Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 109 of 328
Found at i:30635564 original size:23 final size:25
Alignment explanation
Indices: 30635519--30635566 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
30635509 TATTTTAGTT
**
30635519 TTTATTACTTTTTTAACTTTAATCA
1 TTTATTACTTTTTTAACCCTAATCA
30635544 TTTATT-CTTTTTT-ACCCTAATCA
1 TTTATTACTTTTTTAACCCTAATCA
30635567 ATATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 7 0.33
25 6 0.29
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTATTACTTTTTTAACCCTAATCA
Found at i:30636789 original size:14 final size:15
Alignment explanation
Indices: 30636770--30636800 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30636760 TTTATATATT
30636770 TTTAT-AATTTTAAA
1 TTTATAAATTTTAAA
30636784 TTTATAAATTTTAAA
1 TTTATAAATTTTAAA
30636799 TT
1 TT
30636801 CTTTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTATAAATTTTAAA
Found at i:30636855 original size:49 final size:49
Alignment explanation
Indices: 30636768--30636861 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
30636758 CTTTTATATA
* *
30636768 TTTTTATAATTTTAAATTTATAAATTTTAAATTCTTTATAAATTTAGTT
1 TTTTTATAAATTTAAATGTATAAATTTTAAATTCTTTATAAATTTAGTT
* * * *
30636817 TTTTTATAAATTTATATGT-TACATTTTATAATTTTTTATACATTT
1 TTTTTATAAATTTAAATGTATAAATTTTA-AATTCTTTATAAATTT
30636862 CCGAAATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 8 0.21
49 30 0.79
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (49 bp):
TTTTTATAAATTTAAATGTATAAATTTTAAATTCTTTATAAATTTAGTT
Found at i:30637646 original size:17 final size:17
Alignment explanation
Indices: 30637624--30637658 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
30637614 ACTAAACCGA
30637624 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
30637641 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
30637658 C
1 C
30637659 TACTTGCCAC
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:0.29, C:0.54, G:0.00, T:0.17
Consensus pattern (17 bp):
CCACTAACTCCATCACC
Found at i:30637694 original size:13 final size:13
Alignment explanation
Indices: 30637676--30637701 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30637666 CACTAATTCC
30637676 ATCACCCCACTAA
1 ATCACCCCACTAA
30637689 ATCACCCCACTAA
1 ATCACCCCACTAA
30637702 CCCCATTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (13 bp):
ATCACCCCACTAA
Found at i:30638255 original size:21 final size:22
Alignment explanation
Indices: 30638231--30638272 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
30638221 TTTTATGAAC
30638231 ATTTTTA-A-ATATTATATTATT
1 ATTTTTATATATATTAT-TTATT
30638252 ATTTTTATATATATTATTTAT
1 ATTTTTATATATATTATTTAT
30638273 ATTAAGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
23 7 0.37
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTTTATATATATTATTTATT
Found at i:30638488 original size:2 final size:2
Alignment explanation
Indices: 30638481--30638516 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
30638471 CTTTTAAATC
30638481 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30638517 ATTTATGCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30645143 original size:64 final size:64
Alignment explanation
Indices: 30645063--30645189 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 64
30645053 CATTCATAGT
* * *
30645063 ACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCATC
1 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCATC
* *
30645127 ACATCTAGCTAGGAGCATTTGATTTATTTCGATCATAGCATCCTAACTGTTTGGCATAAGCAT
1 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCAT
30645190 ATATACATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (64 bp):
ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCATC
Found at i:30645793 original size:178 final size:177
Alignment explanation
Indices: 30645389--30645877 Score: 730
Period size: 178 Copynumber: 2.8 Consensus size: 177
30645379 ATTTTAGCCG
* * *
30645389 CAGGTCTTATCCTCCTGAAGTTGCAGGAAACAGACTGAAAATTACAGATCTTATCTCCATGTATC
1 CAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGATTGAAAATTACAGATCTTATCTCCATGTATC
* * *
30645454 GGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAACA-AATTTAG
66 GGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
* **
30645518 CCACCACCCTTATCTCTCTAAGGTAGCAAGAGAGTTGGTTGAAGATA
131 CCACCACCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATA
* * * *
30645565 AAAGTCTTATCTTCCTGAAGTTGCAGGAAGTAG-TCTAAAAATTTACAGATCTTATCTCCATGTA
1 CAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAT-TGAAAA-TTACAGATCTTATCTCCATGTA
* *
30645629 TCGGCTATGGAGCAGATCAAAAATGGCGAATTTTATCTCCATGTATCGGCTATGGAGCAGATTTT
64 TCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
*
30645694 AGCCACCAGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATA
129 AGCCACCACCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATA
* * *
30645743 CAGGTCTTATCTTCCTGAAGTTGTAAGAAGCAGATTGAAAAGTTACAGATCTTATCTCCAAGTAT
1 CAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGATTGAAAA-TTACAGATCTTATCTCCATGTAT
* * *
30645808 CGGCTATGGAGCAGATCAGAACTGGCGAGTCTTATCTCTATGTATCGGCTATGGAGCAGATTTTA
65 CGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTA
*
30645873 ACCAC
130 GCCAC
30645878 TAATCTTATC
Statistics
Matches: 279, Mismatches: 30, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
176 33 0.12
177 77 0.28
178 168 0.60
179 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (177 bp):
CAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGATTGAAAATTACAGATCTTATCTCCATGTATC
GGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
CCACCACCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATA
Found at i:30646156 original size:134 final size:134
Alignment explanation
Indices: 30645746--30646145 Score: 604
Period size: 134 Copynumber: 3.0 Consensus size: 134
30645736 GAAGATACAG
* * * *
30645746 GTCTTATCTTCCTGAAGTTGTAAGAAGCAGATTGAAAAGTTACAGATCTTATCTCCAAGTATCGG
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGATTGAAAAGTTACAGATCTTATCTCCATGTATCGA
* * *
30645811 CTATGGAGCAGATCAGAACTGGCGAGTCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAACC
66 CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
30645876 ACTA
131 ACTA
* *
30645880 ATCTTATCTTCTTGAAGTTGCAGGAAGCAGATTGAAAAGTTACAGATCTTATCTCCATGTATCGA
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGATTGAAAAGTTACAGATCTTATCTCCATGTATCGA
* * * **
30645945 CTATGGAGTAGATCAGAAATGACGAGTCTTATCTCCATGTATCAGCTATGCTGCAGATTTTAGCC
66 CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
30646010 ACTA
131 ACTA
* *
30646014 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAGAA-TTACAGATCTTATCTCTATGTATCG
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGATTGAA-AAGTTACAGATCTTATCTCCATGTATCG
* * * *
30646078 ATTATGGAGCAGATAAAAAATGGCGAGTTTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
65 ACTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
30646143 CAC
130 CAC
30646146 CGGCCTTATC
Statistics
Matches: 238, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
134 236 0.99
135 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (134 bp):
GTCTTATCTTCCTGAAGTTGCAGGAAGCAGATTGAAAAGTTACAGATCTTATCTCCATGTATCGA
CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
ACTA
Found at i:30646301 original size:177 final size:178
Alignment explanation
Indices: 30646010--30646339 Score: 493
Period size: 177 Copynumber: 1.9 Consensus size: 178
30646000 GATTTTAGCC
* * *
30646010 ACTAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAGAATTACAGATCTTATCTCTATGTA
1 ACTAGTCTTATCTTCCTGAAGTTGCAGAAAGCAGACTGAAGAATTACAGATCTTATCTCCATATA
* * * * *
30646075 TCGATTATGGAGCAGATAAAAAATGGCGAGTTTTATCTCCATGTATCGGCTATGGAGCAGATTTT
66 TCGACTATGGAGCAGATAAAAAATGACAAGTCTTATCTCCATATATCGGCTATGGAGCAGATTTT
* *
30646140 AGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
131 AGCCACCGACCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
*
30646188 ACTAGTCTTATCTTCTTGAAGTTGCAAGAAAG-AGACTGAA-AATTACAGATCTTATCTCCATAT
1 ACTAGTCTTATCTTCCTGAAGTTGC-AGAAAGCAGACTGAAGAATTACAGATCTTATCTCCATAT
* * *
30646251 ATCGGCTATGGAGCAGATCAGAAATGACAAGTCTTATCTCCATATATCGGCTATGGAGCAGATTT
65 ATCGACTATGGAGCAGATAAAAAATGACAAGTCTTATCTCCATATATCGGCTATGGAGCAGATTT
**
30646316 TAGCCATTGACCTCATCTCTCTGA
130 TAGCCACCGACCTCATCTCTCTGA
30646340 AGTTGCAGTG
Statistics
Matches: 135, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
177 98 0.73
178 32 0.24
179 5 0.04
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (178 bp):
ACTAGTCTTATCTTCCTGAAGTTGCAGAAAGCAGACTGAAGAATTACAGATCTTATCTCCATATA
TCGACTATGGAGCAGATAAAAAATGACAAGTCTTATCTCCATATATCGGCTATGGAGCAGATTTT
AGCCACCGACCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
Found at i:30646359 original size:177 final size:178
Alignment explanation
Indices: 30646010--30646389 Score: 491
Period size: 177 Copynumber: 2.1 Consensus size: 178
30646000 GATTTTAGCC
* * * *
30646010 ACTAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAGAATTACAGATCTTATCTCTATGTA
1 ACTAGTCTTATCTTCTTGAAGTTGCAGAAAGCAGACTGAAGAATTACAGATCTTATCTCCATATA
* * * * *
30646075 TCGATTATGGAGCAGATAAAAAATGGCGAGTTTTATCTCCATGTATCGGCTATGGAGCAGATTTT
66 TCGACTATGGAGCAGATAAAAAATGACAAGTCTTATCTCCATATATCGGCTATGGAGCAGATTTT
* * * *
30646140 AGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA-T
131 AGCCACCGACCTCATCTCTCTGAAGTAGCAAGAGAACAGGTTGAA-ATT
30646188 ACTAGTCTTATCTTCTTGAAGTTGCAAGAAAG-AGACTGAA-AATTACAGATCTTATCTCCATAT
1 ACTAGTCTTATCTTCTTGAAGTTGC-AGAAAGCAGACTGAAGAATTACAGATCTTATCTCCATAT
* * *
30646251 ATCGGCTATGGAGCAGATCAGAAATGACAAGTCTTATCTCCATATATCGGCTATGGAGCAGATTT
65 ATCGACTATGGAGCAGATAAAAAATGACAAGTCTTATCTCCATATATCGGCTATGGAGCAGATTT
** * *
30646316 TAGCCATTGACCTCATCTCTCTGAAGTTGC-AGTGGAACAGGTTGAAATT
130 TAGCCACCGACCTCATCTCTCTGAAGTAGCAAG-AGAACAGGTTGAAATT
**
30646365 AC-AAACGTTATCTTCTTGAAGTTGC
1 ACTAGTC-TTATCTTCTTGAAGTTGC
30646390 TGTAGGACTA
Statistics
Matches: 176, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
176 5 0.03
177 134 0.76
