102 A
1 A
89706103 CACATCAAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 59 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:89712535 original size:23 final size:22
Alignment explanation
Indices: 89712483--89712535 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
89712473 TCCACGTCTT
*
89712483 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
89712505 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
89712528 TTTCTTTT
1 TTTCTTTT
89712536 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:89724848 original size:6 final size:6
Alignment explanation
Indices: 89724837--89724862 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
89724827 TTTACCCCAG
89724837 TTCCTC TTCCTC TTCCTC TTCCTC TT
1 TTCCTC TTCCTC TTCCTC TTCCTC TT
89724863 TCATATCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (6 bp):
TTCCTC
Found at i:89727885 original size:14 final size:15
Alignment explanation
Indices: 89727844--89727890 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
89727834 GAGATTCTTA
89727844 TTTGAATTTGTTTAC
1 TTTGAATTTGTTTAC
**
89727859 TTTGTCTTT-TTTA-
1 TTTGAATTTGTTTAC
89727872 TTTGAATTTGTTTAC
1 TTTGAATTTGTTTAC
89727887 TTTG
1 TTTG
89727891 TGTTTGATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.27
14 8 0.31
15 11 0.42
ACGTcount: A:0.15, C:0.06, G:0.13, T:0.66
Consensus pattern (15 bp):
TTTGAATTTGTTTAC
Found at i:89727896 original size:15 final size:15
Alignment explanation
Indices: 89727844--89727901 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
89727834 GAGATTCTTA
*
89727844 TTTGAATTTGTTTAC
1 TTTGTATTTGTTTAC
*
89727859 TTTGTCTTT-TTTA-
1 TTTGTATTTGTTTAC
*
89727872 TTTGAATTTGTTTAC
1 TTTGTATTTGTTTAC
* *
89727887 TTTGTGTTTGATTAC
1 TTTGTATTTGTTTAC
89727902 AAAATAATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
13 7 0.21
14 8 0.24
15 19 0.56
ACGTcount: A:0.16, C:0.07, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTGTATTTGTTTAC
Found at i:89733871 original size:44 final size:44
Alignment explanation
Indices: 89733813--89734437 Score: 897
Period size: 44 Copynumber: 14.4 Consensus size: 44
89733803 CCCCGTCTAA
* * * * ****
89733813 TACAGAGACGCCAAATCTGTCATCTTTGATCTGCCCTCTGATAA
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * **
89733857 TACAGAGACGCCAAATCCGTTATCTTCAATCTGCTCTCTACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
89733901 TACAGAGATGCCAAATCTGTTATATTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
89733945 TACAGAGACGCCAAATCCGTTATCTTCTATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
89733989 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* **
89734033 TACAGAGACGTCAAATCTGTTATCTTCGATCTGCTCTCTACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
89734077 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
89734121 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
89734161 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
89734205 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
89734249 TACAGAGATGCCAAATC----ATCTTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
89734289 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
89734333 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
89734377 TACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
89734421 TACAGAGATGCCAAATC
1 TACAGAGACGCCAAATC
89734438 ATCTTCGATG
Statistics
Matches: 520, Mismatches: 53, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
40 75 0.14
44 445 0.86
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:89734228 original size:172 final size:173
Alignment explanation
Indices: 89733813--89734437 Score: 929
Period size: 172 Copynumber: 3.6 Consensus size: 173
89733803 CCCCGTCTAA
* * * * * *** *
89733813 TACAGAGACGCCAAATCTGTCATCTTTGATCTGCCCTCTGA-TAATACAGAGACGCCAAATCCGT
1 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTC-CACCGCTACAGAGACGCCAAATCTGT
* * *
89733877 TATCTTCAATCTGCTCTCTACCGCTACAGAGATGCCAAATCTGTTATATTTGATCTGCTCTCCGC
65 TATCTTCGATCTGCTCTCCACCGCTACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCCGC
* *
