Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 119 of 276
Found at i:37976747 original size:47 final size:47
Alignment explanation
Indices: 37976636--37976814 Score: 171
Period size: 47 Copynumber: 3.7 Consensus size: 47
37976626 GGTACGCATA
* * *
37976636 GTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACAC
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACAC
* ** * *
37976682 GTAGTAGCCTGCATTTAGTACTACACACGTGACCTAACCATCTGATACAC
1 ---GTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACAC
* * * *
37976732 GTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCCGGTA--CA-C
*
37976783 GTAGCCTGCACTTAGTACTACACATGTGACCT
1 GTAGCCTGCACTTAGTACTACACACGTGACCT
37976815 CACAATAAAT
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
47 31 0.29
48 6 0.06
49 27 0.25
50 13 0.12
51 29 0.27
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (47 bp):
GTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCCGGTACAC
Found at i:37976803 original size:98 final size:96
Alignment explanation
Indices: 37976636--37976814 Score: 259
Period size: 98 Copynumber: 1.8 Consensus size: 96
37976626 GGTACGCATA
* * *
37976636 GTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCATTTAGT
1 GTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTAGT
37976701 ACTACACACGTGACCTAACCATCTGATACAC
66 ACTACACACGTGACCTAACCATCTGATACAC
* * * * *
37976732 GTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACTTA
1 GTAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACTTA
*
37976797 GTACTACACATGTGACCT
64 GTACTACACACGTGACCT
37976815 CACAATAAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 26 0.36
97 3 0.04
98 43 0.60
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (96 bp):
GTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTAGT
ACTACACACGTGACCTAACCATCTGATACAC
Found at i:37994508 original size:50 final size:50
Alignment explanation
Indices: 37994428--37994530 Score: 161
Period size: 50 Copynumber: 2.1 Consensus size: 50
37994418 GGCCACCTCC
37994428 AAGTCCTCCCACACGTCAAACCGCCTATTGAGGATTACATGAAAAATTTA
1 AAGTCCTCCCACACGTCAAACCGCCTATTGAGGATTACATGAAAAATTTA
* * * * *
37994478 AAGTGCTCCCACACGTCGAACCGCCTATTGAGGGTTACTTGAAAATTTTA
1 AAGTCCTCCCACACGTCAAACCGCCTATTGAGGATTACATGAAAAATTTA
37994528 AAG
1 AAG
37994531 GAGGGGGTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (50 bp):
AAGTCCTCCCACACGTCAAACCGCCTATTGAGGATTACATGAAAAATTTA
Found at i:37996465 original size:60 final size:60
Alignment explanation
Indices: 37996372--37996489 Score: 227
Period size: 60 Copynumber: 2.0 Consensus size: 60
37996362 CACATTCTCG
37996372 CTAAAGATTCACTCAAATCACTCGAGGTGTTTAAGGACAATAATTGAAGCACTCAATACA
1 CTAAAGATTCACTCAAATCACTCGAGGTGTTTAAGGACAATAATTGAAGCACTCAATACA
*
37996432 CTAAAGATTCACTGAAATCACTCGAGGTGTTTAAGGACAATAATTGAAGCACTCAATA
1 CTAAAGATTCACTCAAATCACTCGAGGTGTTTAAGGACAATAATTGAAGCACTCAATA
37996490 GTCAATAATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (60 bp):
CTAAAGATTCACTCAAATCACTCGAGGTGTTTAAGGACAATAATTGAAGCACTCAATACA
Found at i:38008086 original size:80 final size:80
Alignment explanation
Indices: 38007880--38008073 Score: 361
Period size: 80 Copynumber: 2.4 Consensus size: 80
38007870 GAGCATTTGA
38007880 ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGG
38007945 CATTTGTGCGAGTTG
66 CATTTGTGCGAGTTG
* *
38007960 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCTGGGCTAAGACCCGCAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGG
*
38008025 CCTTTGTGCGAGTTG
66 CATTTGTGCGAGTTG
38008040 ATATATCCGGGCTAAGACCCGAAGGCAATTGTGC
1 ATATATCCGGGCTAAGACCCGAAGGCAATTGTGC
38008074 TTGTGGTAAT
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 110 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGG
CATTTGTGCGAGTTG
Found at i:38008089 original size:40 final size:40
Alignment explanation
Indices: 38007880--38008073 Score: 316
Period size: 40 Copynumber: 4.8 Consensus size: 40
38007870 GAGCATTTGA
*
38007880 ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG
* *
38007920 ATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG
38007960 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG
* * * *
38008000 ATATATCTGGGCTAAGACCCGCAGGCCTTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG
*
38008040 ATATATCCGGGCTAAGACCCGAAGGCAATTGTGC
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
38008074 TTGTGGTAAT
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG
Found at i:38015993 original size:40 final size:41
Alignment explanation
Indices: 38015938--38016085 Score: 167
Period size: 40 Copynumber: 3.7 Consensus size: 41
38015928 GAGCATTTGA
* *
38015938 ATTTTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TG
1 ATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG
* *
38015978 ATTTTATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG
1 ATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG
* **
38016019 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG
* * ** *
38016059 -CTATGCCCGGGTTAAGACCCGAAGGCA
1 ATTTTATCCGGGCTAAGACCCGAAGGCA
38016086 ATTGTGCTTG
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 93 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATTTTATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG
Found at i:38016075 original size:80 final size:79
Alignment explanation
Indices: 38015942--38016092 Score: 187
Period size: 80 Copynumber: 1.9 Consensus size: 79
38015932 ATTTGAATTT
* * * ** * *
38015942 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCTGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCGAGT-ATGCTATCCGGGCTAAGACCCGAAGGCAA
38016007 TTGTGCGAGTTGATA
65 TTGTGCGAGTTGATA
* *
38016022 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-TGCTATGCCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTATGCTAT--CCGGGCTAAGACCCGAAGGCA
38016086 ATTGTGC
64 ATTGTGC
38016093 TTGTGGTTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
78 4 0.07
80 56 0.93
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
TATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTATGCTATCCGGGCTAAGACCCGAAGGCAAT
TGTGCGAGTTGATA
Found at i:38016104 original size:80 final size:79
Alignment explanation
Indices: 38015942--38016112 Score: 184
Period size: 80 Copynumber: 2.2 Consensus size: 79
38015932 ATTTGAATTT
* * * ** * *
38015942 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCTGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCGAGT-ATGCTATCCGGGCTAAGACCCGAAGGCAA
*
38016007 TTGTGCGAGTTGATA
65 TTGTGCGAGTGGATA
* *
38016022 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-TGCTATGCCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTATGCTAT--CCGGGCTAAGACCCGAAGGCA
** *
38016086 ATTGTGCTTGTGGTTA
64 ATTGTGCGAGTGGATA
38016102 TATCC-GGCTAA
1 TATCCGGGCTAA
38016113 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 4 0.05
79 6 0.08
80 66 0.87
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
TATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTATGCTATCCGGGCTAAGACCCGAAGGCAAT
TGTGCGAGTGGATA
Found at i:38031173 original size:27 final size:27
Alignment explanation
Indices: 38031143--38031211 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
38031133 ATATTAAGTC
* *
38031143 CGCACACTCAGTGCTATATA-ACAAACT
1 CGCACACTTAGTGCTACATAGAC-AACT
* *
38031170 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGACAACT
38031197 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38031212 GCACAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGACAACT
Found at i:38035598 original size:43 final size:43
Alignment explanation
Indices: 38035509--38035621 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
38035499 ATTGAGATGA
* * * * *
38035509 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGT
1 GATTACGTGTAAGACCATGTATGGGACATTGACATCGTATTAT
* *
38035552 GATTACGTGTAAAACCATGTTTGGGACATTGACATCGT-TATAT
1 GATTACGTGTAAGACCATGTATGGGACATTGACATCGTAT-TAT
* *
38035595 GATTTCGTGTAAGACCACGTATGGGAC
1 GATTACGTGTAAGACCATGTATGGGAC
38035622 GATGGCAACG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTATGGGACATTGACATCGTATTAT
Found at i:38037142 original size:21 final size:20
Alignment explanation
Indices: 38037116--38037155 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
38037106 GCATTACGGT
38037116 AAGTTGGGCCTCAAGGGGCTG
1 AAGTTGGGCC-CAAGGGGCTG
*
38037137 AAGTTGGGCCCAATGGGCT
1 AAGTTGGGCCCAAGGGGCT
38037156 TTTGGGCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (20 bp):
AAGTTGGGCCCAAGGGGCTG
Found at i:38037634 original size:27 final size:26
Alignment explanation
Indices: 38037604--38037758 Score: 194
Period size: 25 Copynumber: 6.1 Consensus size: 26
38037594 GAGGAAGTGC
*
38037604 AAAAGGCCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
38037630 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
*
38037657 AAAAGGGCTTATGCCTCAGTTTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
38037682 AAAACGGG-TTTTGCCCCAGTTTACCG
1 AAAA-GGGCTTATGCCCCAGTTTATTG
**
38037708 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
38037733 AAAAGGGCTT-TGCCCCAG-TTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
38037757 AA
1 AA
38037759 GAGGCTACGC
Statistics
Matches: 117, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
24 6 0.05
25 53 0.45
26 33 0.28
27 25 0.21
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:38037715 original size:51 final size:50
Alignment explanation
Indices: 38037604--38037752 Score: 174
Period size: 51 Copynumber: 2.9 Consensus size: 50
38037594 GAGGAAGTGC
* * **
38037604 AAAAGGCCTTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATT--AAAAGGG-TTTTGCCCCAGTTTACCG
*
38037657 AAAAGGGCTTATGCCTCAGTTTATTAAAACGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTAAAA-GGGTTTTGCCCCAGTTTACCG
** *
38037708 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTA-TTAAAAGGGTTTTGCCCCAGTT
38037753 ATTGAAGAGG
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
50 26 0.31
51 33 0.39
52 3 0.04
53 23 0.27
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCCAGTTTATTAAAAGGGTTTTGCCCCAGTTTACCG
Found at i:38043158 original size:25 final size:25
Alignment explanation
Indices: 38043130--38043179 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
38043120 CCTTATATTA
* * *
38043130 TGAAAATGACTGTTTTGCCCCTAGG
1 TGAAAATGACCGTTATACCCCTAGG
38043155 TGAAAATGACCGTTATACCCCTAGG
1 TGAAAATGACCGTTATACCCCTAGG
38043180 GTTTACTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
TGAAAATGACCGTTATACCCCTAGG
Found at i:38043240 original size:20 final size:20
Alignment explanation
Indices: 38043215--38043261 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
38043205 ATTTTGATAT
*