178 32 0.18
179 5 0.03
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (178 bp):
ACTAGTCTTATCTTCTTGAAGTTGCAGAAAGCAGACTGAAGAATTACAGATCTTATCTCCATATA
TCGACTATGGAGCAGATAAAAAATGACAAGTCTTATCTCCATATATCGGCTATGGAGCAGATTTT
AGCCACCGACCTCATCTCTCTGAAGTAGCAAGAGAACAGGTTGAAATT
Found at i:30647131 original size:15 final size:14
Alignment explanation
Indices: 30647113--30647170 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
30647103 TAATTTTTTC
30647113 TTGTTGTATTTTCTT
1 TTGTT-TATTTTCTT
*
30647128 TTGTATATTTTCATT
1 TTGTTTATTTTC-TT
* *
30647143 TTGTTTTATTATATT
1 TTG-TTTATTTTCTT
*
30647158 TTATTTATTTTCT
1 TTGTTTATTTTCT
30647171 CTTTTATGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 15 0.44
15 13 0.38
16 6 0.18
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (14 bp):
TTGTTTATTTTCTT
Found at i:30647227 original size:21 final size:22
Alignment explanation
Indices: 30647182--30647224 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30647172 TTTTATGAAC
30647182 ATTTTTTAAATATTATATTATT
1 ATTTTTTAAATATTATATTATT
*
30647204 ATTTTTATATATATTAT-TTAT
1 ATTTTT-TAAATATTATATTAT
30647225 ATTAAGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTTTTAAATATTATATTATT
Found at i:30648123 original size:129 final size:127
Alignment explanation
Indices: 30647949--30648385 Score: 510
Period size: 129 Copynumber: 3.4 Consensus size: 127
30647939 CTTAAGGGAT
* * *
30647949 TATTTCGTGTTTGGAG-GTCCGAGAAATCGTGCCCAATCGTTCTGGGTTTCGATTTTTTTCCGTT
1 TATTTCGTGTTTGGAGAGTCTGAGAAATCGTGCCCAATCGTGCTGGGTTTC-A-TTTTTTCCATT
* * *
30648013 CAACTAAAATACGAAATATCCTTTGGAAATTTTGTCCATGCTTTT-TAAAACTAAAACGAGGCAA
64 CGACTAAAATACGAAATATCCTTTTGAAATTTTATCCATG-TTTTCTAAAACTAAAACGAGGCAA
* *
30648077 TATTTCGTGTTTGGAGAGTCTGAGAGATCGTGCCCAATCGTGCTGGGTTTCAATTTTT-CATTCG
1 TATTTCGTGTTTGGAGAGTCTGAGAAATCGTGCCCAATCGTGCTGGGTTTCATTTTTTCCATTCG
** * *
30648141 ACTAAAATACGAAATAGCTTTTTTTTGAAATTTTATTCATGTTTTCTTAAACTAAAACGAGGCAA
66 ACTAAAATACGAAATA---TCCTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAACGAGGCAA
* * * *
30648206 TATTTAGTGTTTGGA-AGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCA-ATTTTCCATTCG
1 TATTTCGTGTTTGGAGAGTCTGAGAAATCGTGCCCAATCGTGCTGGGTTTCATTTTTTCCATTCG
* * * * *
30648269 ACTAAAATACAAAATATCCTTTTGAAATTTCATCCATGTTTTCTCAAATTAAAATGAGGCAA
66 ACTAAAATACGAAATATCCTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAACGAGGCAA
* * * * * *
30648331 TGTTTCATATTT-GAAAAT-TTAGTAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
1 TATTTCGTGTTTGGAGAGTCTGAG-AAATCGTGCCCAATCGTGCTGGGTTTC-ATTT
30648386 ACCGTTTGGG
Statistics
Matches: 268, Mismatches: 31, Indels: 21
0.84 0.10 0.07
Matches are distributed among these distances:
124 5 0.02
125 75 0.28
126 21 0.08
127 10 0.04
128 77 0.29
129 80 0.30
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (127 bp):
TATTTCGTGTTTGGAGAGTCTGAGAAATCGTGCCCAATCGTGCTGGGTTTCATTTTTTCCATTCG
ACTAAAATACGAAATATCCTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAACGAGGCAA
Found at i:30648267 original size:128 final size:125
Alignment explanation
Indices: 30647949--30648385 Score: 502
Period size: 125 Copynumber: 3.4 Consensus size: 125
30647939 CTTAAGGGAT
* * * * * *
30647949 TATTTCGTGTTTGGAGGTCCGAGAAATCGTGCCCAATCGTTCTGGGTTTCGATTTTTTTCCGTTC
1 TATTTAGTGTTTGGAAGTCTGAGAAATCGTGCCCAATCGTGCTGGGTTTC-A--ATTTTCCATTC
* * *
30648014 AACTAAAATACGAAATATCCTTTGGAAATTTTGTCCATGCTTTT-TAAAACTAAAACGAGGCAA
63 GACTAAAATACGAAATATCCTTTTGAAATTTTATCCATG-TTTTCTAAAACTAAAACGAGGCAA
* * *
30648077 TATTTCGTGTTTGGAGAGTCTGAGAGATCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCGA
1 TATTTAGTGTTTGGA-AGTCTGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGA
** * *
30648142 CTAAAATACGAAATAGCTTTTTTTTGAAATTTTATTCATGTTTTCTTAAACTAAAACGAGGCAA
65 CTAAAATACGAAATA---TCCTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAACGAGGCAA
* *
30648206 TATTTAGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGAC
1 TATTTAGTGTTTGGAAGTCTGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGAC
* * * * *
30648271 TAAAATACAAAATATCCTTTTGAAATTTCATCCATGTTTTCTCAAATTAAAATGAGGCAA
66 TAAAATACGAAATATCCTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAACGAGGCAA
* * * * * *
30648331 TGTTTCA-TATTTGAAAAT-TTAGTAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
1 TATTT-AGTGTTTGGAAGTCTGAG-AAATCGTGCCCAATCGTGCTGGGTTTCAATTT
30648386 ACCGTTTGGG
Statistics
Matches: 270, Mismatches: 32, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
124 3 0.01
125 81 0.30
126 25 0.09
128 81 0.30
129 80 0.30
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (125 bp):
TATTTAGTGTTTGGAAGTCTGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCGAC
TAAAATACGAAATATCCTTTTGAAATTTTATCCATGTTTTCTAAAACTAAAACGAGGCAA
Found at i:30649655 original size:15 final size:12
Alignment explanation
Indices: 30649624--30649648 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30649614 TTATTATAAA
30649624 AATAATATACTT
1 AATAATATACTT
30649636 AATAATATACTT
1 AATAATATACTT
30649648 A
1 A
30649649 CTCATAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
AATAATATACTT
Found at i:30655977 original size:21 final size:21
Alignment explanation
Indices: 30655952--30655999 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
30655942 TACAACATTC
** *
30655952 AAAAATCCTTAAAATTATAAA
1 AAAAATCCCAAAAAATATAAA
30655973 AAAAATCCCAAAAAATATAAA
1 AAAAATCCCAAAAAATATAAA
*
30655994 ATAAAT
1 AAAAAT
30656000 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAATCCCAAAAAATATAAA
Found at i:30657485 original size:12 final size:13
Alignment explanation
Indices: 30657458--30657488 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
30657448 AGACTCATTC
30657458 AATTTTTATATAA
1 AATTTTTATATAA
30657471 AATTTTTATAT-A
1 AATTTTTATATAA
30657483 AATTTT
1 AATTTT
30657489 CACTCACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
AATTTTTATATAA
Found at i:30667175 original size:14 final size:14
Alignment explanation
Indices: 30667151--30667183 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
30667141 CGATACTATG
30667151 TTTAA-ATTTAAAT
1 TTTAATATTTAAAT
30667164 TTTAATATTTAAAT
1 TTTAATATTTAAAT
30667178 TTTAAT
1 TTTAAT
30667184 TTGACATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTAATATTTAAAT
Found at i:30668200 original size:20 final size:20
Alignment explanation
Indices: 30668175--30668214 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
30668165 GAAAGTCTAA
30668175 TTTGAAAATCGTAGATGAGG
1 TTTGAAAATCGTAGATGAGG
30668195 TTTGAAAATCGTAGATGAGG
1 TTTGAAAATCGTAGATGAGG
30668215 AGGAAGATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (20 bp):
TTTGAAAATCGTAGATGAGG
Found at i:30675305 original size:19 final size:19
Alignment explanation
Indices: 30675281--30675323 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
30675271 AAAATATTAT
30675281 ATTAATTTTAATTAATTTG
1 ATTAATTTTAATTAATTTG
* * *
30675300 ATTAATTTTATTTTATTTT
1 ATTAATTTTAATTAATTTG
30675319 ATTAA
1 ATTAA
30675324 AATTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTAATTTTAATTAATTTG
Found at i:30678386 original size:40 final size:39
Alignment explanation
Indices: 30678341--30678467 Score: 121
Period size: 40 Copynumber: 3.2 Consensus size: 39
30678331 CGGAACATAA
30678341 CCGGATACAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATACAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
30678381 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATACAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
** * * * *
30678421 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATACAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
30678461 CCGGATA
1 CCGGATA
30678468 AAATTTCCAG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATACAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:30678485 original size:40 final size:40
Alignment explanation
Indices: 30678357--30678507 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
30678347 ACAACCATGT
* * *
30678357 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTC-CA
** ** * *
30678397 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
30678437 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
30678477 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATA
30678508 TCATTCAATT
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 84 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
Found at i:30678491 original size:80 final size:80
Alignment explanation
Indices: 30678357--30678506 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
30678347 ACAACCATGT
* *
30678357 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
30678421 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
30678437 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
30678500 CCCGGAT
64 CCCGGAT
30678507 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:30686400 original size:40 final size:39
Alignment explanation
Indices: 30686355--30686481 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
30686345 CGGAACATAA
30686355 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
30686395 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
30686435 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
30686475 CCGGATA
1 CCGGATA
30686482 AATTTCCAGC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:30693570 original size:17 final size:16
Alignment explanation
Indices: 30693543--30693577 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
30693533 GGTCGAGGAA
30693543 ATTTTTTTTATATATT
1 ATTTTTTTTATATATT
*
30693559 ATTTTATTTTATGTATT
1 ATTTT-TTTTATATATT
30693576 AT
1 AT
30693578 AGCATGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTTTTTATATATT
Found at i:30696116 original size:20 final size:21
Alignment explanation
Indices: 30696077--30696116 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30696067 GTTGAGTTGG
30696077 TCACACGGGCGTGTTGCCCTT
1 TCACACGGGCGTGTTGCCCTT
*
30696098 TCACACTGGCGTG-TGCCCT