89733942 CGCTACAGAGACGCCAAATCCGTTATCTTCTATCTGCTCTCCGCCGC
130 CGCTACAGAGACGCCAAAT-C--TATCTTCGATCTGCTCTCTGCCGC
* *
89733989 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGTCAAATCTGTT
1 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTT
* *
89734054 ATCTTCGATCTGCTCTCTACCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
66 ATCTTCGATCTGCTCTCCACCGCTACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCCGCC
*
89734119 GCTACAGAGATGCCAAATC-ATCTTCGATCTGCTCTCTGCCGC
131 GCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCTGCCGC
89734161 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTT
*
89734226 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATCTTTGATCTGCTCTCCGCC
66 ATCTTCGATCTGCTCTCCACCGCTACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCCGCC
*
89734287 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCGC
131 GCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCTGCCGC
* *
89734333 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACACCAAATCTGTT
1 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTT
*
89734398 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC
66 ATCTTCGATCTGCTCTCCACCGCTACAGAGATGCCAAATC
89734438 ATCTTCGATG
Statistics
Matches: 418, Mismatches: 26, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
168 38 0.09
172 247 0.59
175 1 0.00
176 132 0.32
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (173 bp):
TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTT
ATCTTCGATCTGCTCTCCACCGCTACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCCGCC
GCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCTGCCGC
Found at i:89735723 original size:47 final size:47
Alignment explanation
Indices: 89735659--89735769 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
89735649 GACATTGAGT
* *
89735659 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * * *
89735706 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCTGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
89735753 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
89735770 CTTATCCCGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
47 50 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:89742937 original size:47 final size:47
Alignment explanation
Indices: 89742873--89742983 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
89742863 GACATTGAGT
* *
89742873 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
89742920 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
89742967 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
89742984 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:89744164 original size:44 final size:44
Alignment explanation
Indices: 89744114--89744966 Score: 1179
Period size: 44 Copynumber: 19.8 Consensus size: 44
89744104 GGACGTTACA
* *
89744114 TTCGATCTCCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
89744158 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
89744202 TTCGATCTGCTCTCCGCTGCTACAGAGACGTCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
89744246 TTCGATCTGCTCTCCGCCACTACAGAGAAGCCAAATC----ATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
** * * *
89744286 TTCGATCTGCTCTCTACCGCTACAGAGTCGCGAAATATGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * *
89744330 TTCGATCTGCTCTCCGCCGCTACAGAGACGTCAAATCTTTTATT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
89744374 TTTGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
*
89744418 TTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
89744458 TTTGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
89744502 TTAGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
89744542 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * *
89744586 TTCGATCTGCTCCCCACCGCTACAGAGATGCCAAATC----ATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * * *
89744626 TTCGATCTGCTCTTCGCTGCTACAGATACGACAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
89744670 TTTGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