38043215 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGACATGC
38043235 ACATGATATGTATGACATGC
1 ACATGATATGTATGACATGC
38043255 ACATGAT
1 ACATGAT
38043262 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGACATGC
Found at i:38043409 original size:25 final size:26
Alignment explanation
Indices: 38043311--38043434 Score: 189
Period size: 26 Copynumber: 4.8 Consensus size: 26
38043301 GAGGATGTGC
*
38043311 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
38043337 AAAAAGGGCTTATACCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
38043364 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
38043390 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
38043415 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
38043435 ATTAAAGAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 33 0.36
26 35 0.38
27 24 0.26
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:38057607 original size:39 final size:39
Alignment explanation
Indices: 38057548--38057629 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
38057538 ATTACCAGCA
38057548 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
38057587 CCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
38057626 CCAG
1 CCAG
38057630 TGTCTTCCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:38057724 original size:41 final size:41
Alignment explanation
Indices: 38057667--38057747 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
38057657 CACATTTCAC
38057667 ATAACATATCACATTAGCAATTCAATTGCTTCATTCGAATA
1 ATAACATATCACATTAGCAATTCAATTGCTTCATTCGAATA
*
38057708 ATAACATATCACATTAGCAATTTAATTGCTTCATTCGAAT
1 ATAACATATCACATTAGCAATTCAATTGCTTCATTCGAAT
38057748 TTAAGCACAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (41 bp):
ATAACATATCACATTAGCAATTCAATTGCTTCATTCGAATA
Found at i:38061933 original size:139 final size:139
Alignment explanation
Indices: 38061683--38061972 Score: 539
Period size: 139 Copynumber: 2.1 Consensus size: 139
38061673 ATCTTCGCAT
38061683 GGCTATAATGTATACAAACTCGAAATATCATTCTACCTATAGTCTATCCTATACATGCCTTAAAC
1 GGCTATAATGTATACAAACTCGAAATATCATTCTACCTATAGTCTATCCTATACATGCCTTAAAC
38061748 CATGATGATATACAATCTTCTCAACTCACCTAATGACTCGATAGTGTGATGATATCTACGGCTCT
66 CATGATGATATACAATCTTCTCAACTCACCTAATGACTCGATAGTGTGATGATATCTACGGCTCT
38061813 TTCAACTCG
131 TTCAACTCG
*
38061822 GGCTATAATGTATACAAAGTCGAAATATCATTCTACCTATAGTCTATCCTATACATGCCTTAAAC
1 GGCTATAATGTATACAAACTCGAAATATCATTCTACCTATAGTCTATCCTATACATGCCTTAAAC
*
38061887 CATGATGATATACAATCTTCTCAACTCACCTAATGACTCGATAGTGTGATGATATCTCCGGCTCT
66 CATGATGATATACAATCTTCTCAACTCACCTAATGACTCGATAGTGTGATGATATCTACGGCTCT
38061952 TTCAACTCG
131 TTCAACTCG
*
38061961 AGCTA-AA-GTATA
1 GGCTATAATGTATA
38061973 AACCTATAAG
Statistics
Matches: 148, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
137 5 0.03
138 2 0.01
139 141 0.95
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (139 bp):
GGCTATAATGTATACAAACTCGAAATATCATTCTACCTATAGTCTATCCTATACATGCCTTAAAC
CATGATGATATACAATCTTCTCAACTCACCTAATGACTCGATAGTGTGATGATATCTACGGCTCT
TTCAACTCG
Found at i:38064448 original size:83 final size:83
Alignment explanation
Indices: 38064356--38064521 Score: 287
Period size: 83 Copynumber: 2.0 Consensus size: 83
38064346 TGTTAAGCTA
* * *
38064356 AAACATATTTTTCATTTTTCATCATTAAACCACAAAAATCACAAGCTATCAACAATGGCACAACT
1 AAACATATTTTCCATTTTTCATCATTAAACCAAAAAAATCACAAGATATCAACAATGGCACAACT
*
38064421 CAAAATGTTCACCAAAAT
66 CAAAATATTCACCAAAAT
38064439 AAACATATTTTCCATTTTTCATCATTAAACCAAAAAAATCACAAGATATCAACAATGGCACAACT
1 AAACATATTTTCCATTTTTCATCATTAAACCAAAAAAATCACAAGATATCAACAATGGCACAACT
*
38064504 CAAAATATTCATCAAAAT
66 CAAAATATTCACCAAAAT
38064522 CAAAAATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (83 bp):
AAACATATTTTCCATTTTTCATCATTAAACCAAAAAAATCACAAGATATCAACAATGGCACAACT
CAAAATATTCACCAAAAT
Found at i:38068356 original size:69 final size:67
Alignment explanation
Indices: 38068283--38068422 Score: 163
Period size: 67 Copynumber: 2.1 Consensus size: 67
38068273 TCACCAGATA
* * * * **
38068283 CAGATATTCTGGCTAGGCCACCAGAACAAATATATATATGTTGAAGCCACCAGATTGCAGCGAGG
1 CAGATATTCTGACGAAGCCACCAGAAC--AGATATATATGGCGAAGCCACCAGATTGCAGCGAGG
*
38068348 CTGC
64 CTAC
* * * *
38068352 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTCTGACGAAGCCACCAGAACAGATATATATGGCGAAGCCACCAGATTGCAGCGAGGCT
38068417 AC
66 AC
38068419 CAGA
1 CAGA
38068423 ACGCTTCCTC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
67 38 0.63
69 22 0.37
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (67 bp):
CAGATATTCTGACGAAGCCACCAGAACAGATATATATGGCGAAGCCACCAGATTGCAGCGAGGCT
AC
Found at i:38068400 original size:27 final size:26
Alignment explanation
Indices: 38068352--38068403 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38068342 GCGAGGCTGC
*
38068352 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
38068378 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
38068404 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:38075766 original size:69 final size:67
Alignment explanation
Indices: 38075693--38075828 Score: 200
Period size: 67 Copynumber: 2.0 Consensus size: 67
38075683 TCACTAGATA
* * *
38075693 TAGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGGCGAAGCCACCAGATTGCAACGAGG
1 TAGATATTGTGACGAAGCCACCAGAACAG--ATATATGTGGCGAAGCCACCAGATTGCAACGAGG
38075758 CTGC
64 CTGC
* * *
38075762 TAGATGTTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAACGAGGCT
1 TAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
38075827 GC
66 GC
38075829 CAGAACGTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 37 0.61
69 24 0.39
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (67 bp):
TAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
GC
Found at i:38084678 original size:40 final size:40
Alignment explanation
Indices: 38084623--38084919 Score: 402
Period size: 40 Copynumber: 7.5 Consensus size: 40
38084613 CGGATGATAA
* * * * **
38084623 CCGGGCCAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
*
38084663 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
38084703 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
38084743 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
38084783 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
38084823 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
38084863 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACAT
* *
38084902 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
38084920 TCCTTGGCTT
Statistics
Matches: 236, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
38 15 0.06
39 15 0.06
40 206 0.87
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:38091375 original size:24 final size:24
Alignment explanation
Indices: 38091320--38091367 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
38091310 TAGCTTCAAA
38091320 GTCATCTTTTCTTTTCTCTTTCCC
1 GTCATCTTTTCTTTTCTCTTTCCC
*
38091344 GTCATCTTTTCTTTTGTCTTTCCC
1 GTCATCTTTTCTTTTCTCTTTCCC
38091368 TTGCTCTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.04, C:0.31, G:0.06, T:0.58
Consensus pattern (24 bp):
GTCATCTTTTCTTTTCTCTTTCCC
Found at i:38095346 original size:15 final size:15
Alignment explanation
Indices: 38095326--38095394 Score: 86
Period size: 15 Copynumber: 4.6 Consensus size: 15
38095316 GTATCTTGGG
38095326 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
38095341 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
*
38095356 TTTCTTTATTCC-GGG
1 TTTCTTTA-TCCTGGA
*
38095371 TTTCTCTATCCTGGA
1 TTTCTTTATCCTGGA
38095386 TTTCTTTAT
1 TTTCTTTAT
38095395 TCGGTTTTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
14 3 0.07
15 39 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.20, G:0.13, T:0.55
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:38095362 original size:30 final size:29
Alignment explanation
Indices: 38095317--38095394 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
38095307 CATAGTATCG
* * *
38095317 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCCTGGATTTCTTTATCC-GGATCTCTC
* * *
38095347 TATTCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCCTGGATTTCTTTA-TCCGGATCTCTC
38095377 TATCCTGGATTTCTTTAT
1 TATCCTGGATTTCTTTAT
38095395 TCGGTTTTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 1 0.03
30 36 0.90
31 3 0.08
ACGTcount: A:0.12, C:0.19, G:0.15, T:0.54
Consensus pattern (29 bp):
TATCCTGGATTTCTTTATCCGGATCTCTC
Found at i:38103808 original size:137 final size:137
Alignment explanation
Indices: 38103562--38103836 Score: 541
Period size: 137 Copynumber: 2.0 Consensus size: 137
38103552 TCCCTGAAAC
38103562 TAGACTCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTGCAGTTT
1 TAGACTCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTGCAGTTT
*
38103627 ATTAGTCAGAGTCTCCCACGTTACAGGGATCGACTACACTGACCTTTGCGCTTTACGACTTGGAT
66 ATTAGTCAGAGTCTCCCACGTTACAGGGATCGACTACACTGACCTTTGCGCATTACGACTTGGAT
38103692 ATCTCCT
131 ATCTCCT
38103699 TAGACTCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTGCAGTTT
1 TAGACTCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTGCAGTTT
38103764 ATTAGTCAGAGTCTCCCACGTTACAGGGATCGACTACACTGACCTTTGCGCATTACGACTTGGAT
66 ATTAGTCAGAGTCTCCCACGTTACAGGGATCGACTACACTGACCTTTGCGCATTACGACTTGGAT
38103829 ATCTCCT
131 ATCTCCT
38103836 T
1 T
38103837 GTACAGGGCT
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (137 bp):
TAGACTCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTGCAGTTT
ATTAGTCAGAGTCTCCCACGTTACAGGGATCGACTACACTGACCTTTGCGCATTACGACTTGGAT
ATCTCCT
Found at i:38105010 original size:40 final size:41
Alignment explanation
Indices: 38104905--38105050 Score: 167
Period size: 40 Copynumber: 3.6 Consensus size: 41
38104895 GCTACTCGTT
*
38104905 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * *
38104945 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * * *
38104985 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
38105026 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38105051 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 4 0.04
40 73 0.82
41 12 0.13
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:38113923 original size:40 final size:40
Alignment explanation
Indices: 38113886--38114069 Score: 191
Period size: 40 Copynumber: 4.6 Consensus size: 40
38113876 GCTACTCGTT
*
38113886 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
38113926 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCG-A
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
38113965 GCAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 -CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
38114005 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
38114046 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