1 TCACACGGGCGTGTTGCCCT
30696117 GTTTTAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.35, G:0.28, T:0.28
Consensus pattern (21 bp):
TCACACGGGCGTGTTGCCCTT
Found at i:30698087 original size:16 final size:16
Alignment explanation
Indices: 30698066--30698096 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30698056 CTATGCATGC
*
30698066 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
30698082 AAAATACAAAAGACA
1 AAAATACAAAAGACA
30698097 TAATAGTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:30700639 original size:50 final size:49
Alignment explanation
Indices: 30700515--30700703 Score: 243
Period size: 50 Copynumber: 3.8 Consensus size: 49
30700505 TGAGGTCGCA
* * *
30700515 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACG
* * **
30700566 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
30700616 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* *
30700665 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
30700704 GCTTTGGTTA
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
49 41 0.34
50 45 0.38
51 34 0.28
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:30706280 original size:28 final size:29
Alignment explanation
Indices: 30706249--30706309 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
30706239 GTGAGCATGA
*
30706249 ATAT-AAGGTGATTTGGGCCTAGCGGGCC
1 ATATAAAGGTGATTTGGGCCTAACGGGCC
*
30706277 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAACGGGCC
30706306 ATAT
1 ATAT
30706310 GAATATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAACGGGCC
Found at i:30706322 original size:29 final size:29
Alignment explanation
Indices: 30706261--30706395 Score: 93
Period size: 29 Copynumber: 4.7 Consensus size: 29
30706251 ATAAGGTGAT
** * ** *
30706261 TTGGGCCTAGCGGGCCATATAAAGGTGAT
1 TTGGGCCTAATGGGCCATATGAATATGAA
30706290 TTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* * *
30706319 TTGGG-CTGATGGGTCGA-ATGAATGTGAAA
1 TTGGGCCTAATGGG-CCATATGAATATG-AA
* *
30706348 AT-GGCCTAATGGGCTATATG-A-ATGAGA
1 TTGGGCCTAATGGGCCATATGAATATGA-A
30706375 TTGGGCC-AAGTGGGCCATATG
1 TTGGGCCTAA-TGGGCCATATG
30706396 CATGTATGTA
Statistics
Matches: 84, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
26 1 0.01
27 6 0.07
28 34 0.40
29 43 0.51
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAA
Found at i:30710756 original size:45 final size:47
Alignment explanation
Indices: 30710690--30710808 Score: 131
Period size: 50 Copynumber: 2.5 Consensus size: 47
30710680 GACAAGAGCT
* *
30710690 AGTGTAAGA-CATGTCTAGGACATGCATC-GGCTAC-A-AAAT-GTGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGG--ACGATAAATAGAGTC
*
30710734 AGTGTAAGACCATGTCTGGGACATTGCATCAGGACGGATATATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACA-TGCATCAGGAC-GATAAAT-AGAGTC
30710784 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
30710809 GTATCGACTT
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
44 9 0.14
45 14 0.22
46 6 0.09
47 3 0.05
48 3 0.05
49 2 0.03
50 27 0.42
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAGGACGATAAATAGAGTC
Found at i:30711883 original size:13 final size:13
Alignment explanation
Indices: 30711865--30711899 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
30711855 CCGTGTGAGG
30711865 GACACGGGCCATA
1 GACACGGGCCATA
*
30711878 GACACGGGCCATG
1 GACACGGGCCATA
30711891 GACACGGGC
1 GACACGGGC
30711900 GTGTGTCAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.31, G:0.37, T:0.06
Consensus pattern (13 bp):
GACACGGGCCATA
Found at i:30719779 original size:93 final size:93
Alignment explanation
Indices: 30719671--30719934 Score: 465
Period size: 93 Copynumber: 2.8 Consensus size: 93
30719661 GCCCATAAGT
* * *
30719671 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30719736 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
30719764 GAACTGGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
30719829 TGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
30719857 GAACTCGAACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
30719922 CGAGTTCGGATGC
66 CGAGCTCGGATGC
30719935 TTAACCATCC
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 162 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:30719785 original size:47 final size:47
Alignment explanation
Indices: 30719717--30719879 Score: 183
Period size: 47 Copynumber: 3.5 Consensus size: 47
30719707 ATCCATAAGT
30719717 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* * * * * *
30719764 GAACTGGGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
*
30719810 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
*
30719857 GAACTCGAACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
30719880 TTCAGACATT
Statistics
Matches: 92, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 23 0.25
47 45 0.49
48 3 0.03
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:30719950 original size:46 final size:47
Alignment explanation
Indices: 30719663--30719931 Score: 263
Period size: 46 Copynumber: 5.8 Consensus size: 47
30719653 TGTAACCCGC
*
30719663 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-GCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
30719709 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* * * *
30719759 -C-TCA-CGAACTGGGACTCAACTCAACGAGTTCAGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* * *
30719802 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* * * *
30719852 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCAGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
30719895 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
30719932 TGCTTAACCA
Statistics
Matches: 178, Mismatches: 27, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
44 4 0.02
45 4 0.02
46 87 0.49
47 51 0.29
48 5 0.03
49 4 0.02
50 7 0.04
51 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:30722372 original size:16 final size:16
Alignment explanation
Indices: 30722337--30722372 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30722327 CTACAACAAA
*
30722337 AAAAGAAAAAAAAGAG
1 AAAAGAAAAAAAAAAG
*
30722353 AAAAGAAAAAAAAAAT
1 AAAAGAAAAAAAAAAG
30722369 AAAA
1 AAAA
30722373 ACCTAAACTA
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:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAG
Found at i:30730600 original size:3 final size:3
Alignment explanation
Indices: 30730594--30730626 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
30730584 CACCTTTTGC
*
30730594 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30730627 GAAGGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30731250 original size:22 final size:22
Alignment explanation
Indices: 30731225--30731275 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
30731215 AATTCTATGC
30731225 TAAATTGATAA-AGAT-TAATATA
1 TAAATT-ATAATAGATATAAT-TA
30731247 TAAATTATAATAGATATAATTA
1 TAAATTATAATAGATATAATTA
30731269 TAAATTA
1 TAAATTA
30731276 AAGATTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.15
22 19 0.70
23 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (22 bp):
TAAATTATAATAGATATAATTA
Found at i:30743175 original size:16 final size:17
Alignment explanation
Indices: 30743148--30743182 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
30743138 TAAAATCGGG
*
30743148 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
30743165 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
30743181 TT
1 TT
30743183 TACATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:30757942 original size:120 final size:120
Alignment explanation
Indices: 30757721--30757951 Score: 279
Period size: 120 Copynumber: 1.9 Consensus size: 120
30757711 TGTATGAATA
** *
30757721 CACATACGTGCCCCGGATTGTACTTCAATACTACTGAATGCACATATGTGCCCCTGTTTGTACTT
1 CACATACGTGCCCCGGATTGTACTTCAATACTACTGAATGCACATACATGCCCCTATTTGTACTT
* ** * *
30757786 CGATACCCCTGAATGCACACGTGTGCCACTGTTTGTACTTTGGTACCCTTAAATG
66 CGATACCCCTAAATGCACACACGTGCCACTGATTGTACTTCGGTACCCTTAAATG
* * * *
30757841 CACATACGTGCCCC-TATTTGTACTTCAGTAC-CCTTAGATGCACATACATGCCCCTATTTGTAC
1 CACATACGTGCCCCGGA-TTGTACTTCAATACTACTGA-ATGCACATACATGCCCCTATTTGTAC
* * *
30757904 TTCGGTACCCTTAAATGCACATACGTGCC-CTTGATTGTACTTCGGTAC
64 TTCGATACCCCTAAATGCACACACGTGCCAC-TGATTGTACTTCGGTAC
30757952 TTCTGAAAGC
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
119 5 0.05
120 88 0.95
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.32
Consensus pattern (120 bp):
CACATACGTGCCCCGGATTGTACTTCAATACTACTGAATGCACATACATGCCCCTATTTGTACTT
CGATACCCCTAAATGCACACACGTGCCACTGATTGTACTTCGGTACCCTTAAATG
Found at i:30757947 original size:40 final size:40
Alignment explanation
Indices: 30757721--30757951 Score: 234
Period size: 40 Copynumber: 5.8 Consensus size: 40
30757711 TGTATGAATA
* ** * *
30757721 CACATACGTGCCCCGGATTGTACTTCAATACTAC-TGAATG
1 CACATACGTGCCCCTGATTGTACTTCGGTAC-CCTTAAATG
* * * * *
30757761 CACATATGTGCCCCTGTTTGTACTTCGATACCCCTGAATG
1 CACATACGTGCCCCTGATTGTACTTCGGTACCCTTAAATG
*** * * *
30757801 CACACGTGTGCCACTGTTTGTACTTTGGTACCCTTAAATG
1 CACATACGTGCCCCTGATTGTACTTCGGTACCCTTAAATG
* *
30757841 CACATACGTGCCCCT-ATTTGTACTTCAGTACCCTTAGATG
1 CACATACGTGCCCCTGA-TTGTACTTCGGTACCCTTAAATG
*
30757881 CACATACATGCCCCT-ATTTGTACTTCGGTACCCTTAAATG
1 CACATACGTGCCCCTGA-TTGTACTTCGGTACCCTTAAATG
*
30757921 CACATACGTGCCCTTGATTGTACTTCGGTAC
1 CACATACGTGCCCCTGATTGTACTTCGGTAC
30757952 TTCTGAAAGC
Statistics
Matches: 163, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 161 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.32
Consensus pattern (40 bp):
CACATACGTGCCCCTGATTGTACTTCGGTACCCTTAAATG
Found at i:30757968 original size:80 final size:81
Alignment explanation
Indices: 30757757--30757980 Score: 226
Period size: 80 Copynumber: 2.8 Consensus size: 81
30757747 AATACTACTG
* * * **** *
30757757 AATGCACATATGTGCCCCTGTTTGTACTTC-GATACCCCTGA-ATGCACACGTGTGCCACTG-TT
1 AATGCACATACGTGCCCCTATTTGTACTTCAG-TA-CCCTGAGAAGCACATACATGCCCCTGATT
*
30757819 TGTACTTTGGTACCCTTA