89744714 TTCGATCTGCTCTCCGCTGCTACAGAGATGCCAAATC----ATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * * *
89744754 TTCGATCTACTCTCCGCCGCTACAGAGAAGCCAAATCTGCTATT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
89744798 TTCGATCTGCTCTCCGTCGCTACAGAGACGCTAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
*
89744842 TTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * *
89744886 TTCGATCTGCTTTCCGCCGCTACAGGGACACCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
*
89744930 TTCGATCTGCTCTCCGCTGCTACAGAGACGCCAAATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC
89744967 ATCTTAGATA
Statistics
Matches: 710, Mismatches: 79, Indels: 40
0.86 0.10 0.05
Matches are distributed among these distances:
40 178 0.25
44 532 0.75
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.28
Consensus pattern (44 bp):
TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
Found at i:89744340 original size:84 final size:85
Alignment explanation
Indices: 89744114--89744971 Score: 1158
Period size: 84 Copynumber: 10.0 Consensus size: 85
89744104 GGACGTTACA
* *
89744114 TTCGATCTCCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
89744179 ACAGAGACGCCAAATCTGTTATC
66 ACAGAGACGCCAAATC---TATC
* * *
89744202 TTCGATCTGCTCTCCGCTGCTACAGAGACGTCAAATCTGTTATCTTCGATCTGCTCTCCGCCACT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
89744267 ACAGAGAAGCCAAATC-ATC
66 ACAGAGACGCCAAATCTATC
** * * *
89744286 TTCGATCTGCTCTCTACCGCTACAGAGTCGCGAAATATGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
* *
89744351 ACAGAGACGTCAAATCTTTTATT
66 ACAGAGACGCCAAATC---TATC
* *
89744374 TTTGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
89744439 ACAGAGATGCCAAATC-ATC
66 ACAGAGACGCCAAATCTATC
* * *
89744458 TTTGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTAGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
89744523 ACAGAGATGCCAAATC-ATC
66 ACAGAGACGCCAAATCTATC
* *
89744542 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCACCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
89744607 ACAGAGATGCCAAATC-ATC
66 ACAGAGACGCCAAATCTATC
* * * * *
89744626 TTCGATCTGCTCTTCGCTGCTACAGATACGACAAATCTGTTATCTTTGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
89744691 ACAGAGACGCCAAATCTGCTATC
66 ACAGAGACGCCAAA--T-CTATC
* * *
89744714 TTCGATCTGCTCTCCGCTGCTACAGAGATGCCAAATC----ATCTTCGATCTACTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
* *
89744775 ACAGAGAAGCCAAATCTGCTATT
66 ACAGAGACGCCAAA--T-CTATC
* * *
89744798 TTCGATCTGCTCTCCGTCGCTACAGAGACGCTAAATCTGTTATCTTCGATCTACTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
89744863 ACAGAGACGCCAAATCTGTTATC
66 ACAGAGACGCCAAATC---TATC
* * * *
89744886 TTCGATCTGCTTTCCGCCGCTACAGGGACACCAAATCTGTTATCTTCGATCTGCTCTCCGCTGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
89744951 ACAGAGACGCCAAATC-ATC
66 ACAGAGACGCCAAATCTATC
89744970 TT
1 TT
89744972 AGATATCTTC
Statistics
Matches: 693, Mismatches: 62, Indels: 34
0.88 0.08 0.04
Matches are distributed among these distances:
84 388 0.56
85 1 0.00
86 2 0.00
87 1 0.00
88 301 0.43
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (85 bp):
TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
ACAGAGACGCCAAATCTATC
Found at i:89744346 original size:128 final size:129
Alignment explanation
Indices: 89744114--89744966 Score: 1088
Period size: 128 Copynumber: 6.6 Consensus size: 129
89744104 GGACGTTACA
* *
89744114 TTCGATCTCCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGAAGCCAAATC---TATCTTCGATCTGCTCTCCGCCGCT
* *
89744179 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGTCAAATCTGTTA
63 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
89744244 TC
128 TC
* **
89744246 TTCGATCTGCTCTCCGCCACTACAGAGAAGCCAAATC-ATCTTCGATCTGCTCTCTACCGCTACA
1 TTCGATCTGCTCTCCGCCGCTACAGAGAAGCCAAATCTATCTTCGATCTGCTCTCCGCCGCTACA
* * * * * *
89744310 GAGTCGCGAAATATGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGTCAAATCTTTTATT
66 GAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * *
89744374 TTTGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGAAGCCAAATC---TATCTTCGATCTGCTCTCCGCCGCT