38114070 ACATCATTCA
Statistics
Matches: 120, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 74 0.62
41 14 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:38113997 original size:79 final size:80
Alignment explanation
Indices: 38113853--38114070 Score: 216
Period size: 79 Copynumber: 2.7 Consensus size: 80
38113843 AAATCACGTA
** * *
38113853 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACT-GAGCAAATGCCTTCGGGACTTAGCCCGGAATA
*
38113914 TAGTAACTCGCACAATTG
63 TAGTAACTCGCACAAATG
*
38113932 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCGAGCAAATGCCTTCGGG-CTTAGCCCGGAAT-T
1 CCTTC-GGATCTTAACCCGGATATAGTAACT-GAGCAAATGCCTTCGGGACTTAGCCCGGAATAT
*
38113994 AGTATCTCGCACAAATG
64 AGTAACTCGCACAAATG
** * * * *
38114011 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTGAGCA-AATGCCTTCGGGACTTAGCCCGGA
38114071 CATCATTCAA
Statistics
Matches: 117, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
78 7 0.06
79 68 0.58
80 42 0.36
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTGAGCAAATGCCTTCGGGACTTAGCCCGGAATATAG
TAACTCGCACAAATG
Found at i:38114928 original size:42 final size:42
Alignment explanation
Indices: 38114869--38114948 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
38114859 CTAAAACGAA
38114869 ATTCAAGAATCATCAATCCACCATCACATGCATCATTAGAAG
1 ATTCAAGAATCATCAATCCACCATCACATGCATCATTAGAAG
38114911 ATTCAAGAATCATCAATCCACCATCACATGCATCATTA
1 ATTCAAGAATCATCAATCCACCATCACATGCATCATTA
38114949 ACAAGCTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.40, C:0.28, G:0.07, T:0.25
Consensus pattern (42 bp):
ATTCAAGAATCATCAATCCACCATCACATGCATCATTAGAAG
Found at i:38115256 original size:41 final size:41
Alignment explanation
Indices: 38115208--38115289 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
38115198 TTCGGCCAAA
38115208 TGAAGATGAAAAAGGAGGAACAAAATTTTCTCTTTTCTTTT
1 TGAAGATGAAAAAGGAGGAACAAAATTTTCTCTTTTCTTTT
38115249 TGAAGATGAAAAAGGAGGAACAAAATTTTCTCTTTTCTTTT
1 TGAAGATGAAAAAGGAGGAACAAAATTTTCTCTTTTCTTTT
38115290 CTTTAACTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (41 bp):
TGAAGATGAAAAAGGAGGAACAAAATTTTCTCTTTTCTTTT
Found at i:38132102 original size:14 final size:14
Alignment explanation
Indices: 38132080--38132109 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38132070 TTTGATTTAT
*
38132080 TTATGTTTTTAAAA
1 TTATATTTTTAAAA
38132094 TTATATTTTTAAAA
1 TTATATTTTTAAAA
38132108 TT
1 TT
38132110 CCTAATGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (14 bp):
TTATATTTTTAAAA
Found at i:38138670 original size:57 final size:58
Alignment explanation
Indices: 38138597--38138705 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 58
38138587 GCCCACTGAT
* *
38138597 CGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
* * * *
38138654 CGATTTCGCACGCATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
38138706 TAATCATTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
Found at i:38138949 original size:40 final size:40
Alignment explanation
Indices: 38138917--38139348 Score: 729
Period size: 40 Copynumber: 10.8 Consensus size: 40
38138907 CCAGCATGAT
* * *
38138917 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
38138957 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
38138997 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
38139037 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
38139077 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
38139117 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
38139157 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
38139197 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
38139237 TGCTCTTCAGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
38139277 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
38139317 TGCTCTTCTGGACTTAGCCCGAATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
38139349 CTTAATTCTC
Statistics
Matches: 371, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 371 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:38139504 original size:54 final size:54
Alignment explanation
Indices: 38139442--38139549 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
38139432 TCGACCATTC
38139442 AACTTCCAGTTCCATAGCCACATACAAAAATCACATTTATAGACATAACACTCT
1 AACTTCCAGTTCCATAGCCACATACAAAAATCACATTTATAGACATAACACTCT
*
38139496 AACTTCCAGTTCCATAGCCACATACAAAAATCACATTTATAGTCATAACACTCT
1 AACTTCCAGTTCCATAGCCACATACAAAAATCACATTTATAGACATAACACTCT
38139550 TTCAAAATTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.40, C:0.28, G:0.06, T:0.27
Consensus pattern (54 bp):
AACTTCCAGTTCCATAGCCACATACAAAAATCACATTTATAGACATAACACTCT
Found at i:38140729 original size:37 final size:37
Alignment explanation
Indices: 38140671--38141074 Score: 772
Period size: 37 Copynumber: 10.9 Consensus size: 37
38140661 GCTCAGACGA
* * * *
38140671 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38140708 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38140745 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38140782 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38140819 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38140856 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38140893 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38140930 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38140967 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38141004 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38141041 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
38141075 ATATATTTCC
Statistics
Matches: 363, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 363 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:38141347 original size:47 final size:47
Alignment explanation
Indices: 38141285--38141475 Score: 301
Period size: 47 Copynumber: 4.1 Consensus size: 47
38141275 ACACGTTTCG
* * * **
38141285 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
38141332 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38141379 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
38141426 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38141473 CAT
1 CAT
38141476 AAAATCCTAA
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 136 1.00
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:38142029 original size:200 final size:200
Alignment explanation
Indices: 38141686--38142085 Score: 773
Period size: 200 Copynumber: 2.0 Consensus size: 200
38141676 ACAACATAAT
38141686 CTCAAATTCAGCACAAGCTGTTTTTCCTGAGCAATAGTCACTAAATTATTTATAACTGGAGCTAC
1 CTCAAATTCAGCACAAGCTGTTTTTCCTGAGCAATAGTCACTAAATTATTTATAACTGGAGCTAC
*
38141751 AAAACTCCAAATCACTTTCCGTTAATTTTTCCTGAATATAGACTCGTATATCTTCCATCCATAAA
66 AAAACTCCAAATCACTTTCCGTTAATTTTTCCTGAATATAGACTCATATATCTTCCATCCATAAA
*
38141816 ATTTCCAGAATTTTAGGTTTGGCCAATCAATACCAGATTTTTCTTAAAGTTTCCCCTGTTTCACT
131 ATTTCCAGAATTTTAGGTTTGGCCAATCAATACCAGATCTTTCTTAAAGTTTCCCCTGTTTCACT
38141881 GTTTG
196 GTTTG
38141886 CTCAAATTCAGCACAAGCTGTTTTTCCTGAGCAATAGTCACTAAATTATTTATAACTGGAGCTAC
1 CTCAAATTCAGCACAAGCTGTTTTTCCTGAGCAATAGTCACTAAATTATTTATAACTGGAGCTAC
*
38141951 AAAACTCCAAATCACTTTCCGTTAATTTTTCCTGAATATAGACTCATATATCTTCCATTCATAAA
66 AAAACTCCAAATCACTTTCCGTTAATTTTTCCTGAATATAGACTCATATATCTTCCATCCATAAA
38142016 ATTTCCAGAATTTTAGGTTTGGCCAATCAATACCAGATCTTTCTTAAAGTTTCCCCTGTTTCACT
131 ATTTCCAGAATTTTAGGTTTGGCCAATCAATACCAGATCTTTCTTAAAGTTTCCCCTGTTTCACT
38142081 GTTTG
196 GTTTG
38142086 ACTAATCTGA
Statistics
Matches: 197, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 197 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (200 bp):
CTCAAATTCAGCACAAGCTGTTTTTCCTGAGCAATAGTCACTAAATTATTTATAACTGGAGCTAC
AAAACTCCAAATCACTTTCCGTTAATTTTTCCTGAATATAGACTCATATATCTTCCATCCATAAA
ATTTCCAGAATTTTAGGTTTGGCCAATCAATACCAGATCTTTCTTAAAGTTTCCCCTGTTTCACT
GTTTG
Found at i:38144951 original size:23 final size:23
Alignment explanation
Indices: 38144925--38144973 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
38144915 TACTCTATAA
38144925 TCTTCGACTTCCCTCGGTCTAAG
1 TCTTCGACTTCCCTCGGTCTAAG
38144948 TCTTCGACTTCCCTCGGTCTAAG
1 TCTTCGACTTCCCTCGGTCTAAG
38144971 TCT
1 TCT
38144974 CAATTCCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.12, C:0.35, G:0.16, T:0.37
Consensus pattern (23 bp):
TCTTCGACTTCCCTCGGTCTAAG
Found at i:38154018 original size:43 final size:44
Alignment explanation
Indices: 38153898--38154019 Score: 169
Period size: 43 Copynumber: 2.8 Consensus size: 44
38153888 AGCTCGTACA
*
38153898 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* * * *
38153941 ATGCCACTGTTCCAAACAGGGTCTTACATG-AAATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
*
38153983 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCA
38154020 TAAGTCGATG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 27 0.40
43 40 0.60
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
Found at i:38169976 original size:18 final size:17
Alignment explanation
Indices: 38169953--38169987 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
38169943 ATTGGGCCGA
38169953 AATGGGTCATGTGGGCCC
1 AATGGG-CATGTGGGCCC
*
38169971 AATGGGCTTGTGGGCCC
1 AATGGGCATGTGGGCCC
38169988 CATACAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.14, C:0.23, G:0.40, T:0.23
Consensus pattern (17 bp):
AATGGGCATGTGGGCCC
Found at i:38175434 original size:47 final size:47
Alignment explanation
Indices: 38175374--38175495 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
38175364 GAATTAGCAC
*
38175374 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGCCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGCCATTTGG
*
38175421 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGCCATTTGG
* *
38175468 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
38175496 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGCCATTTGG
Found at i:38175603 original size:55 final size:54
Alignment explanation
Indices: 38175474--38175670 Score: 220
Period size: 55 Copynumber: 3.6 Consensus size: 54
38175464 TTGGTAAGAT
* * *
38175474 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGA-GAAGTCCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATG-AGTTCTATAAGGC
* *
38175528 AAGGAAATCATGTAAGACCATGTCAAGGCATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* * * * *
38175583 AAAGG-TCCCATGTAAGACCATGGCAAGGTATGGCATTGGTGAGTTC-ATAAGAC
1 -AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATGAGTTCTATAAGGC
** * *
38175636 AAGGATACCACATAAGACCATGTTAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCA
38175671 ATAGTAAGTT
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
52 4 0.03
53 29 0.24
54 41 0.34
55 44 0.36