64 TGTACTTCGGTACCCTTA
* *
30757837 AATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTAGATGCACATACATGCCCCT-ATTTG
1 AATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTGAGAAGCACATACATGCCCCTGATTTG
30757901 TACTTCGGTACCCTTA
66 TACTTCGGTACCCTTA
* * * * *
30757917 AATGCACATACGTGCCCTTGA-TTGTACTTCGGTACTTCTGA-AAGCATATACATGCTCCTGATT
1 AATGCACATACGTGCCCCT-ATTTGTACTTCAGTAC-CCTGAGAAGCACATACATGCCCCTGATT
30757980 T
64 T
30757981 TATTCTGGTA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.04
80 108 0.89
81 9 0.07
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (81 bp):
AATGCACATACGTGCCCCTATTTGTACTTCAGTACCCTGAGAAGCACATACATGCCCCTGATTTG
TACTTCGGTACCCTTA
Found at i:30757979 original size:40 final size:39
Alignment explanation
Indices: 30757721--30757979 Score: 159
Period size: 40 Copynumber: 6.5 Consensus size: 39
30757711 TGTATGAATA
* * ** *
30757721 CACATACGTGCCCCGGATTGTACTTCAATACTACTG-AATG
1 CACATACATG-CCCTGATTGTACTTCGGTAC-CCTGAAATG
** * *
30757761 CACATATGTGCCCCTGTTTGTACTTCGATACCCCTG-AATG
1 CACATACATG-CCCTGATTGTACTTCGGTA-CCCTGAAATG
**** * * *
30757801 CACACGTGTGCCACTGTTTGTACTTTGGTACCCTTAAATG
1 CACATACATGCC-CTGATTGTACTTCGGTACCCTGAAATG
* * * *
30757841 CACATACGTGCCCCT-ATTTGTACTTCAGTACCCTTAGATG
1 CACATACATG-CCCTGA-TTGTACTTCGGTACCCTGAAATG
*
30757881 CACATACATGCCCCT-ATTTGTACTTCGGTACCCTTAAATG
1 CACATACATG-CCCTGA-TTGTACTTCGGTACCCTGAAATG
* *
30757921 CACATACGTGCCCTTGATTGTACTTCGGTACTTCTGAAA-G
1 CACATACATGCCC-TGATTGTACTTCGGTAC-CCTGAAATG
*
30757961 CATATACATGCTCCTGATT
1 CACATACATGC-CCTGATT
30757980 TTATTCTGGT
Statistics
Matches: 185, Mismatches: 25, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
39 9 0.05
40 165 0.89
41 11 0.06
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (39 bp):
CACATACATGCCCTGATTGTACTTCGGTACCCTGAAATG
Found at i:30759851 original size:46 final size:46
Alignment explanation
Indices: 30759801--30759976 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30759791 TGGTTGAGCA
30759801 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30759847 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30759892 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30759940 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30759977 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30759957 original size:93 final size:93
Alignment explanation
Indices: 30759798--30759969 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30759788 GGATGGTTGA
* *
30759798 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30759863 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30759891 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30759956 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
30759970 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30767411 original size:46 final size:46
Alignment explanation
Indices: 30767361--30767536 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30767351 TGGTTGAGCA
30767361 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30767407 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30767452 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30767500 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30767537 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30767517 original size:93 final size:93
Alignment explanation
Indices: 30767358--30767529 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30767348 GGATGGTTGA
* *
30767358 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30767423 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30767451 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30767516 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
30767530 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30768931 original size:199 final size:197
Alignment explanation
Indices: 30768591--30768986 Score: 756
Period size: 199 Copynumber: 2.0 Consensus size: 197
30768581 ACTAATTGGC
30768591 CAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTAGATTCAGGGAAAATTTAC
1 CAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTAGATTCAGGGAAAATTTAC
30768656 GGATCTTGATTTGAGTTTCGTAACTCGAGATATGATTTTTCTTGTGACTGTGACGCAAGTAGCTT
66 GGATCTTGATTTGAGTTTCGTAACTCGAGATATGATTTTTCTTGTGACTGTGACGCAAGTAGCTT
*
30768721 AAAAGCTGTGAATGTAGAAACAATAATCCAAAGTTCTAAAAATGTTAAACTAAGCTTAGTAACAC
131 AAAAGCTGTGAATGTAGAAAAAATAATCCAAAGTTCT-AAAATGTTAAA-TAAGCTTAGTAACAC
30768786 CTCA
194 CTCA
30768790 CAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTAGATTCAGGGAAAATTTAC
1 CAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTAGATTCAGGGAAAATTTAC
*
30768855 GGATCTTGATTTGAGTTTCGTAACTCGAGATATGATTTTTCTTGTGACTGTGATGCAAGTAGCTT
66 GGATCTTGATTTGAGTTTCGTAACTCGAGATATGATTTTTCTTGTGACTGTGACGCAAGTAGCTT
30768920 AAAAGCTGTGAATGTAGAAAAAATAATCCAAAGTTCTAAAATGTTAAATAAGCTTAGTAACACCT
131 AAAAGCTGTGAATGTAGAAAAAATAATCCAAAGTTCTAAAATGTTAAATAAGCTTAGTAACACCT
30768985 CA
196 CA
30768987 TACTCGACTC
Statistics
Matches: 195, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
197 19 0.10
198 11 0.06
199 165 0.85
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (197 bp):
CAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTAGATTCAGGGAAAATTTAC
GGATCTTGATTTGAGTTTCGTAACTCGAGATATGATTTTTCTTGTGACTGTGACGCAAGTAGCTT
AAAAGCTGTGAATGTAGAAAAAATAATCCAAAGTTCTAAAATGTTAAATAAGCTTAGTAACACCT
CA
Found at i:30771424 original size:46 final size:46
Alignment explanation
Indices: 30771374--30771549 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30771364 TGGTTGAGCA
30771374 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30771420 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30771465 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30771513 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30771550 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30771530 original size:93 final size:93
Alignment explanation
Indices: 30771371--30771542 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30771361 GGATGGTTGA
* *
30771371 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30771436 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30771464 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30771529 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
30771543 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30778947 original size:46 final size:46
Alignment explanation
Indices: 30778897--30779072 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30778887 TGGTTGAGCA
30778897 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30778943 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30778988 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30779036 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30779073 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30779053 original size:93 final size:93
Alignment explanation
Indices: 30778894--30779065 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30778884 GGATGGTTGA
* *
30778894 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30778959 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30778987 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30779052 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
30779066 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30783186 original size:27 final size:28
Alignment explanation
Indices: 30783129--30783198 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
30783119 AAACTTGTAC
*
30783129 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
30783157 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
30783184 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
30783199 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:30783209 original size:27 final size:27
Alignment explanation
Indices: 30783129--30783210 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
30783119 AAACTTGTAC
* * *
30783129 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
30783157 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
30783184 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
30783211 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:30787817 original size:17 final size:17
Alignment explanation
Indices: 30787786--30787825 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
30787776 GAAGAGTCCA
*
30787786 CCAAACCCTGGAGTTCG
1 CCAAATCCTGGAGTTCG
*
30787803 CCAAATCCTGGAGTTTG
1 CCAAATCCTGGAGTTCG
30787820 CCAAAT
1 CCAAAT
30787826 GATGAATCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (17 bp):
CCAAATCCTGGAGTTCG
Found at i:30800729 original size:18 final size:18
Alignment explanation
Indices: 30800708--30800742 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30800698 ATAATAAATC
30800708 AATTAAAAAAAATAAAAG
1 AATTAAAAAAAATAAAAG
* *
30800726 AATTACAAAGAATAAAA
1 AATTAAAAAAAATAAAA
30800743 ACGTAAACTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (18 bp):
AATTAAAAAAAATAAAAG
Found at i:30802393 original size:133 final size:133
Alignment explanation
Indices: 30802243--30802520 Score: 396
Period size: 133 Copynumber: 2.1 Consensus size: 133
30802233 CTCTCTTGCT
* * *
30802243 ACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGA-TCT
1 ACCTCAGGGAGACAAGGCTAGTGGCTAAAATCTGCTCCATTATCGATACATGGAGATAAGATTC-
* * * *
30802307 GCCGTCTTCAATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTCAC
65 ACCGTCTTCAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAGTCTGCTCCAC
30802372 TGCA
130 TGCA
** * * *
30802376 ATTTCAGGGAGACAAGGCTGGTGGCTTAAATTTGCTCCATTATCGATACATGGAGATAAGATTCA
1 ACCTCAGGGAGACAAGGCTAGTGGCTAAAATCTGCTCCATTATCGATACATGGAGATAAGATTCA
* ** *
30802441 CCGTTTTTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGTCTGCTCCACT
66 CCGTCTTCAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAGTCTGCTCCACT
30802506 GCA
131 GCA
30802509 ACCTCAGGGAGA
1 ACCTCAGGGAGA
30802521 TAGGACTTGT
Statistics