* * *
89744439 ACAGAGATGCCAAATC----ATCTTTGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTA
63 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
89744500 TC
128 TC
* *
89744502 TTAGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC-ATCTTCGATCTGCTCTCCGCCGCTACA
1 TTCGATCTGCTCTCCGCCGCTACAGAGAAGCCAAATCTATCTTCGATCTGCTCTCCGCCGCTACA
* * *
89744566 GAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCACCGCTACAGAGATGCCAAATC----ATC
66 GAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * * * * *
89744626 TTCGATCTGCTCTTCGCTGCTACAGATACGACAAATCTGTTATCTTTGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGAAGCCAAATC---TATCTTCGATCTGCTCTCCGCCGCT
* * *
89744691 ACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCTGCTACAGAGATGCCAAATC----A
63 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
89744752 TC
128 TC
* * *
89744754 TTCGATCTACTCTCCGCCGCTACAGAGAAGCCAAATCTGCTATTTTCGATCTGCTCTCCGTCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGAAGCCAAA--T-CTATCTTCGATCTGCTCTCCGCCGCT
* *
89744819 ACAGAGACGCTAAATCTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
63 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
89744884 TC
128 TC
* * *
89744886 TTCGATCTGCTTTCCGCCGCTACAGGGACA-CCAAATCTGTTATCTTCGATCTGCTCTCCGCTGC
1 TTCGATCTGCTCTCCGCCGCTACAGAGA-AGCCAAATC---TATCTTCGATCTGCTCTCCGCCGC
89744950 TACAGAGACGCCAAATC
62 TACAGAGACGCCAAATC
89744967 ATCTTAGATA
Statistics
Matches: 631, Mismatches: 67, Indels: 46
0.85 0.09 0.06
Matches are distributed among these distances:
124 73 0.12
128 415 0.66
129 1 0.00
130 2 0.00
131 1 0.00
132 138 0.22
133 1 0.00
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.28
Consensus pattern (129 bp):
TTCGATCTGCTCTCCGCCGCTACAGAGAAGCCAAATCTATCTTCGATCTGCTCTCCGCCGCTACA
GAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
Found at i:89750708 original size:132 final size:132
Alignment explanation
Indices: 89750464--89750710 Score: 341
Period size: 132 Copynumber: 1.9 Consensus size: 132
89750454 TGGAAGATAC
* ** * * *
89750464 GAGTGAAATTCCAAAGAGACATTCGATTATTTTGAACAAACGGGAGATTGCAACCCATCACGATA
1 GAGTGAAATTCCAAAGAGACATTCGACTATTTTGAACAAACAAGAAATTGCAACCCAGCACAATA
* * ** *
89750529 GGGCACTATTCCCCGAATTGCCAAACATCGAACATTTCTTTCATTTTAAAAAGTTTTTAGAAAAT
66 GGGCACGATTCCCCAAATTGCCAAACATCGAACATCGCCTTCATTTTAAAAAGTTTTTAGAAAAT
89750594 GT
131 GT
** * *
89750596 GAGTGAAATTCTGAAGAGATATTCGACTATTTTGAGCAAACAAGAAATTGCAACCCAGCACAATA
1 GAGTGAAATTCCAAAGAGACATTCGACTATTTTGAACAAACAAGAAATTGCAACCCAGCACAATA
* *
89750661 GGGCACGATTCCCCAAATTGCCAAACATCGAATATCGCCTTCGTTTTAAA
66 GGGCACGATTCCCCAAATTGCCAAACATCGAACATCGCCTTCATTTTAAA
89750711 GAACAAATAA
Statistics
Matches: 98, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
132 98 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (132 bp):
GAGTGAAATTCCAAAGAGACATTCGACTATTTTGAACAAACAAGAAATTGCAACCCAGCACAATA
GGGCACGATTCCCCAAATTGCCAAACATCGAACATCGCCTTCATTTTAAAAAGTTTTTAGAAAAT
GT
Found at i:89751450 original size:3 final size:3
Alignment explanation
Indices: 89751444--89751477 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
89751434 AAAAATGATG
89751444 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
89751478 AAGTAATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:89751768 original size:16 final size:15
Alignment explanation
Indices: 89751742--89751781 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
89751732 TGGTATCAAG
*
89751742 ATAAAAATAATAGTA
1 ATAAAAATAATAGAA
89751757 ATAAATAATAATAGAA
1 ATAAA-AATAATAGAA
89751773 ATAAAAATA
1 ATAAAAATA
89751782 CCAAGGACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
ATAAAAATAATAGAA
Found at i:89751845 original size:13 final size:13
Alignment explanation
Indices: 89751823--89751852 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
89751813 AATTAAATAT
*
89751823 AAAATGAATACAC
1 AAAATAAATACAC
89751836 AAAATAAATACAC
1 AAAATAAATACAC
89751849 AAAA
1 AAAA
89751853 ATGAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.13, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAATAAATACAC
Found at i:89753333 original size:39 final size:39
Alignment explanation
Indices: 89753279--89753371 Score: 168
Period size: 39 Copynumber: 2.4 Consensus size: 39
89753269 GCATGATACT
89753279 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
89753318 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
89753357 TGGAAATATATCCGG
1 TGGAAACATATCCGG
89753372 GCTTAAAGTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
Found at i:89753403 original size:40 final size:39
Alignment explanation
Indices: 89753279--89753403 Score: 142
Period size: 39 Copynumber: 3.2 Consensus size: 39
89753269 GCATGATACT
* * * *
89753279 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGTGC
* * *
89753318 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
1 TGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGTGC
* * *
89753357 TGGAAATATATCCGGGCTTAAAGTCCCGTAGGCTTTGTGC
1 TGGAAATATATCCGGACTTAAAGT-CCGCAGGCTATGTGC
*
89753397 TAGAAAT
1 TGGAAAT
89753404 TGGACTCGGG
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 58 0.75
40 19 0.25
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGTGC
Found at i:89756784 original size:25 final size:25
Alignment explanation
Indices: 89756756--89756819 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
89756746 ACGAGCACAT
89756756 TAACGGGAAGCTCTTCTAAGCCATA
1 TAACGGGAAGCTCTTCTAAGCCATA
* * * * *
89756781 TAACAGGAAGCTCATGTGAGCCATG
1 TAACGGGAAGCTCTTCTAAGCCATA
*
89756806 TAACGAGAAGCTCT
1 TAACGGGAAGCTCT
89756820 AAAGAGCCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (25 bp):
TAACGGGAAGCTCTTCTAAGCCATA
Found at i:89767341 original size:17 final size:17
Alignment explanation
Indices: 89767319--89767353 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
89767309 GGAATGTATT
89767319 TCCAGTGGAGGAAACCA
1 TCCAGTGGAGGAAACCA
89767336 TCCAGTGGAGGAAACCA
1 TCCAGTGGAGGAAACCA
89767353 T
1 T
89767354 TTCTTCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.29, T:0.14
Consensus pattern (17 bp):
TCCAGTGGAGGAAACCA
Found at i:89767607 original size:45 final size:45
Alignment explanation
Indices: 89767541--89767745 Score: 365
Period size: 45 Copynumber: 4.6 Consensus size: 45
89767531 TGTCCTGAAG
89767541 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
* * *
89767586 ATTAGGAAGGAACCTGAGGATGGTGGGTTGGGGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
89767631 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
*
89767676 ACAAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
*
89767721 ACTAGGAAGGAACCTGAGGATGGTG
1 ACTAGGAAGGAGCCTGAGGATGGTG
89767746 AGAACAGAAG
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 151 1.00
ACGTcount: A:0.26, C:0.09, G:0.48, T:0.18
Consensus pattern (45 bp):
ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
Found at i:89773927 original size:40 final size:40
Alignment explanation
Indices: 89773883--89773963 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
89773873 TCAAATACAT
89773883 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
* * * * **
89773923 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
89773963 T
1 T
89773964 AATAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:89774005 original size:6 final size:6
Alignment explanation
Indices: 89773983--89774030 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
89773973 TGATTATATT
* * * *
89773983 AAAATT AAAATT AAAATA TAAATA TAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
89774031 TATATTTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
AAAATA
Found at i:89774016 original size:24 final size:24
Alignment explanation
Indices: 89773984--89774032 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
89773974 GATTATATTA
* * *
89773984 AAATTAAAATTAAAATATAAATAT
1 AAATAAAAATAAAAATAAAAATAT
89774008 AAATAAAAATAAAAATAAAAATAT
1 AAATAAAAATAAAAATAAAAATAT
89774032 A
1 A
89774033 TATTTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (24 bp):
AAATAAAAATAAAAATAAAAATAT
Found at i:89774025 original size:16 final size:17
Alignment explanation