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:38181673 original size:47 final size:46
Alignment explanation
Indices: 38181607--38181728 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 46
38181597 GCATTAGCAC
*
38181607 TAAGGCAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATA-CATGTAAGACCATGTTTGGAACATGGCATTTGG
38181654 TAAGACAAGGATACGATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATAC-ATGTAAGACCATGTTTGGAACATGGCATTTGG
*
38181701 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATA-CATGTAAGACCATG
38181729 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
46 1 0.01
47 69 0.97
48 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.25
Consensus pattern (46 bp):
TAAGACAAGGATACATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:38181782 original size:54 final size:54
Alignment explanation
Indices: 38181707--38181903 Score: 238
Period size: 55 Copynumber: 3.6 Consensus size: 54
38181697 TTGGTAAGAT
* * **
38181707 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGACAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
*
38181761 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
** * * * *
38181816 AAAGG-TCCCATGTAAGACCAAGACAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
*
38181869 AAGGATA-CTACGTAAGACCATGTCAAGACATGGCA
1 AAGGATATC-ATGTAAGACCATGTCAAGACATGGCA
38181904 ATGTTAAGTT
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
52 5 0.04
53 30 0.25
54 41 0.34
55 42 0.34
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:38183671 original size:7 final size:7
Alignment explanation
Indices: 38183656--38183692 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
38183646 AAAATGACTG
38183656 TAAACCC
1 TAAACCC
*
38183663 TAAATCC
1 TAAACCC
38183670 TAAACCC
1 TAAACCC
38183677 TAAACCC
1 TAAACCC
38183684 TAAACCC
1 TAAACCC
38183691 TA
1 TA
38183693 GGCCCCTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.38, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:38183728 original size:27 final size:27
Alignment explanation
Indices: 38183694--38184091 Score: 411
Period size: 27 Copynumber: 14.8 Consensus size: 27
38183684 TAAACCCTAG
* * *
38183694 GCCCCTATACGGTAAAATGACCTTAGT
1 GCCCCTATAGGGTAAAATGACCGTAAT
38183721 GCCCCTATAGGGTAAAATGACCGTAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
* *
38183748 GCCTCTATAGGGTAAAATGACCATAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
** *
38183775 GCTTCTATAGGTTAAAATGACCGTAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
*
38183802 GCCCGTATAGGGTAAAATGACCGTAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
* * * **
38183829 GCCCTTGTAAGGTAAAATGATTGTAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
* *
38183856 GCCCATGTAGGGTAAAATGACCGTAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
* *
38183883 GCTCCTAGAGGGTAAAATGACCGTAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
* * * * **
38183910 ACCCTTGTAAGGTAAAATGATTGTAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
* *
38183937 GCCCATGTAGGGTAAAATGACCGTAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
* *
38183964 GCTCCTAGAGGGTAAAATGACCGTAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
* * * * **
38183991 ACCCTTGTAAGGTAAAATGATTGTAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
* *
38184018 GCCCATGTAGGGTAAAATGACCGTAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
* * *
38184045 GCCCTTGTAGGGT-AAATGATCGTAAT
1 GCCCCTATAGGGTAAAATGACCGTAAT
* * *
38184071 ACCCCTGTATGGTAAAATGAC
1 GCCCCTATAGGGTAAAATGAC
38184092 GATTATGCCC
Statistics
Matches: 309, Mismatches: 61, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 22 0.07
27 287 0.93
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (27 bp):
GCCCCTATAGGGTAAAATGACCGTAAT
Found at i:38183843 original size:81 final size:80
Alignment explanation
Indices: 38183704--38184090 Score: 528
Period size: 81 Copynumber: 4.8 Consensus size: 80
38183694 GCCCCTATAC
* * * * *
38183704 GGTAAAATGACCTTAGTGCCCCTATAGGGTAAAATGACCGTAAT-GCCTCTATAGGGTAAAATGA
1 GGTAAAATGACCGTAATG-CCCTATAGGGTAAAATGACCGTAATACCCT-TGTAAGGTAAAATGA
*** * *
38183768 CCATAATGCTTC-TATAG
64 TTGTAATGC-CCATGTAG
* *
38183785 GTTAAAATGACCGTAATGCCCGTATAGGGTAAAATGACCGTAATGCCCTTGTAAGGTAAAATGAT
1 GGTAAAATGACCGTAATGCCC-TATAGGGTAAAATGACCGTAATACCCTTGTAAGGTAAAATGAT
38183850 TGTAATGCCCATGTAG
65 TGTAATGCCCATGTAG
*
38183866 GGTAAAATGACCGTAATGCTCCTAGAGGGTAAAATGACCGTAATACCCTTGTAAGGTAAAATGAT
1 GGTAAAATGACCGTAATGC-CCTATAGGGTAAAATGACCGTAATACCCTTGTAAGGTAAAATGAT
38183931 TGTAATGCCCATGTAG
65 TGTAATGCCCATGTAG
*
38183947 GGTAAAATGACCGTAATGCTCCTAGAGGGTAAAATGACCGTAATACCCTTGTAAGGTAAAATGAT
1 GGTAAAATGACCGTAATGC-CCTATAGGGTAAAATGACCGTAATACCCTTGTAAGGTAAAATGAT
38184012 TGTAATGCCCATGTAG
65 TGTAATGCCCATGTAG
* * * *
38184028 GGTAAAATGACCGTAATGCCCTTGTAGGGT-AAATGATCGTAATACCCCTGTATGGTAAAATGA
1 GGTAAAATGACCGTAATGCCC-TATAGGGTAAAATGACCGTAATACCCTTGTAAGGTAAAATGA
38184091 CGATTATGCC
Statistics
Matches: 282, Mismatches: 19, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
80 36 0.13
81 241 0.85
82 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (80 bp):
GGTAAAATGACCGTAATGCCCTATAGGGTAAAATGACCGTAATACCCTTGTAAGGTAAAATGATT
GTAATGCCCATGTAG
Found at i:38184287 original size:27 final size:27
Alignment explanation
Indices: 38184257--38184309 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
38184247 CATTCACTGT
38184257 TACTGGTGGCTATGCCACAATTACTAA
1 TACTGGTGGCTATGCCACAATTACTAA
* *
38184284 TACTGGTGGCTTTGCCACACTTACTA
1 TACTGGTGGCTATGCCACAATTACTA
38184310 TTCTGGCAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACAATTACTAA
Found at i:38184536 original size:33 final size:34
Alignment explanation
Indices: 38184499--38184564 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
38184489 CCCACATTGT
* *
38184499 TACTGTATAGGGCTAAGGCCCAGACTG-TACTGA
1 TACTGAATAGGGCTAAGGCCCAAACTGTTACTGA
*
38184532 TACTGAATAGGGCTCAGGCCCAAACTGTTACTG
1 TACTGAATAGGGCTAAGGCCCAAACTGTTACTG
38184565 CATGTGCTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (34 bp):
TACTGAATAGGGCTAAGGCCCAAACTGTTACTGA
Found at i:38189718 original size:52 final size:49
Alignment explanation
Indices: 38189633--38190086 Score: 551
Period size: 46 Copynumber: 9.3 Consensus size: 49
38189623 TTTGAGTACT
* **
38189633 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
38189679 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
38189731 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
38189777 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
38189829 TCTGATCAAGTG---ATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
38189875 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
38189921 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
38189973 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
38190025 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
38190071 TCTGATCAAGAGACAA
1 TCTGATCAAGTGACAA
38190087 AGTGAGAAGT
Statistics
Matches: 364, Mismatches: 22, Indels: 42
0.85 0.05 0.10
Matches are distributed among these distances:
46 184 0.51
48 1 0.00
49 2 0.01
50 1 0.00
52 176 0.48
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:38189802 original size:98 final size:98
Alignment explanation
Indices: 38189633--38190086 Score: 668
Period size: 98 Copynumber: 4.6 Consensus size: 98
38189623 TTTGAGTACT
* * *
38189633 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
38189698 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
38189731 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
38189796 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * * *
38189829 TCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
38189889 -AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
38189921 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
* *
38189986 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
38190025 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
38190087 AGTGAGAAGT
Statistics
Matches: 325, Mismatches: 19, Indels: 24
0.88 0.05 0.07
Matches are distributed among these distances:
92 42 0.13
98 240 0.74
104 43 0.13
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:38190103 original size:37 final size:37
Alignment explanation
Indices: 38190061--38190170 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
38190051 GATAGCTTTA
*
38190061 GCTACACTTATCTGATCAAGAGACAAAGTGAGAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
38190098 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
38190135 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
38190171 ATCATACGTA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
36 12 0.17
37 57 0.83
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:38190134 original size:150 final size:149
Alignment explanation
Indices: 38189680--38190086 Score: 562
Period size: 144 Copynumber: 2.8 Consensus size: 149
38189670 CTACACTTAT
* * *
38189680 CTGATCAAGTGACAAGTG-GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 CTGATCAAGTGACAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
* *
38189744 CAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
66 CAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTGGAAAGTGATAACT
* *
38189809 AATAGCTTC-G---GCTATA
131 -ATAGCTTCAGCAAACTAAA
* * *
38189825 CTTATC---TGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTG
1 CTGATCAAGTGA-CAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAG
* *
38189887 ACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAG
65 ACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTGGAAAGTGATAAC
* * * *
38189952 TGATAGCTTCGGCTACACTTAT
130 T-ATAGCTTCAGC-AAACTAAA
38189974 CTGATCAAGTGACAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CTGATCAAGTGACAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
*
38190038 CAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
66 CAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
38190087 AGTGAGAAGT
Statistics
Matches: 239, Mismatches: 13, Indels: 15
0.90 0.05 0.06
Matches are distributed among these distances:
142 3 0.01
143 6 0.03
144 117 0.49
145 6 0.03
149 7 0.03
150 90 0.38
151 7 0.03
152 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (149 bp):
CTGATCAAGTGACAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
CAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTGGAAAGTGATAACT
ATAGCTTCAGCAAACTAAA
Found at i:38191494 original size:49 final size:50
Alignment explanation
Indices: 38191424--38191520 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 50
38191414 ACATGTGAAC
* *
38191424 ATGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGT
1 ATGTGATTATGTGATTACGTGTAAGACCATAGCTGGACTATGGCATCGGT
*