Matches: 126, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
133 124 0.98
134 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (133 bp):
ACCTCAGGGAGACAAGGCTAGTGGCTAAAATCTGCTCCATTATCGATACATGGAGATAAGATTCA
CCGTCTTCAATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAGTCTGCTCCACT
GCA
Found at i:30802499 original size:44 final size:43
Alignment explanation
Indices: 30802451--30802571 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 43
30802441 CCGTTTTTGA
*
30802451 TCTGCTCCACTACTGCTTAAGGAGATAAGA-TCTGTAATTTTCAG
1 TCTGCTCCACTACTGCTTAAGGAGATAAGACT-TGT-ATATTCAG
* ** * * * *
30802495 TCTGCTCCACTGCAACCTCAGGGAGATAGGACTTGTATATTGAG
1 TCTGCTCCACTAC-TGCTTAAGGAGATAAGACTTGTATATTCAG
*
30802539 TCTGCTCCACTACTGCTTCAAGAAGATAAGACT
1 TCTGCTCCACTACTGCTT-AAGGAGATAAGACT
30802572 AGTGGTTTAA
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
43 2 0.03
44 41 0.69
45 15 0.25
46 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
TCTGCTCCACTACTGCTTAAGGAGATAAGACTTGTATATTCAG
Found at i:30802566 original size:133 final size:133
Alignment explanation
Indices: 30802243--30802569 Score: 309
Period size: 133 Copynumber: 2.5 Consensus size: 133
30802233 CTCTCTTGCT
* * * * * * * * * *
30802243 ACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGA-TCT
1 ACCTCAGGGAGACAAGGCTGGTAGATTAAATCTGCTCCACTATCGATACAAGAAGATAAGATTC-
* * ** * * *
30802307 GCCGTCTTCAATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGCTTCAC
65 ACCGTTTTTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAGTCTGCTCCAC
30802372 TGCA
130 TGCA
** * * * * * *
30802376 ATTTCAGGGAGACAAGGCTGGTGGCTTAAATTTGCTCCATTATCGATACATGGAGATAAGATTCA
1 ACCTCAGGGAGACAAGGCTGGTAGATTAAATCTGCTCCACTATCGATACAAGAAGATAAGATTCA
*
30802441 CCGTTTTTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGTCTGCTCCACT
66 CCGTTTTTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAGTCTGCTCCACT
30802506 GCA
131 GCA
* * * * * * *
30802509 ACCTCAGGGAGA-TAGGACTTGTATATTGAGTCTGCTCCACTA-CTGCTTCAAGAAGATAAGA
1 ACCTCAGGGAGACAAGG-CTGGTAGATTAAATCTGCTCCACTATC-GATACAAGAAGATAAGA
30802570 CTAGTGGTTT
Statistics
Matches: 160, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
132 4 0.03
133 154 0.96
134 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (133 bp):
ACCTCAGGGAGACAAGGCTGGTAGATTAAATCTGCTCCACTATCGATACAAGAAGATAAGATTCA
CCGTTTTTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAGTCTGCTCCACT
GCA
Found at i:30802591 original size:177 final size:177
Alignment explanation
Indices: 30802396--30803192 Score: 995
Period size: 177 Copynumber: 4.5 Consensus size: 177
30802386 GACAAGGCTG
* * * * *
30802396 GTGGCTTAAATTTGCTCCATTATCGATACATGGAGATAAGATTCACCGTTTTTGATCTGCTCCAC
1 GTGGCTTAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCAC
* *
30802461 TACTGCTTAAGGAGATAAGATCTGTAATTTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAGGA
66 TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
* * **
30802526 CTTGTATATTGAGTCTGCTCCACTACTGCTTCAAGAAGATAAGACTA
131 CTTGTATATTGAGCCTACTCCACTACAACTTCAAGAAGATAAGACTA
* * * * *
30802573 GTGGTTTAAATCTGCTCCATTGTCGATACATAGAGATAAGATCCGTCGTCTTCGATCTGTTCCAC
1 GTGGCTTAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCAC
* * * * *
30802638 TACTACTTAGGGAGATAAGATCTGTAATTTTTAGTCTACTCCACTGTAATCTCAGGGAGATAAGA
66 TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
* * * *
30802703 CTTGTATATTGAGCCTACTCCACAACAACTTCAAGGAGATAGGGCTA
131 CTTGTATATTGAGCCTACTCCACTACAACTTCAAGAAGATAAGACTA
* * * ** * *
30802750 GTGACTTAAATCTGCTTCATTGCCGATACATGGAGATAAGATTTTCCATCTTCGATCTACTCCAC
1 GTGGCTTAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCAC
* *
30802815 TACTGCTTAGGGAGATAATATCTGTAATTTTTAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
66 TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
* * * *
30802880 CTTATATATTGAGCCTACTCCACTGCAACTTCAAGGAGATAAGGCTA
131 CTTGTATATTGAGCCTACTCCACTACAACTTCAAGAAGATAAGACTA
* *
30802927 GTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATCCGCCGTCTTCGATCTGCTCCAC
1 GTGGCTTAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCAC
* * * * *
30802992 TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTTCC-TTACTACCTCAAGAAGATAAG
66 TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGC-TCCACTGCAACCTCAGGGAGATAAG
* * * * * * * * * *
30803056 ACTTGTATCTTCAACTTGCTCTATTGCTACCTC-AGAGAGATAAGACTA
130 ACTTGTATATTGAGCCTACTCCACTACAACTTCAAGA-AGATAAGACTA
* * * * ***
30803104 GTTGCTAAAATCTACTTCATTGTCGATACATGGAGATAAGATTTTTCGTCTTCGATCTGCTCCAC
1 GTGGCTTAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCAC
*
30803169 TACTGCTTAGGAAGATAAGATCTG
66 TACTGCTTAGGGAGATAAGATCTG
30803193 CGAATTCACC
Statistics
Matches: 536, Mismatches: 82, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
176 2 0.00
177 531 0.99
178 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (177 bp):
GTGGCTTAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCAC
TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
CTTGTATATTGAGCCTACTCCACTACAACTTCAAGAAGATAAGACTA
Found at i:30802962 original size:88 final size:88
Alignment explanation
Indices: 30802693--30802967 Score: 256
Period size: 88 Copynumber: 3.1 Consensus size: 88
30802683 GTAATCTCAG
* * *
30802693 GGAGATAAGACTTGTATATTGAGCCTACTCCACAACAACTTCAAGGAGATAGGGCTAGTGACTTA
1 GGAGATAAGACTTATATATTGAGCCTACTCCACTACAACTTCAAGGAGATAAGGCTAGTGACTTA
*
30802758 AATCTGCTTCATTGCCGATACAT
66 AATCTGCTCCATTGCCGATACAT
* * * ** * ** *
30802781 GGAGATAAGA-TTTTCCATCTTCGA-TCTACTCCACTACTGCTT-AGGGAGATAATATCT-GTAA
1 GGAGATAAGACTTAT--ATATT-GAGCCTACTCCACTACAACTTCAAGGAGATAA-GGCTAGTGA
* * * * * *
30802842 TTTTTAGTCTGCTCCACTGCAAC-CT-CAG
62 -CTTAAATCTGCTCCATTGC--CGATACAT
* *
30802870 GGAGATAAGACTTATATATTGAGCCTACTCCACTGCAACTTCAAGGAGATAAGGCTAGTGGCTTA
1 GGAGATAAGACTTATATATTGAGCCTACTCCACTACAACTTCAAGGAGATAAGGCTAGTGACTTA
30802935 AATCTGCTCCATTGCCGATACAT
66 AATCTGCTCCATTGCCGATACAT
30802958 GGAGATAAGA
1 GGAGATAAGA
30802968 TCCGCCGTCT
Statistics
Matches: 139, Mismatches: 35, Indels: 26
0.69 0.17 0.13
Matches are distributed among these distances:
86 1 0.01
87 6 0.04
88 68 0.49
89 57 0.41
90 6 0.04
91 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (88 bp):
GGAGATAAGACTTATATATTGAGCCTACTCCACTACAACTTCAAGGAGATAAGGCTAGTGACTTA
AATCTGCTCCATTGCCGATACAT
Found at i:30803320 original size:24 final size:23
Alignment explanation
Indices: 30803272--30803320 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
30803262 GTTTATGCCC
*
30803272 AAATGATTAGGATGCTATAATCA
1 AAATGATTAGGATGCTATAACCA
*
30803295 AAATGAATTA-GATGCTCCTAACCA
1 AAATG-ATTAGGATGCT-ATAACCA
30803319 AA
1 AA
30803321 TGCGCTATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (23 bp):
AAATGATTAGGATGCTATAACCA
Found at i:30805871 original size:19 final size:18
Alignment explanation
Indices: 30805849--30805903 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
30805839 GTCATGAATG
30805849 AAGAATAAAAGAATATTCA
1 AAGAATAAAAGAATATT-A
* *
30805868 AAGAACAAAAGAACATATA
1 AAGAATAAAAGAATAT-TA
*
30805887 AAGAATGAAAGAATATT
1 AAGAATAAAAGAATATT
30805904 TTCTCAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 28 0.93
20 1 0.03
ACGTcount: A:0.64, C:0.05, G:0.13, T:0.18
Consensus pattern (18 bp):
AAGAATAAAAGAATATTA
Found at i:30806972 original size:10 final size:9
Alignment explanation
Indices: 30806956--30806980 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
30806946 AAATTCAGGG
30806956 TAAAAAAAA
1 TAAAAAAAA
30806965 TAAAAAAAA
1 TAAAAAAAA
30806974 TAAAAAA
1 TAAAAAA
30806981 TATTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:30807705 original size:46 final size:44
Alignment explanation
Indices: 30807646--30807760 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
30807636 ACAGGACAGA
* *
30807646 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
30807692 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
30807736 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
30807761 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:30807741 original size:44 final size:45
Alignment explanation
Indices: 30807646--30807779 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
30807636 ACAGGACAGA
* *
30807646 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
30807692 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
30807736 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
30807780 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:30812435 original size:2 final size:2
Alignment explanation
Indices: 30812428--30812458 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
30812418 AAAACAATTA
30812428 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30812459 AAAATGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30814858 original size:23 final size:22
Alignment explanation
Indices: 30814824--30814871 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
30814814 CTATTTATTA
*
30814824 TTTTGAATATTTATTTTTTGTT
1 TTTTGAATATTTATTCTTTGTT
*
30814846 TTTTTAATAATTTATTCTTTGTT
1 TTTTGAAT-ATTTATTCTTTGTT
30814869 TTT
1 TTT
30814872 AAATTTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (22 bp):
TTTTGAATATTTATTCTTTGTT
Found at i:30818757 original size:35 final size:34
Alignment explanation
Indices: 30818708--30818789 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 34
30818698 TACAGTGTAC
* *
30818708 TCTGGTGTGTTGGTTGATCTGGCTC-TTACGAGCA
1 TCTGGTGTGCTGGTTGATCTGGCTCATT-CAAGCA
*
30818742 TTCTGGTGTGCTGGTTGGTCTGGCTCATTCAAGCA
1 -TCTGGTGTGCTGGTTGATCTGGCTCATTCAAGCA
*
30818777 TCTAGTGTGCTGG
1 TCTGGTGTGCTGG
30818790 ATGGTTAACC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 12 0.29
35 28 0.67
36 2 0.05
ACGTcount: A:0.11, C:0.18, G:0.33, T:0.38
Consensus pattern (34 bp):
TCTGGTGTGCTGGTTGATCTGGCTCATTCAAGCA
Found at i:30828750 original size:27 final size:28
Alignment explanation
Indices: 30828720--30828789 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
30828710 ATAGTGAATC
*