Indices: 89773994--89774026 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
89773984 AAATTAAAAT
*
89773994 TAAAATATAAATATAAA
1 TAAAATATAAAAATAAA
89774011 TAAAA-ATAAAAATAAA
1 TAAAATATAAAAATAAA
89774027 AATATATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAATATAAAAATAAA
Found at i:89775218 original size:23 final size:24
Alignment explanation
Indices: 89775190--89775271 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 24
89775180 ATTTTCATAA
89775190 AAATATAATAATAAAATTAA-ATT
1 AAATATAATAATAAAATTAATATT
* * *
89775213 ATATATAATATTAATATTAATATT
1 AAATATAATAATAAAATTAATATT
*
89775237 AAATA-AAT-ATAATTATATAATATT
1 AAATATAATAATAA-AAT-TAATATT
*
89775261 AAATAAAATAA
1 AAATATAATAA
89775272 GAATCCCACC
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
22 3 0.06
23 23 0.47
24 19 0.39
25 3 0.06
26 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATATAATAATAAAATTAATATT
Found at i:89775225 original size:17 final size:17
Alignment explanation
Indices: 89775200--89775264 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 17
89775190 AAATATAATA
*
89775200 ATAAAATTAAATTATAT
1 ATAATATTAAATTATAT
89775217 ATAATATTAATATTA-AT
1 ATAATATTAA-ATTATAT
89775234 ATTAA-A-TAAATATAATTAT
1 A-TAATATTAAAT-T-A-TAT
89775253 ATAATATTAAAT
1 ATAATATTAAAT
89775265 AAAATAAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
15 2 0.05
16 4 0.10
17 14 0.36
18 10 0.26
19 4 0.10
20 5 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATATTAAATTATAT
Found at i:89775227 original size:6 final size:6
Alignment explanation
Indices: 89775191--89775262 Score: 55
Period size: 6 Copynumber: 12.3 Consensus size: 6
89775181 TTTTCATAAA
* *
89775191 AATA-T AATAAT AAAATT AA-ATT -ATATAT AATATT AATATT AATATT
1 AATATT AATATT AATATT AATATT AATAT-T AATATT AATATT AATATT
*
89775237 AA-ATA AATA-T AATTATAT AATATT AA
1 AATATT AATATT AA-TAT-T AATATT AA
89775263 ATAAAATAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
4 1 0.02
5 15 0.27
6 29 0.53
7 7 0.13
8 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
AATATT
Found at i:89777112 original size:48 final size:48
Alignment explanation
Indices: 89777053--89777170 Score: 227
Period size: 48 Copynumber: 2.5 Consensus size: 48
89777043 TACAAACATC
89777053 AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTA
1 AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTA
*
89777101 AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTC
1 AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTA
89777149 AATTATTTACCCTATTAACAAA
1 AATTATTTACCCTATTAACAAA
89777171 GCTCGGACTA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (48 bp):
AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTA
Found at i:89778780 original size:5 final size:5
Alignment explanation
Indices: 89778770--89778797 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
89778760 TATATATATA
89778770 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
89778798 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:89779475 original size:11 final size:11
Alignment explanation
Indices: 89779459--89779517 Score: 73
Period size: 11 Copynumber: 5.4 Consensus size: 11
89779449 GCAGCAAAAT
89779459 AGCACCCAAAC
1 AGCACCCAAAC
* *
89779470 AACACCAAAAC
1 AGCACCCAAAC
89779481 AGCACCCAAAC
1 AGCACCCAAAC
89779492 AGCACCCAAAC
1 AGCACCCAAAC
* * *
89779503 TGCAGCAAAAC
1 AGCACCCAAAC
89779514 AGCA
1 AGCA
89779518 GTGAGCTAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.49, C:0.39, G:0.10, T:0.02
Consensus pattern (11 bp):
AGCACCCAAAC
Found at i:89779518 original size:11 final size:11
Alignment explanation
Indices: 89779443--89779517 Score: 69
Period size: 11 Copynumber: 6.8 Consensus size: 11
89779433 AATACGACAA
* *
89779443 AAAATAGCAGC
1 AAAACAGCACC
*
89779454 AAAATAGCACC
1 AAAACAGCACC
* *
89779465 CAAACAACACC
1 AAAACAGCACC
89779476 AAAACAGCACC
1 AAAACAGCACC
*
89779487 CAAACAGCACC
1 AAAACAGCACC
* * *
89779498 CAAACTGCAGC
1 AAAACAGCACC
89779509 AAAACAGCA
1 AAAACAGCA
89779518 GTGAGCTAGG
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 53 1.00