38191474 ATGTGATT-TGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 ATGTGATTATGTGATTACGTGTAAGACCATAGCTGGACTATGGCATCG
38191521 AGAAAACGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 36 0.82
50 8 0.18
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (50 bp):
ATGTGATTATGTGATTACGTGTAAGACCATAGCTGGACTATGGCATCGGT
Found at i:38194733 original size:52 final size:52
Alignment explanation
Indices: 38194654--38195039 Score: 631
Period size: 52 Copynumber: 7.5 Consensus size: 52
38194644 TACTTCTGAT
38194654 CAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
38194707 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
** **
38194759 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* * *
38194805 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
38194857 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
38194909 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
38194961 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
38195013 CAAGTGAAAAGTGATAAGTGATAGCTT
1 CAAGTGAAAAGTGATAAGTGATAGCTT
38195040 NNNNNNNNNN
Statistics
Matches: 310, Mismatches: 17, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
46 42 0.14
52 261 0.84
53 7 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
Found at i:38202097 original size:56 final size:56
Alignment explanation
Indices: 38201975--38202108 Score: 196
Period size: 56 Copynumber: 2.4 Consensus size: 56
38201965 TCCCAGACAG
** * *
38201975 GGTCTTACTTACACACATATATCGAAGTCATAAATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAATCACAAATCGATGCCAACGTATTAAACGT
*
38202031 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAATCACAAATCGATGCCAACGTATTAAACGT
* * *
38202087 GGTTTTACTCGTATACATATAT
1 GGTCTTACTCGCACACATATAT
38202109 TGATTCCATG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 70 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAATCACAAATCGATGCCAACGTATTAAACGT
Found at i:38204284 original size:43 final size:42
Alignment explanation
Indices: 38204135--38204284 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 42
38204125 TCTGAGACAT
* *
38204135 CGTGTAAGACCGTGTCTGGGACACAGGCCTCG-ATTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGAG--TTA
* *
38204178 CGTATAAGACCATGTCTGGGACATC-GGCATCGTATCTGA-TTT
1 CGTGTAAGACCATGTCTGGGACA-CAGGCATCGTAT-TGAGTTA
* *
38204220 CGTGTAAGACCTTGTCTGGGACAGAGGCATCGATATTGAGTTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCG-TATTGAGTTA
* *
38204263 CATGTAAGACCATGTCCGGGAC
1 CGTGTAAGACCATGTCTGGGAC
38204285 GCCAGCATTG
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
42 33 0.37
43 51 0.57
44 3 0.03
45 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGAGTTA
Found at i:38212929 original size:13 final size:13
Alignment explanation
Indices: 38212911--38212935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38212901 ACAAACGATA
38212911 AAATTTTCACACG
1 AAATTTTCACACG
38212924 AAATTTTCACAC
1 AAATTTTCACAC
38212936 ATATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:38227840 original size:46 final size:46
Alignment explanation
Indices: 38227790--38227965 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
38227780 TGGTTGAGCA
38227790 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
38227836 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38227881 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38227929 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38227966 GCGGGTTGCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38227946 original size:93 final size:93
Alignment explanation
Indices: 38227787--38227957 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
38227777 GGATGGTTGA
* *
38227787 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38227852 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
38227880 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38227945 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38227958 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:38229909 original size:17 final size:19
Alignment explanation
Indices: 38229882--38229917 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
38229872 AAGCCAAGTT
38229882 GGGCTGTGTGGG-CCACAC
1 GGGCTGTGTGGGCCCACAC
38229900 GGGC-GTGTGGGCCCACAC
1 GGGCTGTGTGGGCCCACAC
38229918 AGGCAGGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.11, C:0.31, G:0.44, T:0.14
Consensus pattern (19 bp):
GGGCTGTGTGGGCCCACAC
Found at i:38233524 original size:14 final size:13
Alignment explanation
Indices: 38233500--38233552 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
38233490 AGGAAAGTCC
38233500 ATTAGGTTAATTTA
1 ATTA-GTTAATTTA
38233514 AGTTAGTTAATTTA
1 A-TTAGTTAATTTA
*
38233528 ATTAGTTTAATTAA
1 ATTAG-TTAATTTA
*
38233542 AATA-TTAATTT
1 ATTAGTTAATTT
38233553 GGATTCGCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.18
13 4 0.12
14 21 0.62
15 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
ATTAGTTAATTTA
Found at i:38235267 original size:26 final size:26
Alignment explanation
Indices: 38235237--38235290 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
38235227 AATAAACAAG
38235237 ATTAAAAAATAATATATATAGATGAA
1 ATTAAAAAATAATATATATAGATGAA
38235263 ATTAAAAAATAATATATATAGATGAA
1 ATTAAAAAATAATATATATAGATGAA
38235289 AT
1 AT
38235291 GAAATGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (26 bp):
ATTAAAAAATAATATATATAGATGAA
Found at i:38236498 original size:3 final size:3
Alignment explanation
Indices: 38236490--38236533 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
38236480 AAATATTTTA
38236490 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
38236534 AAGATCGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:38239591 original size:27 final size:27
Alignment explanation
Indices: 38239561--38239733 Score: 211
Period size: 27 Copynumber: 6.4 Consensus size: 27
38239551 TGGATAAGTT
* *
38239561 GTAGAATTACCAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
38239588 GTAGAATTACCGAAATAACCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
38239615 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
38239642 GTAGAATTATCGAAATAACCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
38239669 ATAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
38239696 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
38239723 GTAAAATTACC
1 GTAGAATTACC
38239734 ATTTTGCCCC
Statistics
Matches: 124, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:38239636 original size:54 final size:54
Alignment explanation
Indices: 38239561--38239733 Score: 238
Period size: 54 Copynumber: 3.2 Consensus size: 54
38239551 TGGATAAGTT
* * *
38239561 GTAGAATTACCAAAATACCCCTGTAAGGTAGAATTACCGAAATAACCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATAACCTTGTAGG
** *
38239615 GTAGAATTATTGAAATACCCCTGTAGGGTAGAATTATCGAAATAACCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATAACCTTGTAGG
* * * * *
38239669 ATAGAAATACCGAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATAACCTTGTAGG
*
38239723 GTAAAATTACC
1 GTAGAATTACC
38239734 ATTTTGCCCC
Statistics
Matches: 102, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATAACCTTGTAGG
Found at i:38239696 original size:81 final size:81
Alignment explanation
Indices: 38239561--38239734 Score: 233
Period size: 81 Copynumber: 2.1 Consensus size: 81
38239551 TGGATAAGTT
* * * *
38239561 GTAGAATTACCAAAATACCCCTGTAAGGTAGAATTACCGAAATAACCTTGTAGGGTAGAATTATT
1 GTAGAATTACCAAAATAACCCTGTAAGGTAGAAATACCGAAATAACCCTGTAGGGTAGAATTATC
38239626 GAAATACCCCTGTAGG
66 GAAATACCCCTGTAGG
* * *
38239642 GTAGAATTATCGAAATAACCCTGT-AGGATAGAAATACCGAAATACCCCTGTAGGGTAGAATTAT
1 GTAGAATTACCAAAATAACCCTGTAAGG-TAGAAATACCGAAATAACCCTGTAGGGTAGAATTAT
* * *
38239706 CGAGATACCCTTGTGGG
65 CGAAATACCCCTGTAGG
*
38239723 GTAAAATTACCA
1 GTAGAATTACCA
38239735 TTTTGCCCCT
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 3 0.04
81 76 0.96
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (81 bp):
GTAGAATTACCAAAATAACCCTGTAAGGTAGAAATACCGAAATAACCCTGTAGGGTAGAATTATC
GAAATACCCCTGTAGG
Found at i:38239778 original size:27 final size:26
Alignment explanation
Indices: 38239734--38239786 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
38239724 TAAAATTACC
38239734 ATTTTGCCCCTAGGGCGTTAAATGACT
1 ATTTTGCCCCTAGGGCG-TAAATGACT
* *
38239761 ATTTTGCCCCTCGTGCGTAAATGACT
1 ATTTTGCCCCTAGGGCGTAAATGACT
38239787 GACTTGTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (26 bp):
ATTTTGCCCCTAGGGCGTAAATGACT
Found at i:38245428 original size:16 final size:15
Alignment explanation
Indices: 38245407--38245436 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38245397 GAATAGAGTA
38245407 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
38245423 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
38245437 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:38248870 original size:15 final size:15
Alignment explanation
Indices: 38248850--38248900 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
38248840 TATGATATTG
38248850 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
38248865 TATCTTGGATTTCTC
1 TATCTTGGATTTCTT
*
38248880 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
*
38248895 AATCTT
1 TATCTT
38248901 AGTTTTCTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.16, C:0.18, G:0.12, T:0.55
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:38248908 original size:30 final size:30
Alignment explanation
Indices: 38248850--38248908 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
38248840 TATGATATTG
* * *
38248850 TATCTTGGATTTCTTTATCTTGGATTTCTC
1 TATCTTGGACTTCTTAATCTTAGATTTCTC
*
38248880 TATCTTGGACTTCTTAATCTTAGTTTTCT
1 TATCTTGGACTTCTTAATCTTAGATTTCT
38248909 TGTTATCTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.56
Consensus pattern (30 bp):
TATCTTGGACTTCTTAATCTTAGATTTCTC
Found at i:38251793 original size:51 final size:51
Alignment explanation
Indices: 38251641--38251799 Score: 176
Period size: 51 Copynumber: 3.1 Consensus size: 51
38251631 GATGGTTTTA
* * * *
38251641 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTC
** * * * * *
38251691 GGTTGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCCGACAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTC
* * * *
38251742 GATCACATGTGTAGTATTAAGCGCAGGCTACTATGCGTACCAAATAGCTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTC
38251793 GGTCACA
1 GGTCACA
38251800 AGGGTGGTAA
Statistics
Matches: 85, Mismatches: 23, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
50 37 0.44
51 48 0.56
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTC
Found at i:38256551 original size:42 final size:42
Alignment explanation
Indices: 38256486--38257122 Score: 818