30828720 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
30828747 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
30828775 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30828790 GTACAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:30831397 original size:11 final size:11
Alignment explanation
Indices: 30831363--30831402 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
30831353 ATACTTAAAA
30831363 TAAATAATAAT
1 TAAATAATAAT
*
30831374 T-AAT--TACT
1 TAAATAATAAT
30831382 TAAATAATAAT
1 TAAATAATAAT
30831393 TAAATAATAA
1 TAAATAATAA
30831403 ATTTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
8 4 0.17
9 3 0.12
10 3 0.12
11 14 0.58
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATAATAAT
Found at i:30838805 original size:23 final size:24
Alignment explanation
Indices: 30838754--30838802 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
30838744 TTTGAACAAG
* *
30838754 TTTATCGTTAAAAATGTTACTAAA
1 TTTATCATTAAAAATATTACTAAA
30838778 TTTATCATTAAAAA-ATTA-TAAA
1 TTTATCATTAAAAATATTACTAAA
30838800 TTT
1 TTT
30838803 TATAAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
23 3 0.13
24 13 0.57
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (24 bp):
TTTATCATTAAAAATATTACTAAA
Found at i:30843010 original size:18 final size:19
Alignment explanation
Indices: 30842975--30843016 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
30842965 TTTCTGCAGT
30842975 GAAAAATAAAAGAAAAG-A
1 GAAAAATAAAAGAAAAGAA
**
30842993 GAAAAATAAAAGGGAAGAA
1 GAAAAATAAAAGAAAAGAA
30843012 GAAAA
1 GAAAA
30843017 GAAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (19 bp):
GAAAAATAAAAGAAAAGAA
Found at i:30850427 original size:17 final size:18
Alignment explanation
Indices: 30850396--30850429 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
30850386 AAAAAATCAC
30850396 TTAACAACACAAGTTTAT
1 TTAACAACACAAGTTTAT
30850414 TTAACAAC-CAAGTTTA
1 TTAACAACACAAGTTTA
30850430 ATAATCTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (18 bp):
TTAACAACACAAGTTTAT
Found at i:30854166 original size:19 final size:20
Alignment explanation
Indices: 30854144--30854182 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
30854134 ACAACAACAT
30854144 CATA-AAGAGTCAACCAATC
1 CATACAAGAGTCAACCAATC
30854163 CATATCAAGAGTCAACCAAT
1 CATA-CAAGAGTCAACCAAT
30854183 TCATCAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.26, G:0.10, T:0.18
Consensus pattern (20 bp):
CATACAAGAGTCAACCAATC
Found at i:30859793 original size:30 final size:30
Alignment explanation
Indices: 30859757--30859841 Score: 118
Period size: 30 Copynumber: 2.8 Consensus size: 30
30859747 TTGAAAGGTG
*
30859757 GCAACAATGCAGCAGCATGCAAGTGACCAA
1 GCAACAATGCAGCAGCATGCAAATGACCAA
30859787 GCAACAATGCAGCAGCATGCAAATGACCAA
1 GCAACAATGCAGCAGCATGCAAATGACCAA
* * *
30859817 GTAACACA-GCAACATCATGCAAATG
1 GCAACA-ATGCAGCAGCATGCAAATG
30859842 TCCATGGTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 49 0.98
31 1 0.02
ACGTcount: A:0.42, C:0.26, G:0.20, T:0.12
Consensus pattern (30 bp):
GCAACAATGCAGCAGCATGCAAATGACCAA
Found at i:30864686 original size:29 final size:29
Alignment explanation
Indices: 30864644--30864703 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
30864634 GTGAGAGAGG
30864644 CAGAGTTGTGAAAGGAAATCAACTTGATC
1 CAGAGTTGTGAAAGGAAATCAACTTGATC
30864673 CAGAGTTGTGAAAGGAAATCAACTTGATC
1 CAGAGTTGTGAAAGGAAATCAACTTGATC
30864702 CA
1 CA
30864704 TTGCTGCTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (29 bp):
CAGAGTTGTGAAAGGAAATCAACTTGATC
Found at i:30865112 original size:4 final size:4
Alignment explanation
Indices: 30865103--30865140 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
30865093 CTCGGTTAAT
* *
30865103 GGAG GGAG GGAG GGAG GGAG GGAG GAAT GGAG GGAG GG
1 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GG
30865141 GGGGGGGGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.71, T:0.03
Consensus pattern (4 bp):
GGAG
Found at i:30874585 original size:93 final size:93
Alignment explanation
Indices: 30874473--30874644 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30874463 CGCCCATAAG
* *
30874473 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30874538 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
30874566 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30874631 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30874645 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30874641 original size:46 final size:46
Alignment explanation
Indices: 30874466--30874641 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30874456 TGTAACCCGC
* * *
30874466 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
30874512 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
30874562 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30874605 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30874642 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30882158 original size:93 final size:93
Alignment explanation
Indices: 30882046--30882217 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30882036 CGCCCATAAG
* *
30882046 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30882111 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
30882139 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30882204 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30882218 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30882214 original size:46 final size:46
Alignment explanation
Indices: 30882039--30882214 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30882029 TGTAACCCGC
* * *
30882039 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
30882085 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
30882135 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30882178 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30882215 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30883583 original size:2 final size:2
Alignment explanation
Indices: 30883576--30883601 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30883566 ATGATATTGA
30883576 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
30883602 GACTTGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30886315 original size:40 final size:40
Alignment explanation
Indices: 30886271--30886380 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
30886261 TTCACAATTT
* *
30886271 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
30886311 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * * *
30886351 GCATAAATGTCTTCGGGACTTAGCCTGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
30886381 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:30894376 original size:40 final size:40
Alignment explanation
Indices: 30894332--30894441 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
30894322 TTCACAATTT
* *
30894332 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
30894372 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * * *
30894412 GCATAAATGTCTTCGGGACTTAGCCTGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
30894442 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:30901853 original size:44 final size:43
Alignment explanation
Indices: 30901795--30901953 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
30901785 GGATTCCTAG
*
30901795 ATGTGATATCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
1 ATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
* * *
30901838 TTGAT-ATTTACGTGTAAGACCATGTCTGAGACATTGGCACCG-T
1 ATG-TGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGAT
* * *
30901881 ATGTGATTTCGTGTAAGACCTTGTCTGGGACAGTGACATCGAT
1 ATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
* ** * * *
30901924 ATTTGATAACATGTAAAACCATATCTGGGA
1 ATGTGATTTCGTGTAAGACCATGTCTGGGA
30901954 TATGACATTG
Statistics
Matches: 95, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 28 0.29
43 36 0.38
44 31 0.33
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
ATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:30901907 original size:42 final size:41
Alignment explanation
Indices: 30901794--30901912 Score: 157
Period size: 44 Copynumber: 2.8 Consensus size: 41
30901784 AGGATTCCTA
* *
30901794 GATGTGATATCGTGTAAGACCATGTCTGGGACATTGGCATC
1 GATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCACC
* *
30901835 GATTTGATATTTACGTGTAAGACCATGTCTGAGACATTGGCACC
1 GATGTG--ATTT-CGTGTAAGACCATGTCTGGGACATTGGCACC
*
30901879 GTATGTGATTTCGTGTAAGACCTTGTCTGGGACA
1 G-ATGTGATTTCGTGTAAGACCATGTCTGGGACA
30901913 GTGACATCGA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
41 5 0.07
42 21 0.31
43 7 0.10
44 30 0.45
45 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (41 bp):
GATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCACC
Found at i:30906410 original size:27 final size:27
Alignment explanation
Indices: 30906407--30906509 Score: 170
Period size: 27 Copynumber: 3.8 Consensus size: 27
30906397 ATTATCGTTC
30906407 TACCCTCGATTTATAGAATTACAATTT
1 TACCCTCGATTTATAGAATTACAATTT
30906434 TACCCTCGATTTATAGAATTACAATTT
1 TACCCTCGATTTATAGAATTACAATTT
**
30906461 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACAATTT
* *
30906488 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
30906510 TAAAATACCC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACAATTT
Found at i:30906446 original size:54 final size:54
Alignment explanation
Indices: 30906387--30906509 Score: 176
Period size: 54 Copynumber: 2.3 Consensus size: 54
30906377 AAGTACCCCA
*
30906387 GATTTACAGAATTATC-GTTCTACCCTCGATTTATAGAATTACAATTTTACCCTC
1 GATTTACAGAATTA-CAATTCTACCCTCGATTTATAGAATTACAATTTTACCCTC
* * **
30906441 GATTTATAGAATTACAATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACAATTCTACCCTCGATTTATAGAATTACAATTTTACCCTC
*
30906495 GATTTACAAAATTAC
1 GATTTACAGAATTAC
30906510 TAAAATACCC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.02
54 60 0.98