ACGTcount: A:0.52, C:0.33, G:0.11, T:0.04
Consensus pattern (11 bp):
AAAACAGCACC
Found at i:89788319 original size:18 final size:17
Alignment explanation
Indices: 89788284--89788316 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
89788274 ACTCCCACAA
89788284 TTTTAAAAACATAAAAT
1 TTTTAAAAACATAAAAT
89788301 TTTTAAGAAAC-TAAAA
1 TTTTAA-AAACATAAAA
89788317 ATTACTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (17 bp):
TTTTAAAAACATAAAAT
Found at i:89788471 original size:15 final size:14
Alignment explanation
Indices: 89788448--89788491 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
89788438 ATATATATAC
89788448 TTTAATTAATTACAA
1 TTTAATTAATTA-AA
*
89788463 TTTATTTAATTAAA
1 TTTAATTAATTAAA
*
89788477 TTATAATTAACTAAA
1 TT-TAATTAATTAAA
89788492 CATCAATCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:89790073 original size:37 final size:37
Alignment explanation
Indices: 89790021--89790112 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 37
89790011 CAGCGCTTTA
* * * *
89790021 TAAATTTGACACCCAGTGTCTCATCGGTTAAATCGAAG
1 TAAA-TTGGCACCCAGTGTCTCATAGGTTAAACCAAAG
*
89790059 TAAATTGGTACCCAGTGTCTCATAGGTTAAACCAAAG
1 TAAATTGGCACCCAGTGTCTCATAGGTTAAACCAAAG
89790096 TAAATTGGCACCCAGTG
1 TAAATTGGCACCCAGTG
89790113 CTTCATCAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 44 0.92
38 4 0.08
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (37 bp):
TAAATTGGCACCCAGTGTCTCATAGGTTAAACCAAAG
Found at i:89791080 original size:19 final size:20
Alignment explanation
Indices: 89791051--89791091 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
89791041 CGTCTTTCTC
89791051 CTTTCTTCTTTCATTTT-TTT
1 CTTTCTTCTTTC-TTTTCTTT
89791071 CTTT-TTCTTTCTTTTCTTT
1 CTTTCTTCTTTCTTTTCTTT
89791090 CT
1 CT
89791092 GGTTCGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (20 bp):
CTTTCTTCTTTCTTTTCTTT
Found at i:89791085 original size:15 final size:15
Alignment explanation
Indices: 89791052--89791089 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
89791042 GTCTTTCTCC
89791052 TTTCTTCTTTCATTTT
1 TTTCTT-TTTCATTTT
89791068 TTTCTTTTTC-TTTCT
1 TTTCTTTTTCATTT-T
89791083 TTTCTTT
1 TTTCTTT
89791090 CTGGTTCGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 12 0.57
16 6 0.29
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTCATTTT
Found at i:89791168 original size:15 final size:15
Alignment explanation
Indices: 89791148--89791197 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
89791138 TACTTTTGTT
89791148 TTATTATTCATTAAA
1 TTATTATTCATTAAA
*
89791163 TTATTATT-A-TATA
1 TTATTATTCATTAAA
**
89791176 -TATTAAACATTAAA
1 TTATTATTCATTAAA
89791190 TTATTATT
1 TTATTATT
89791198 ATATAATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
12 5 0.19
13 4 0.15
14 4 0.15
15 13 0.50
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATTATTCATTAAA
Found at i:89795337 original size:22 final size:24
Alignment explanation
Indices: 89795312--89795355 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
89795302 GATAAAGAAA
*
89795312 TGAAATAA-TA-TATGAGACAACT
1 TGAAATAACTAGTATGAAACAACT
*
89795334 TGAAGTAACTAGTATGAAACAA
1 TGAAATAACTAGTATGAAACAA
89795356 ATTAAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 2 0.11
24 9 0.50
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (24 bp):
TGAAATAACTAGTATGAAACAACT
Found at i:89795483 original size:27 final size:27
Alignment explanation
Indices: 89795453--89795514 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
89795443 TTAGATGAGT
* *
89795453 AATATATGTAAAAA-CACGTTTAAAATA
1 AATATATGCAAAAAGCA-ATTTAAAATA
*
89795480 AATAT-TACAAAAAGCAATTTAAAATA
1 AATATATGCAAAAAGCAATTTAAAATA
89795506 AATAGTATG
1 AATA-TATG
89795515 AAATAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 19 0.68
27 8 0.29
28 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (27 bp):
AATATATGCAAAAAGCAATTTAAAATA
Found at i:89796819 original size:39 final size:39
Alignment explanation
Indices: 89796776--89796917 Score: 205
Period size: 39 Copynumber: 3.6 Consensus size: 39
89796766 CCGCTCGAAA
* * * *
89796776 CCTGCGGGA-CTTTAGTCCGGACATATTTCCAGCACGTAG