Period size: 42 Copynumber: 15.3 Consensus size: 42
38256476 AAGGAAAACA
**
38256486 TTCATTGCATTTAGAGGAATAGGTGTGGAGGGT-CATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGA-GGTCCATTTACTT
* * *
38256528 TTCATTACACTTAGAGGCCTAGGTGTGGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* *
38256570 TTCATTGTATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * *
38256612 TTTATTGTATTTAGAGG-CTCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCT-AGGTGTGGAGGTCCATTTACTT
* * *
38256654 TTCATTGCATTTAGAGGCCTAGGCGTAGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
** *
38256696 TT-ATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * *
38256737 TTCATTGCATTTAGAGGCCTAGGCGTAGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
** *
38256779 TT-ATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * *
38256820 TTCATTGCATTTAGAGGCCTAGGCGTAGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
** *
38256862 TT-ATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* *
38256903 TTCATTGCATTTAGAGGCCAAGGTGTGGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * * *
38256945 TTTATTGCATTTAAAGGCCTAGGTTTGGAGTTCCATTTA-TT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
** *
38256986 TTCATTGCATTTAGAGGCCCGGGTGTGGAGGTCCATTGACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * *
38257028 TTCATTGCATCTAAAGGCCTAGGTGTGGAGGTCCGTTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * * *
38257070 TTCATTGCATTTAAAGGCCCAAGTGTGGATGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
38257112 TTCATTGCATT
1 TTCATTGCATT
38257123 GTATATGAAG
Statistics
Matches: 511, Mismatches: 77, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
41 143 0.28
42 366 0.72
43 2 0.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
Found at i:38256743 original size:83 final size:83
Alignment explanation
Indices: 38256486--38257122 Score: 830
Period size: 83 Copynumber: 7.6 Consensus size: 83
38256476 AAGGAAAACA
** * * * * *
38256486 TTCATTGCATTTAGAGGAATAGGTGTGGAGGGTCATTTACTTTTCATTACACTTAGAGGCCTAGG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTTCATTTACTTTT-ATTGCATTTAGAAGCCCAGG
*
38256551 TGTGGAGGTCTATTTACTT
65 TGTGGAGGTCCATTTACTT
* * * * * * *
38256570 TTCATTGTATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTTATTGTATTTAGAGGCTCAAG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTTCATTTAC-TTTTATTGCATTTAGAAGCCCAGG
38256635 TGTGGAGGTCCATTTACTT
65 TGTGGAGGTCCATTTACTT
* * *
38256654 TTCATTGCATTTAGAGGCCTAGGCGTAGAGGTTCATTTACTTTTATTGCATTTAGAAACCCAGGT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTTCATTTACTTTTATTGCATTTAGAAGCCCAGGT
38256719 GTGGAGGTCCATTTACTT
66 GTGGAGGTCCATTTACTT
* * *
38256737 TTCATTGCATTTAGAGGCCTAGGCGTAGAGGTTCATTTACTTTTATTGCATTTAGAAACCCAGGT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTTCATTTACTTTTATTGCATTTAGAAGCCCAGGT
38256802 GTGGAGGTCCATTTACTT
66 GTGGAGGTCCATTTACTT
* * *
38256820 TTCATTGCATTTAGAGGCCTAGGCGTAGAGGTTCATTTACTTTTATTGCATTTAGAAACCCAGGT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTTCATTTACTTTTATTGCATTTAGAAGCCCAGGT
38256885 GTGGAGGTCCATTTACTT
66 GTGGAGGTCCATTTACTT
* *
38256903 TTCATTGCATTTAGAGGCCAAGGTGTGGAGGTTCATTTACTTTTTATTGCATTTA-AAGGCCTAG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTTCATTTAC-TTTTATTGCATTTAGAA-GCCCAG
* *
38256967 GTTTGGAGTTCCATTTA-TT
64 GTGTGGAGGTCCATTTACTT
** * * * *
38256986 TTCATTGCATTTAGAGGCCCGGGTGTGGAGGTCCATTGACTTTTCATTGCATCTA-AAGGCCTAG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTTCATTTACTTTT-ATTGCATTTAGAA-GCCCAG
*
38257050 GTGTGGAGGTCCGTTTACTT
64 GTGTGGAGGTCCATTTACTT
* * * * *
38257070 TTCATTGCATTTAAAGGCCCAAGTGTGGATGTCCATTTACTTTTCATTGCATT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTTCATTTACTTTT-ATTGCATT
38257123 GTATATGAAG
Statistics
Matches: 504, Mismatches: 44, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
82 4 0.01
83 313 0.62
84 183 0.36
85 4 0.01
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (83 bp):
TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTTCATTTACTTTTATTGCATTTAGAAGCCCAGGT
GTGGAGGTCCATTTACTT
Found at i:38256768 original size:125 final size:126
Alignment explanation
Indices: 38256486--38257122 Score: 797
Period size: 125 Copynumber: 5.1 Consensus size: 126
38256476 AAGGAAAACA
** * *
38256486 TTCATTGCATTTAGAGGAATAGGTGTGGAGGGT-CATTTACTTTTCATTACACTTAGAGGCCTAG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGA-GGTCCATTTACTTTTCATTGCATTTAGAGGCCTAG
* *
38256550 GTGTGGAGG-TCTATTTACTTTTCATTGTATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
65 GTGTGGAGGTTC-ATTTACTTTTCATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTTACTT
* * *
38256612 TTTATTGTATTTAGAGG-CTCAAGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAG
1 TTCATTGCATTTAGAGGCCT-AGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAG
* * *
38256676 GCGTAGAGGTTCATTTACTTTT-ATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTTACTT
65 GTGTGGAGGTTCATTTACTTTTCATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTTACTT
* * * ** *
38256737 TTCATTGCATTTAGAGGCCTAGGCGTAGAGGTTCATTTACTTTT-ATTGCATTTAGAAACCCAGG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGG
* * * * * *
38256801 TGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGGCGTAGAGGTTCATTTACTT
66 TGTGGAGGTTCATTTACTTTTCATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTTACTT
** * *
38256862 TT-ATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCAAGG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGG
* * * *
38256926 TGTGGAGGTTCATTTACTTTTTATTGCATTTA-AAGGCCTAGGTTTGGAGTTCCATTTA-TT
66 TGTGGAGGTTCATTTACTTTTCATTGCATTTAGAA-GCCCAGGTGTGGAGGTCCATTTACTT
** * * *
38256986 TTCATTGCATTTAGAGGCCCGGGTGTGGAGGTCCATTGACTTTTCATTGCATCTAAAGGCCTAGG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGG
* * * *
38257051 TGTGGAGGTCCGTTTACTTTTCATTGCATTTA-AAGGCCCAAGTGTGGATGTCCATTTACTT
66 TGTGGAGGTTCATTTACTTTTCATTGCATTTAGAA-GCCCAGGTGTGGAGGTCCATTTACTT
38257112 TTCATTGCATT
1 TTCATTGCATT
38257123 GTATATGAAG
Statistics
Matches: 441, Mismatches: 61, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
124 75 0.17
125 280 0.63
126 84 0.19
127 2 0.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (126 bp):
TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGG
TGTGGAGGTTCATTTACTTTTCATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:38259588 original size:26 final size:26
Alignment explanation
Indices: 38259559--38259610 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
38259549 TAAGAAATTC
*
38259559 TTCCCACTAGTTTTGCTTCATTCCCT
1 TTCCCACTAGTTTTGCCTCATTCCCT
38259585 TTCCCACTAGTTTTGCCTCATTCCCT
1 TTCCCACTAGTTTTGCCTCATTCCCT
38259611 GAAGTGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.12, C:0.37, G:0.08, T:0.44
Consensus pattern (26 bp):
TTCCCACTAGTTTTGCCTCATTCCCT
Found at i:38260783 original size:27 final size:27
Alignment explanation
Indices: 38260750--38260801 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
38260740 GTATGCGTAT
38260750 GATTG-AATAGTATATTGAATTGGAATG
1 GATTGAAATAGTATATTG-ATTGGAATG
*
38260777 GATTGAAATTGTATATTGATTGGAA
1 GATTGAAATAGTATATTGATTGGAA
38260802 ATTGAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.25, T:0.38
Consensus pattern (27 bp):
GATTGAAATAGTATATTGATTGGAATG
Found at i:38260809 original size:23 final size:24
Alignment explanation
Indices: 38260750--38260818 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 24
38260740 GTATGCGTAT
*
38260750 GATTGAATAGTATATTGAATTGGAA
1 GATTGAATTGTATATTG-ATTGGAA
38260775 TGGATTGAAATTGTATATTGATTGGAA
1 --GATTG-AATTGTATATTGATTGGAA
* *
38260802 -ATTGAATTATGTATTGA
1 GATTGAATTGTATATTGA
38260819 AATACCCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 11 0.29
24 4 0.11
27 12 0.32
28 11 0.29
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (24 bp):
GATTGAATTGTATATTGATTGGAA
Found at i:38264072 original size:60 final size:62
Alignment explanation
Indices: 38263968--38264087 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 62
38263958 CCATTCAAAA
38263968 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCT-TTACAGT
1 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCTATTACAGT
* * *
38264029 ATCAGAG-TATACTGGGCC-TAGCTCATATCAGTATCAATCTGGGCCATAGCCCTATTACA
1 ATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCTATTACA
38264088 AGTCGAGATA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
60 34 0.63
61 20 0.37
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (62 bp):
ATCAGAGTTAACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCTATTACAGT
Found at i:38264117 original size:60 final size:59
Alignment explanation
Indices: 38263968--38264119 Score: 159
Period size: 60 Copynumber: 2.5 Consensus size: 59
38263958 CCATTCAAAA
*
38263968 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCTTTACAG
1 ATCAGAGTAT-ACTGGGCCTT-GCCTATATCAATAACAATCTGGGCCATAGCCCTTTACAG
* * *
38264028 TATCAGAGTATACTGGGCCTAG-CTCATATCAGTATCAATCTGGGCCATAGCCCTATTACA-
1 -ATCAGAGTATACTGGGCCTTGCCT-ATATCAATAACAATCTGGGCCATAGCCCT-TTACAG
**
38264088 AGTC-GAGATATTTTGGGCCTTGCCTATATCAA
1 A-TCAGAG-TATACTGGGCCTTGCCTATATCAA
38264120 CACAGTTGGC
Statistics
Matches: 77, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
59 5 0.06
60 47 0.61
61 24 0.31
62 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (59 bp):
ATCAGAGTATACTGGGCCTTGCCTATATCAATAACAATCTGGGCCATAGCCCTTTACAG
Found at i:38268124 original size:22 final size:22
Alignment explanation
Indices: 38268102--38268173 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
38268092 CTATTTCGAA
38268102 AAAAAGTTTTGATTTTTAAGAA-
1 AAAAAGTTTTGATTTTTAA-AAG
*
38268124 AAATAGTGATTT-ATTTTTAAAAG
1 AAAAAGT--TTTGATTTTTAAAAG
* * *
38268147 AGAAAGTTTAGATTTTTAAAAT
1 AAAAAGTTTTGATTTTTAAAAG
38268169 AAAAA
1 AAAAA
38268174 TCTGGTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 2 0.05
22 22 0.55
23 13 0.32
24 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (22 bp):
AAAAAGTTTTGATTTTTAAAAG
Found at i:38269200 original size:25 final size:26
Alignment explanation
Indices: 38269172--38269227 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
38269162 GTTAGTTAAG
*
38269172 TAAG-TGTTACATTTTAATGACACCA
1 TAAGTTGTTACATTTTAATGAAACCA
* *
38269197 TAAGGTTTTTACATTTTAATGAAACTA
1 TAA-GTTGTTACATTTTAATGAAACCA
38269224 TAAG
1 TAAG
38269228 GGTTTTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 3 0.12
26 2 0.08
27 21 0.81
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (26 bp):
TAAGTTGTTACATTTTAATGAAACCA
Found at i:38269208 original size:27 final size:27
Alignment explanation
Indices: 38269178--38269239 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
38269168 TAAGTAAGTG
* *
38269178 TTACATTTTAATGACACCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGGGTT
*
38269205 TTACATTTTAATGAAACTATAAGGGTT
1 TTACATTTTAATGAAACCATAAGGGTT
38269232 TTACATTT
1 TTACATTT
38269240 GAATTTAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (27 bp):
TTACATTTTAATGAAACCATAAGGGTT
Found at i:38270547 original size:29 final size:29
Alignment explanation
Indices: 38270514--38270572 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
38270504 TCTACCTTGA
*
38270514 CACAAATTCTCAACAAACAAGTTCTTCAC
1 CACAAACTCTCAACAAACAAGTTCTTCAC
38270543 CACAAACTCTCAACAAACAAGTTCTTCAC
1 CACAAACTCTCAACAAACAAGTTCTTCAC
38270572 C
1 C
38270573 TCTTCCATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.34, G:0.03, T:0.22
Consensus pattern (29 bp):
CACAAACTCTCAACAAACAAGTTCTTCAC
Found at i:38270883 original size:17 final size:17
Alignment explanation
Indices: 38270861--38270894 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
38270851 TACTAAGTTC
38270861 ACCAAATAGTTTCTTTA
1 ACCAAATAGTTTCTTTA
38270878 ACCAAATAGTTTCTTTA
1 ACCAAATAGTTTCTTTA
38270895 CAAGCTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
ACCAAATAGTTTCTTTA
Found at i:38274794 original size:28 final size:28
Alignment explanation
Indices: 38274719--38274795 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
38274709 TGAGTGTGAT
* * *
38274719 TTGGGCCTAATGGGCCACATAAATGTGA
1 TTGGGCCTAATGGGCCATATAAAAGAGA
*
38274747 ATGGGCCTAATGGGCCATATAAAAGAGA
1 TTGGGCCTAATGGGCCATATAAAAGAGA
* *
38274775 TTGGGCCTAGTGGGCTATATA
1 TTGGGCCTAATGGGCCATATA
38274796 TATATAGGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATAAAAGAGA
Found at i:38280895 original size:39 final size:40
Alignment explanation
Indices: 38280852--38281019 Score: 121
Period size: 40 Copynumber: 4.2 Consensus size: 40
38280842 CTCGTTCAAG
* * *
38280852 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACATAACCCGGATTATA-AAACTCACACGAA
* * *
38280891 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACATAACCCGGATTATAAAACTCACACGAA
* * * * *
38280931 TGCCTTCGGGACTTAACCTGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACATAACCCGG-ATTA-TAAAACTCACACGAA
* * * * *
38280971 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACATAACCCGG-ATTATAAAACTCACACGAA
38281011 TGCCTTCGG
1 TGCCTTCGG
38281020 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
39 26 0.24
40 79 0.72
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACATAACCCGGATTATAAAACTCACACGAA
Found at i:38281032 original size:40 final size:40
Alignment explanation
Indices: 38280889--38281070 Score: 192
Period size: 40 Copynumber: 4.5 Consensus size: 40
38280879 TAACTCATAC
* *
38280889 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* * *
38280929 AATGCCTTCGGGACTTAACCTGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
38280969 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
38281009 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
38281050 AA-GCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAACCCG
38281071 AACAGCATTC
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 102 0.84
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:38281056 original size:80 final size:79
Alignment explanation
Indices: 38280887--38281070 Score: 216
Period size: 80 Copynumber: 2.3 Consensus size: 79
38280877 AGTAACTCAT
* * *
38280887 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCTGG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACCTGG
*
38280952 AATTAGTATCTCGC
66 AATTAGTATCTAGC
*
38280966 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGGA-CTTA-AC
38281029 C-GG-ATATAGTCA-CTTAGC
62 CTGGAAT-TAGT-ATC-TAGC
*
38281047 ACAAAGCCTTCGGGACTTAGCCCG
1 ACAAAGCCTTCGGGACTTAACCCG
38281071 AACAGCATTC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
79 13 0.14
80 68 0.74
81 11 0.12
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACCTGG
AATTAGTATCTAGC
Found at i:38284441 original size:29 final size:29
Alignment explanation
Indices: 38284386--38284456 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
38284376 TGTAAATGTA
* * *
38284386 ATTTGGGCCTAGT-GGCCATATGAATATG
1 ATTTGGGCCTAATGGGCCACATAAATATG
38284414 ATTTGGGCCTAATGGGCCACATAAATATG
1 ATTTGGGCCTAATGGGCCACATAAATATG
*
38284443 A-ATGGGCCTAATGG
1 ATTTGGGCCTAATGG
38284457 CCCATATGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 24 0.63
29 14 0.37
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
ATTTGGGCCTAATGGGCCACATAAATATG
Found at i:38284504 original size:56 final size:56
Alignment explanation
Indices: 38284389--38284504 Score: 128
Period size: 56 Copynumber: 2.1 Consensus size: 56
38284379 AAATGTAATT
* * * *
38284389 TGGGCCTAGTGGCCATATGAATATGATTTGGGCCTAATGGGCCACATAAATATGAA
1 TGGGCCTAATGGCCATATGAATATGAATTGAGCCTAATGGGCCACATAAATAGGAA
* * * *
38284445 TGGGCCTAATGGCCCATATGAA-A-GAGATTGAGCCTAGTGGGCCATATATATAGGTA
1 TGGGCCTAATGG-CCATATGAATATGA-ATTGAGCCTAATGGGCCACATAAATAGGAA
38284501 TGGG
1 TGGG
38284505 GGTTTGTCTG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
55 2 0.04
56 39 0.78
57 9 0.18
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (56 bp):
TGGGCCTAATGGCCATATGAATATGAATTGAGCCTAATGGGCCACATAAATAGGAA
Found at i:38297796 original size:16 final size:17
Alignment explanation
Indices: 38297765--38297797 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38297755 TTCATAAGTA
38297765 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
38297782 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
38297798 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:38298143 original size:46 final size:46
Alignment explanation
Indices: 38298083--38298310 Score: 321
Period size: 46 Copynumber: 5.0 Consensus size: 46
38298073 TTTGACATGA
* * * *
38298083 TGCCATAGTGTCTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* ** *** *
38298129 TGCCATGATATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* **
38298175 TGCCATGGTATCTTTCTACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
38298221 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
38298267 AGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
38298311 AGAGCACACT
Statistics
Matches: 164, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 164 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:38301209 original size:11 final size:12
Alignment explanation
Indices: 38301193--38301225 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
38301183 AATACCAAAG
38301193 AAAAAAAATT-T
1 AAAAAAAATTGT
38301204 AAAAAAAATTGT
1 AAAAAAAATTGT
38301216 AAAAATAAAT
1 AAAAA-AAAT
38301226 GTTTCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 6 0.30
13 4 0.20
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (12 bp):
AAAAAAAATTGT
Found at i:38306050 original size:22 final size:22
Alignment explanation
Indices: 38306032--38306073 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38306022 TATAATAATA
38306032 AAGTAAAT-ATAATAAAATAAAT
1 AAGTAAATGA-AATAAAATAAAT
38306054 AAGTAAATGAAAT-AAATAAA
1 AAGTAAATGAAATAAAATAAA
38306074 GAAAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 11 0.58
23 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (22 bp):
AAGTAAATGAAATAAAATAAAT
Found at i:38306054 original size:26 final size:28
Alignment explanation
Indices: 38306006--38306073 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 28
38305996 CTTAATATTT
*
38306006 AAGTAAATAT-ATAGAATATAATAA-TA
1 AAGTAAATATAATAAAATATAATAAGTA
38306032 AAGTAAATATAATAAAATA-AATAAGTA
1 AAGTAAATATAATAAAATATAATAAGTA
38306059 AA-TGAAATA-AATAAA
1 AAGT-AAATATAATAAA
38306074 GAAAGAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
26 22 0.58
27 16 0.42
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.26
Consensus pattern (28 bp):
AAGTAAATATAATAAAATATAATAAGTA
Found at i:38306137 original size:27 final size:23
Alignment explanation
Indices: 38306096--38306152 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
38306086 TTGAAAGAAC
38306096 AAAGCAAAAACGAAACAGAAAAGGAAAG
1 AAAG-AAAAACG-AA-AGAAAAGG--AG
*
38306124 AAAGAAAAAGGAAAGAAAAGGAG
1 AAAGAAAAACGAAAGAAAAGGAG
38306147 AAAGAA
1 AAAGAA
38306153 TGAGAATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 8 0.29
25 8 0.29
26 2 0.07
27 6 0.21
28 4 0.14
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (23 bp):
AAAGAAAAACGAAAGAAAAGGAG
Found at i:38307072 original size:41 final size:39
Alignment explanation
Indices: 38307028--38307152 Score: 128
Period size: 40 Copynumber: 3.2 Consensus size: 39
38307018 GACTTCAAGT
* *
38307028 CGATGAGACATTGGGTGTCAAATTATCACTTCGAATATATT
1 CGATGAGACACTGGGTGTCAAATTAT-ACTTCGAAT-TATC
* * * * ** *
38307069 CGATGAGGCAGTGGGTG-CCAATT-TACTTTGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATACTTCGAATTATC
38307106 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTA-TACTTCGAATTATC
38307146 CGATGAG
1 CGATGAG
38307153 GTACTGGTTG
Statistics
Matches: 66, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
37 17 0.26
38 11 0.17
39 1 0.02
40 22 0.33
41 15 0.23
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATTATACTTCGAATTATC
Found at i:38309271 original size:46 final size:45
Alignment explanation
Indices: 38309212--38309385 Score: 161
Period size: 46 Copynumber: 3.8 Consensus size: 45
38309202 TCACTTGTGT
*
38309212 GAGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAAACATGTCTGGGACATGCATCGGCCACA-TATGA
* * * * *
38309258 GAGCCAATGTAAAACCATGTCTGTGACATGGCATCGACATAGATATGA
1 GAGCCAGTGTAAAA-CATGTCTGGGACAT-GCATCGGC-CACATATGA
* * * * ** *
38309306 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAAATGTA
1 GAGCCAGTGTAAAACATGTCTGGGACATGCATCGGCC-ACATATG-A
*
38309353 -AGCCAGTGTAAGACATGTCTGGGACATGCATCG
1 GAGCCAGTGTAAAACATGTCTGGGACATGCATCG
38309386 ACTAAGCGAT
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
46 54 0.52
47 26 0.25
48 22 0.21
49 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (45 bp):
GAGCCAGTGTAAAACATGTCTGGGACATGCATCGGCCACATATGA
Found at i:38316958 original size:46 final size:46
Alignment explanation
Indices: 38316809--38317112 Score: 188
Period size: 46 Copynumber: 6.4 Consensus size: 46
38316799 TCACTTGTGT
* * * * * *
38316809 GAGCTACTGTAAGAAAAGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* * *
38316855 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
*
38316903 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* * * *
38316950 -AGCCAGTGTAAGACATGTCTGGGATATGTATCGG-CT-AAG-CGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
* * * ** * *
38316992 TGTGTTAGTGTAAGACCACGTCTGGGACATGGCATCAACAC-GGATATGCGA
1 -GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGA--CGA
* * * *