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (54 bp):
GATTTACAGAATTACAATTCTACCCTCGATTTATAGAATTACAATTTTACCCTC
Found at i:30906518 original size:27 final size:27
Alignment explanation
Indices: 30906407--30906620 Score: 148
Period size: 27 Copynumber: 7.9 Consensus size: 27
30906397 ATTATCGTTC
* **
30906407 TACCCTCGATTTATAGAATTAC-AATTT
1 TACCCTCGATTTATAAAATTACTAA-AA
* **
30906434 TACCCTCGATTTATAGAATTAC-AATTT
1 TACCCTCGATTTATAAAATTACTAA-AA
* *****
30906461 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
*
30906488 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
30906515 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
* * * *
30906542 TACCCCCTAATTTGTAAAATTACTGAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
* *
30906570 TACCCTCGACTTGTA-AAAATTACCAAAG
1 TACCCTCGA-TT-TATAAAATTACTAAAA
*
30906598 TACCCTCGATTTATAGAATTACT
1 TACCCTCGATTTATAAAATTACT
30906621 GTTTTACTCG
Statistics
Matches: 158, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.02
27 108 0.68
28 46 0.29
29 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:30906588 original size:28 final size:27
Alignment explanation
Indices: 30906488--30906620 Score: 133
Period size: 28 Copynumber: 4.9 Consensus size: 27
30906478 ATTACCGTTT
**
30906488 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
*
30906515 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTGTAAAATTACTAAAA
* * *
30906542 TACCCCCTAATTTGTAAAATTACTGAAA
1 TACCCTC-GATTTGTAAAATTACTAAAA
* * *
30906570 TACCCTCGACTTGTAAAAATTACCAAAG
1 TACCCTCGATTTGT-AAAATTACTAAAA
* *
30906598 TACCCTCGATTTATAGAATTACT
1 TACCCTCGATTTGTAAAATTACT
30906621 GTTTTACTCG
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
26 1 0.01
27 39 0.45
28 47 0.54
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACTAAAA
Found at i:30906618 original size:55 final size:54
Alignment explanation
Indices: 30906488--30906621 Score: 144
Period size: 55 Copynumber: 2.4 Consensus size: 54
30906478 ATTACCGTTT
* * ** *
30906488 TACCCTCGATTTACAAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTGAAATACCCCTGACTTGTAAAATTACCAAAA
* * * *
30906542 TACCCCCTAATTTGTAAAATTACTGAAATA-CCCTCGACTTGTAAAAATTACCAAAG
1 TACCCTC-GATTTATAAAATTACTGAAATACCCCT-GACTTGT-AAAATTACCAAAA
*
30906598 TACCCTCGATTTATAGAATTACTG
1 TACCCTCGATTTATAAAATTACTG
30906622 TTTTACTCGT
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
54 10 0.16
55 37 0.58
56 17 0.27
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTGAAATACCCCTGACTTGTAAAATTACCAAAA
Found at i:30906635 original size:27 final size:27
Alignment explanation
Indices: 30906605--30906681 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
30906595 AAGTACCCTC
* *
30906605 GATTTATAGAATTACTGTTTTACTCGT
1 GATTTACAAAATTACTGTTTTACTCGT
*
30906632 GATTTACAAAATTACTGTTTTACTCTT
1 GATTTACAAAATTACTGTTTTACTCGT
* *
30906659 AATTTACAAAATTACCGTTTTAC
1 GATTTACAAAATTACTGTTTTAC
30906682 CCTTGATTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.45
Consensus pattern (27 bp):
GATTTACAAAATTACTGTTTTACTCGT
Found at i:30906751 original size:27 final size:27
Alignment explanation
Indices: 30906721--30906864 Score: 139
Period size: 27 Copynumber: 5.3 Consensus size: 27
30906711 TATAGGATAG
* *
30906721 AATTACCAAAACACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* ** *
30906748 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
30906775 AATTATCAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
30906802 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * *
30906829 AATTA-CAGAAATACCCTTGATTTGTAG
1 AATTACCA-AAATACCCCTAATTTGTAA
*
30906856 ATTTACCAA
1 AATTACCAA
30906865 CACACCATTG
Statistics
Matches: 95, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
26 5 0.05
27 84 0.88
28 6 0.06
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:30906760 original size:54 final size:53
Alignment explanation
Indices: 30906688--30906820 Score: 126
Period size: 54 Copynumber: 2.5 Consensus size: 53
30906678 TTACCCTTGA
* ** *
30906688 TTGTGAAATTACTGAAATACCCCTATAGGAT-AGAATTACCAAAACACCC-CTAGT
1 TTGTAAAATTACCAAAATACCCCTATAGG-TGA-AATTACCAAAACACCCTC-AAT
* * ** * *
30906742 TTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTATCAAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-ATAGGTGAAATTACCAAAACACCCTCAAT
30906796 TTGTAAAATTACCAAAATACCCCTA
1 TTGTAAAATTACCAAAATACCCCTA
30906821 ATTTACAAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
54 60 0.94
55 4 0.06
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (53 bp):
TTGTAAAATTACCAAAATACCCCTATAGGTGAAATTACCAAAACACCCTCAAT
Found at i:30906853 original size:81 final size:81
Alignment explanation
Indices: 30906658--30906853 Score: 195
Period size: 81 Copynumber: 2.4 Consensus size: 81
30906648 GTTTTACTCT
* *** * * *
30906658 TAATTTACAAAATTACCGTTTTACCCTTGA-TTGTGAAATTACTGAAATACCCCTATAGGATAGA
1 TAATTTACAAAATTACAGAAATACCCTTGATTTGTGAAATTACTAAAATACCCCAATAGGATAAA
30906722 ATTACCAAAACACCCC
66 ATTACCAAAACACCCC
* ** * **
30906738 TAGTTTGTAAAATTACCA-AAATACCAC-TGGTTTGTGAAATTA-TCAAAATACCCTCAATTTG-
1 TAATTTACAAAATTA-CAGAAATACC-CTTGATTTGTGAAATTACT-AAAATACCC-CAATAGGA
*
30906799 TAAAATTACCAAAATACCCC
62 TAAAATTACCAAAACACCCC
30906819 TAATTTACAAAATTACAGAAATACCCTTGATTTGT
1 TAATTTACAAAATTACAGAAATACCCTTGATTTGT
30906854 AGATTTACCA
Statistics
Matches: 91, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
80 22 0.24
81 65 0.71
82 4 0.04
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
TAATTTACAAAATTACAGAAATACCCTTGATTTGTGAAATTACTAAAATACCCCAATAGGATAAA
ATTACCAAAACACCCC
Found at i:30907701 original size:20 final size:20
Alignment explanation
Indices: 30907676--30907722 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
30907666 GATATGATAT
30907676 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
30907696 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
30907716 ACATGAT
1 ACATGAT
30907723 GTATTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:30907850 original size:52 final size:51
Alignment explanation
Indices: 30907772--30907907 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
30907762 GAGGAAGTGC
*
30907772 AAAAGGGCTTATGCCTCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
30907824 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
30907875 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
30907908 AGGCCTCCAG
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 25 0.30
52 35 0.43
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:30907869 original size:25 final size:26
Alignment explanation
Indices: 30907772--30907907 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
30907762 GAGGAAGTGC
*
30907772 AAAAGGGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
30907798 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
30907824 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
30907850 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
30907875 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
30907898 AAAAGAGGCT
1 AAAAG-GGCT
30907908 AGGCCTCCAG
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 31 0.31
26 57 0.57
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:30908099 original size:42 final size:42
Alignment explanation
Indices: 30908040--30908133 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
30908030 TAGTCTCCCC
* ** *
30908040 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
30908082 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
30908124 AAATGGGCTT
1 AAATGGGCTT
30908134 ATGGGCTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:30908190 original size:31 final size:31
Alignment explanation
Indices: 30908155--30908264 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
30908145 CGTTTACAGT
*
30908155 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
*
30908186 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
30908217 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
*
30908248 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCAGCCCAGT
30908265 AACCGTTAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:30910557 original size:27 final size:27
Alignment explanation
Indices: 30910527--30910781 Score: 174
Period size: 27 Copynumber: 9.4 Consensus size: 27
30910517 TTTACCAAAG
* * *
30910527 TACCCCCGATTTACAGAATTATTGTTC
1 TACCCTCGATTTACAGAATTACTGTTT
* *
30910554 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
30910581 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * ****
30910608 TACCTTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACTGTTT
* ** * ****
30910635 TACCC-CTAATTTGTAAAATTACTAAAA
1 TACCCTC-GATTTACAGAATTACTGTTT
* *****
30910662 TACCCTCGACTTGTA-AAAATTACCAAAG
1 TACCCTCGA-TT-TACAGAATTACTGTTT
*
30910690 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
30910717 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
30910744 TACCC-CTGATTTACAAAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACTGTTT
30910771 TACCCTCGATT
1 TACCCTCGATT
30910782 GTGAAATTAC
Statistics
Matches: 187, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.02
27 158 0.84
28 24 0.13
29 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:30910591 original size:54 final size:53
Alignment explanation
Indices: 30910530--30910781 Score: 218
Period size: 54 Copynumber: 4.7 Consensus size: 53
30910520 ACCAAAGTAC
* * * * * **
30910530 CCCCGATTTACAGAATTATTGTTCTACCCTCGATTTATAGAATTACTATTTTA
1 CCCCGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAATTA
* * *
30910583 CCCTCGATTTATAGAATTACCGTTTTACCTTCGATTTACAAAATTACTAAAATA
1 CCC-CGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAATTA
* * * **** * *
30910637 CCCCTAATTTGTAAAATTACTAAAATACCCTCGACTTGTA-AAAATTACCAAAGTA
1 CCCC-GATTTATAGAATTACTGTTTTACCCTCGA-TT-TACAAAATTACTAAATTA
* **
30910692 CCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTA
1 CCC-CGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAATTA
* * *
30910746 CCCCTGATTTACAAAATTACCGTTTTACCCTCGATT