1 CCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACATAG
89796815 CCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATAG
1 CCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATAG
* *
89796854 CCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAA
1 CCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATAG
*
89796893 CCTGCGGACCCTAAGTCCGGATATA
1 CCTGCGGACCTTAAGTCCGGATATA
89796918 CATCATTGAA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 3 0.03
39 93 0.97
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATAG
Found at i:89799805 original size:37 final size:37
Alignment explanation
Indices: 89799746--89799817 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
89799736 AGCTCAGATG
*
89799746 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
89799783 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
89799818 ATATATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:89799992 original size:48 final size:48
Alignment explanation
Indices: 89799936--89800749 Score: 1439
Period size: 48 Copynumber: 16.7 Consensus size: 48
89799926 CACATTTGGT
89799936 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
89799984 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
*
89800032 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
*
89800080 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
*
89800128 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
89800176 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
89800224 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
89800272 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAG-----C
89800325 GGCTTTACTTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
1 --C---A-TTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
89800379 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
* *
89800427 TATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
*
89800475 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
89800523 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
*
89800571 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCATATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
* *
89800619 CATTCGGCTTTACAACATATACATATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
89800667 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
1 CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
*
89800715 CATTCGGCTTTACCACATATACATATCTCATACAT
1 CATTCGGCTTTACCACATATACTTATCTCATACAT
89800750 CAATTTCCGC
Statistics
Matches: 742, Mismatches: 13, Indels: 22
0.95 0.02 0.03
Matches are distributed among these distances:
48 691 0.93
49 1 0.00
52 1 0.00
53 1 0.00
54 1 0.00
55 1 0.00
58 1 0.00
59 45 0.06
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (48 bp):
CATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGC
Found at i:89807820 original size:39 final size:39
Alignment explanation
Indices: 89807777--89807919 Score: 200
Period size: 39 Copynumber: 3.7 Consensus size: 39
89807767 ACCCGCTCGA
* * * * *
89807777 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
89807816 AGCCTGCGGACCTTAAGTCC-GATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
89807854 AGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
89807893 AGCCTGCGGACCCTAAGTCCGGATATA
1 AGCCTGCGGACCTTAAGTCCGGATATA
89807920 CATCACTGAA
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
38 37 0.39
39 59 0.61
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:89807851 original size:38 final size:39
Alignment explanation
Indices: 89807795--89807919 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
89807785 GGACTTTAGC
* * * *
89807795 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
89807834 CC-GATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
89807872 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
89807911 CCGGATATA
1 CCGGATATA
89807920 CATCACTGAA
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 34 0.42
39 47 0.58
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Done.