1 CCCC-GATTTATAGAATTACTGTTTTACCCTCGATT
30910782 GTGAAATTAC
Statistics
Matches: 156, Mismatches: 36, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
53 7 0.04
54 106 0.68
55 40 0.26
56 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.37
Consensus pattern (53 bp):
CCCCGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAATTA
Found at i:30910775 original size:109 final size:107
Alignment explanation
Indices: 30910581--30910791 Score: 269
Period size: 109 Copynumber: 2.0 Consensus size: 107
30910571 ATTACTATTT
*
30910581 TACCCTCGATTTATAGAATTACCGTTTTACCTTCGATTTACAAAATTACTAAAATACCCCTAATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCCTAATT
** *
30910646 TGTAAAATTACTAAAATACCCTCGACTTGTAAAAATTACCAAAG
66 TACAAAATTACCAAAATACCCTCGA-TTGT-AAAATTACCAAAG
* * *** *
30910690 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCCTGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCCTAATT
**** *
30910755 TACAAAATTACCGTTTTACCCTCGATTGTGAAATTAC
66 TACAAAATTACCAAAATACCCTCGATTGTAAAATTAC
30910792 TGAAATACCT
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 7 0.08
108 4 0.05
109 76 0.87
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.36
Consensus pattern (107 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCCTAATT
TACAAAATTACCAAAATACCCTCGATTGTAAAATTACCAAAG
Found at i:30910843 original size:27 final size:27
Alignment explanation
Indices: 30910813--30910963 Score: 121
Period size: 27 Copynumber: 5.6 Consensus size: 27
30910803 TATAGGGTAG
*
30910813 AATTACCAAAACACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
30910840 AATTACTAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
30910867 AATTATCAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
*
30910894 AATTACCAAAATACCCCT-GATTTATAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
* * *
30910921 AATCA-CAGAAATA-CCCTTGATTTGTAG
1 AATTACCA-AAATACCCCTAG-TTTGTAA
* *
30910948 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
30910964 TTGTAGGATG
Statistics
Matches: 97, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
26 9 0.09
27 80 0.82
28 8 0.08
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:30910933 original size:54 final size:54
Alignment explanation
Indices: 30910833--30910963 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
30910823 ACACCCCTAG
* * * * * *
30910833 TTTGTAAAATTACTAAAATACCACTGGTTTGTGAAATTATCAAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCCCTGATTTATAAAATCATCAAAATACCCTCAA
**
30910887 TTTGTAAAATTACCAAAATACCCCTGATTTATAAAATCA-CAGAAATACCCTTGA
1 TTTGTAAAATTACCAAAATACCCCTGATTTATAAAATCATCA-AAATACCCTCAA
* * *
30910941 TTTGTAGATTTACCAAAACACCC
1 TTTGTAAAATTACCAAAATACCC
30910964 TTGTAGGATG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 2 0.03
54 63 0.97
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCCTGATTTATAAAATCATCAAAATACCCTCAA
Found at i:30910958 original size:81 final size:81
Alignment explanation
Indices: 30910813--30910964 Score: 177
Period size: 81 Copynumber: 1.9 Consensus size: 81
30910803 TATAGGGTAG
* * * *
30910813 AATTACCAAAACACCCCTAGTTTGTAAAATTACTAAAATACCACTGGTTTGTGAAATTATCAAAA
1 AATTACCAAAACACCCCTAGTTTATAAAATCACTAAAATACCACTGATTTGTGAAATTACCAAAA
*
30910878 TACCCTCAATTTGTAA
66 CACCCTCAATTTGTAA
* *
30910894 AATTACCAAAATACCCCT-GATTTATAAAATCAC-AGAAATACC-CTTGATTTGT-AGATTTACC
1 AATTACCAAAACACCCCTAG-TTTATAAAATCACTA-AAATACCAC-TGATTTGTGA-AATTACC
30910955 AAAACACCCT
62 AAAACACCCT
30910965 TGTAGGATGA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
80 4 0.07
81 56 0.93
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (81 bp):
AATTACCAAAACACCCCTAGTTTATAAAATCACTAAAATACCACTGATTTGTGAAATTACCAAAA
CACCCTCAATTTGTAA
Found at i:30911775 original size:20 final size:20
Alignment explanation
Indices: 30911750--30911836 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
30911740 GATATGATAT
*
30911750 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
30911770 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
*
30911790 ACAGGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
30911810 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
30911830 ACATGAT
1 ACATGAT
30911837 GTATTCATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:30911915 original size:26 final size:26
Alignment explanation
Indices: 30911886--30912020 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
30911876 GAGGAAGTGC
30911886 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
30911912 AAAAGCGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
30911938 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
***
30911964 AAAAGGG-TT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
30911988 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
30912011 AAAAGAGGCT
1 AAAAG-GGCT
30912021 AGGCCTCTAG
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
23 5 0.05
24 26 0.28
25 12 0.13
26 51 0.54
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:30911964 original size:52 final size:50
Alignment explanation
Indices: 30911886--30912015 Score: 194
Period size: 52 Copynumber: 2.6 Consensus size: 50
30911876 GAGGAAGTGC
* *
30911886 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGCGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GCTT-TGCCCCAGTTTACCA
*
30911938 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGTTTGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGCTTTGCCCCAGTTTACCA
30911988 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG
30912016 AGGCTAGGCC
Statistics
Matches: 75, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
47 5 0.07
48 5 0.07
49 8 0.11
50 23 0.31
51 3 0.04
52 31 0.41
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGCTTTGCCCCAGTTTACCA
Found at i:30912212 original size:42 final size:42
Alignment explanation
Indices: 30912153--30912244 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
30912143 TAGTCTCCCC
* ** *
30912153 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
* *
30912195 AAATGGGCTTGTATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
30912237 AAATGGGC
1 AAATGGGC
30912245 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:30912303 original size:31 final size:31
Alignment explanation
Indices: 30912268--30912377 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
30912258 CGTTTACAGT
*
30912268 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
30912299 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
30912330 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
30912361 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
30912378 AACCGTTAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:30914009 original size:22 final size:24
Alignment explanation
Indices: 30913935--30914025 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 24
30913925 TACCGATATA
*
30913935 TCAGATCGTA-AGAGCTTACTGTTT
1 TCAGCTCGTATAGAGCTTACTG-TT
* *
30913959 TCAGCTCAT-TGGAG-TATACTGTT
1 TCAGCTCGTATAGAGCT-TACTGTT
30913982 TCAGCTCGTAT-GAGCTTACTG-T
1 TCAGCTCGTATAGAGCTTACTGTT
*
30914004 TCAGCT-GGATAGAGCTTACTGT
1 TCAGCTCGTATAGAGCTTACTGT
30914026 GCATCAGTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
21 3 0.05
22 17 0.30
23 19 0.34
24 17 0.30
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (24 bp):
TCAGCTCGTATAGAGCTTACTGTT
Found at i:30916045 original size:18 final size:17
Alignment explanation
Indices: 30916013--30916046 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30916003 CCCATTCATA
*
30916013 TGTCTGTATGAATTTAG
1 TGTCTGTAGGAATTTAG
30916030 TGTCTAGTAGGAATTTA
1 TGTCT-GTAGGAATTTA
30916047 CCTATTAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (17 bp):
TGTCTGTAGGAATTTAG
Found at i:30922454 original size:27 final size:27
Alignment explanation
Indices: 30922401--30922455 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
30922391 ATTTTATCAA
* **
30922401 GATAGTAAATACGGGATAGTCTGCTGG
1 GATAGTAAACACGGGATAGTCCACTGG
*
30922428 GATAGTAAACACGGGGTAGTCCACTGG
1 GATAGTAAACACGGGATAGTCCACTGG
30922455 G
1 G
30922456 TCAATAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.15, G:0.35, T:0.22
Consensus pattern (27 bp):
GATAGTAAACACGGGATAGTCCACTGG
Found at i:30933241 original size:39 final size:40
Alignment explanation
Indices: 30933132--30933286 Score: 224
Period size: 39 Copynumber: 3.9 Consensus size: 40
30933122 TCGTTCAACC
* * * * * *
30933132 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
*
30933172 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
30933212 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
*
30933251 GCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACA
30933287 TTCATACACA
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 64 0.60
40 42 0.40
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
Found at i:30933246 original size:79 final size:79
Alignment explanation
Indices: 30933132--30933286 Score: 222
Period size: 79 Copynumber: 2.0 Consensus size: 79
30933122 TCGTTCAACC
* * *
30933132 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGG-CTTAACCCGGATATC
30933197 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* * * *
30933212 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCA
*
30933276 CAATTCGCACA
66 CAACTCGCACA
30933287 TTCATACACA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 25 0.37
79 33 0.49
80 9 0.13
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (79 bp):
GCCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:30951058 original size:16 final size:14
Alignment explanation
Indices: 30951031--30951068 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 14
30951021 TTTAAGTAAA
30951031 TATATTAATATTAT
1 TATATTAATATTAT
30951045 TATATTATATTATTAT
1 TATATTA-A-TATTAT
30951061 TATATTAA
1 TATATTAA
30951069 AATATAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 2 0.09
16 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATATTAATATTAT
Done.