38317043 GAGCTAGTATAAGACCATGCCTGGGACATGGCATCCGCCTCGATGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GACGA
* * *
38317092 TAGCCAGTGTAATACCATGTC
1 GAGCTAGTGTAAGA-CATGTC
38317113 GGGCGGCAGT
Statistics
Matches: 199, Mismatches: 43, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 12 0.06
45 14 0.07
46 61 0.31
47 27 0.14
48 25 0.13
49 20 0.10
50 33 0.17
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:38318012 original size:74 final size:74
Alignment explanation
Indices: 38317848--38318245 Score: 529
Period size: 73 Copynumber: 5.4 Consensus size: 74
38317838 ATCTTGAGCC
* * * * * * * *
38317848 CAACTCATTTCTTGCAATATGAATTGACT-CTTTAAAAACAAAAACT-AAAGATACCTCAACATG
1 CAACTCATTTCTCGCAATATGAGTTGATTGTTTTGAAAACAGAAATTGAAA-TTACCTCAAC--G
**
38317911 TGAACTGAGGCT
63 TGTCCTGAGGCT
* *
38317923 CAACTCACTTT-TCGCAATATGAGTTGATTGTTTTGACAACAGAAATTGAAATTACCTCAGCGTG
1 CAACTCA-TTTCTCGCAATATGAGTTGATTGTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
38317987 TCCTGAGGCT
65 TCCTGAGGCT
* *
38317997 CAACTCATTTCTCGCAATATGAGTTGATTGTTTTGACAACAGAAATTGAAATTACCTCAGCGTGT
1 CAACTCATTTCTCGCAATATGAGTTGATTGTTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
38318062 CCTGAGGCT
66 CCTGAGGCT
* *
38318071 CAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTG
1 CAACTCATTTCTCGCAATATGAGTTGATTGTTTTGAAAA-CAGAAATTGAAATTACCTCAACGTG
*
38318134 TCTTGAGGCT
65 TCCTGAGGCT
* *
38318144 CAACTCATTTCTCGCAATATGAGTTGAAT-TTTTGAAAACAGAAATTGAAATTACCTCAATGTGT
1 CAACTCATTTCTCGCAATATGAGTTGATTGTTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
*
38318208 CTTGAGGCT
66 CCTGAGGCT
38318217 CAACTCATTTCTCGCAATATGAGTTGATT
1 CAACTCATTTCTCGCAATATGAGTTGATT
38318246 CTTTCAAAAA
Statistics
Matches: 296, Mismatches: 20, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
72 8 0.03
73 123 0.42
74 117 0.40
75 22 0.07
76 23 0.08
77 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (74 bp):
CAACTCATTTCTCGCAATATGAGTTGATTGTTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
CCTGAGGCT
Found at i:38318142 original size:147 final size:148
Alignment explanation
Indices: 38317915--38319540 Score: 743
Period size: 147 Copynumber: 10.3 Consensus size: 148
38317905 AACATGTGAA
* * * *
38317915 CTGAGGCTCAACTCACTTTTCGCAATATGAGTTGATTGTTTTGACAA-CAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--ATTTTGAAAAGCAGAAATTGAAAATACC
*
38317979 TCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTGTTTTGACAACAGAAAT
64 TCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTGTTTTGAAAACAGAAAT
38318043 TGAAATTACCTCAGCGTGTC
129 TGAAATTACCTCAGCGTGTC
*
38318063 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTC
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTC
* * *
38318128 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT-TTTTGAAAACAGAAATTG
66 AGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTGTTTTGAAAACAGAAATTG
**
38318191 AAATTACCTCAATGTGTC
131 AAATTACCTCAGCGTGTC
* * * *
38318209 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAAAACAGA
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAAT-TTT--------GAA-AA-G----CAGA
* * * * ** **
38318274 AATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----AAT
51 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTGTTT
* * * *
38318335 TAAAACACAAAAATTGAAAATACCTCGGCGTGTGTC
116 TGAAA-ACAGAAATTGAAATTACCTCAGC--GTGTC
* * *
38318371 CTGAGGCTCAACTCACCTCTTGCAACATGAGCTGATTTTGGAAAAGTAGAATTTGAAAAGCAGAA
1 CTGAGGCTCAACTCACTTCTCGC-A-AT-A--TGA-GTT-G--AA-T----TTTGAAAAGCAGAA
* *** *** *** * * ** * *
38318436 ATTGAAAAAACGAAAAATTGAAAAT-A-CCTCAGCGTGCGA-GCCGAGGCTCAACTCACCTCTCG
52 ATTGAAAATACCTCAGCGTG-TCCTGAGGCTCAAC-T-C-ATTTC---TCGCAA-T-A----T-G
* * * * *
38318498 CAATATGAGTTGATTTTTTTTTTGAAAAGCAGAACTTGAAAATACCTCAACGTGTC
103 -AGT-TGATTTG--TTT-----TGAAAA-CAGAAATTGAAATTACCTCAGCGTGTC
* * * * * *
38318554 TTGAGGCTCAACTCATTTCTCACAATATGAATTAAATTTTTTTTTGAGAAGCAGAAATTGGAAAA
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAA-----TTTTGAAAAGCAGAAATT-GAAAA
* * **** * * * * ** * *
38318619 AACATCTATTGAAAATACCTCGGCGTATGACCTGAGGCTCCA-TTCAC-CTCTA-GCAATATGAA
60 TACCTC-A--GCGTGT-CCT----G-A-G-GCTCA-ACT-CATTTCTCGCAATATG-AGT-TGAT
* *
38318681 TTGATTTTTGAAAACATAAATTGAAAAACAGAAATGGAAAATACCTCAGCATGTC
110 TTG--TTTTGAAAACAGAAATT--------GAAAT------TACCTCAGCGTGTC
* * ** * *
38318736 CTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGGTTTTTTGCTAAA-CAGTAATTGAAAATACC
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTT-GAATTTTG-AAAAGCAGAAATTGAAAATACC
* * ** *** *
38318800 TCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAAAACAGACATAAAA
64 TCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT--------GTTTTGAAA
* * *
38318865 ACAGAAATTGAAAGTGA-CTCAACACGTGAGC
121 ACAGAAATTGAAA-TTACCTC-A-GCGTG-TC
* * * *
38318896 C-AAGGCTCAACTCACCTT-TCGCAATATGAGTTGATTTTTTTG-AAAGTAGAATTTGAAAATAC
1 CTGAGGCTCAACTCA-CTTCTCGCAATATGAGTTGA--ATTTTGAAAAGCAGAAATTGAAAATAC
* * * ** *
38318958 CTCGGCGTGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTTGA--T-TTTTGAAAAACAGAA
63 CTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTGTTTTG-AAAACAGAA
*
38319020 ATTGAAATTACCTCAGTGTGTC
127 ATTGAAATTACCTCAGCGTGTC
* * *
38319042 CATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAAT
1 C-TGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTG------A-AAA--G--CAGAAAT
* * * ** *
38319107 TGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTT-TCTTGA
54 TGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTGTTTTGA
* **
38319171 AAAGCAGAAATTGAAAATACCTCAATGTGTC
119 AAA-CAGAAATTGAAATTACCTCAGCGTGTC
* * * * *
38319202 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA-CAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--ATTTTGAAAAGCAGAAATTGAAAATACC
* *
38319266 TCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTG-TTTGACAACAGAAAT
64 TCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTGTTTTGAAAACAGAAAT
38319330 TGAAATTACCTCAGCGTGTC
129 TGAAATTACCTCAGCGTGTC
* * * *
38319350 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAATTTGGAAAA-CAAAAATTGAAATTACCT
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTG-AATTTTGAAAAGCAGAAATTGAAAATACCT
* *
38319414 CAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTT-TTTTGACAACAGAAATT
65 CAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTGTTTTGAAAACAGAAATT
38319478 GAAATTACCTCAGCGTGTC
130 GAAATTACCTCAGCGTGTC
* *
38319497 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAA
1 CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAA
38319541 ATAAAAATTA
Statistics
Matches: 1148, Mismatches: 191, Indels: 281
0.71 0.12 0.17
Matches are distributed among these distances:
145 9 0.01
146 84 0.07
147 205 0.18
148 120 0.10
149 83 0.07
154 5 0.00
155 3 0.00
156 3 0.00
157 5 0.00
158 58 0.05
159 128 0.11
160 63 0.05
161 78 0.07
162 28 0.02
163 6 0.01
164 5 0.00
165 16 0.01
166 11 0.01
167 8 0.01
168 9 0.01
169 8 0.01
171 14 0.01
172 2 0.00
173 5 0.00
174 39 0.03
175 11 0.01
176 6 0.01
177 11 0.01
178 18 0.02
179 2 0.00
180 3 0.00
181 3 0.00
182 41 0.04
183 24 0.02
184 2 0.00
185 22 0.02
186 2 0.00
187 6 0.01
188 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (148 bp):
CTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTC
AGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTGTTTTGAAAACAGAAATTG
AAATTACCTCAGCGTGTC
Found at i:38318437 original size:161 final size:160
Alignment explanation
Indices: 38318100--38319541 Score: 407
Period size: 159 Copynumber: 9.0 Consensus size: 160
38318090 TGAGTTGAAT
* * **
38318100 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
* * * * * **
38318165 AGTTGAATTTTTGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTC
66 AGTTGAA-TATTAAAAACAAAAATTGAAAATACCTCAATGTGTCCTGAGGCTCAACTCACCTCTC
* * * *
38318230 GCAATATGAGTTGATTCTTTCAAAAACATAA
130 GCAACATGAGCTGATTCTTGCAAAAACAGAA
* * ***
38318261 TAATGAAAA-CAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 T-TTGAAAAGCAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
**
38318325 GAGTTGAA-ATTAAAACACAAAAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCT
65 GAGTTGAATATTAAAA-ACAAAAATTGAAAATACCTC--AATGTGTCCTGAGGCTCAACTCACCT
* * **
38318389 CTTGCAACATGAGCTGATT-TTGGAAAAGTAGAA
127 CTCGCAACATGAGCTGATTCTTGCAAAAACAGAA
* * *
38318422 TTTGAAAAGCAGAAATTGAAAAAACGAAAAATTGAAAATACCTCAGCGTGCGAGCCGAGGCTCAA
1 TTTGAAAAGC-------------A-G--AAATTGAAAATACCTCAACGT--GACCTGAGGCTCAA
* * * * * *
38318487 CTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAGCAGAACTTGAAAATACCTCAACGTG
48 CTCACCTCTCGCAATATGAGTTGA-----ATATT-AAAAACAAAAATTGAAAATACCTCAATGTG
* ** * * ** * * * *
38318552 TCTTGAGGCTCAACTCATTTCTCACAATATGAATTAAATTTTTTTTTG-AGAAGCAGAAA
107 TCCTGAGGCTCAACTCACCTCTCGCAACATGAGCT-GA----TTCTTGCAAAAACAG-AA
* * *** ** * * *
38318611 TTGGAAAAAACATCTATTGAAAATACCTCGGCGTATGACCTGAGGCTCCATTCACCTCTAGCAAT
1 TTTG-AAAAGCAGAAATTGAAAATACCTCAACG--TGACCTGAGGCTCAACTCACCTCTCGCAAT
* * ***
38318676 ATGAATTGATTTTTGAAAACATAAATTGAAAAACAGAAATGGAAAATACCTCAGCATGTCCTGAG
63 ATG-A--G----TTG---A-AT--ATT-AAAAACAAAAATTGAAAATACCTCAATGTGTCCTGAG
** * *
38318741 GCTCAACTCACCTCTCGCAGTATGAGTTG-GT-TT------------
114 GCTCAACTCACCTCTCGCAACATGAGCTGATTCTTGCAAAAACAGAA
* * * * *
38318774 TTTGCTAAA-CAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTTG-AAAAGCAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * * * * *
38318838 GAGTTGATTTAGAAAACAGACATAAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGCC-AAGG
65 GA---G--TT-G---A-ATA-TTAAAAACAAAAATTGAAAAT-ACCTC-A-ATGTG-TCCTGAGG
* * *
38318901 CTCAACTCACCTTTCGCAATATGAGTTGATT-TT------------
115 CTCAACTCACCTCTCGCAACATGAGCTGATTCTTGCAAAAACAGAA
* * ** * * *
38318934 TTTG-AAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTATCGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
* * * * *
38318998 AGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGTGTGTCCATGAGGCTCAACTCACCTCT
66 AGTTGAATATT-AAAAACAAAAATTGAAAATACCTCAATGTGTCC-TGAGGCTCAACTCACCTCT
* * * *
38319063 CGCAATATGAGTTGATTTTTG-AAAAACATAA
129 CGCAACATGAGCTGATTCTTGCAAAAACAGAA
* * * * *
38319094 ATTG--AA-CAGGAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
* * * * *
38319156 AGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTC
66 AGTTGA--ATATT-AAAAACAAAAATTGAAAATACCTCAATGTGTCCTGAGGCTCAACTCACCTC
* *
38319221 TCGCAATATGAGTTGATT-TT------------
128 TCGCAACATGAGCTGATTCTTGCAAAAACAGAA
* * * * **
38319241 TTTGACAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
* * * * * * ** **
38319305 AGTTGAGTTGTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCT
66 AGTTGA-AT-ATTAAAAACAAAAATTGAAAATACCTCAATGTGTCCTGAGGCTCAACTCACCTCT
*
38319370 CGC-A-AT-A--TGA--GTTG-------A-AA
129 CGCAACATGAGCTGATTCTTGCAAAAACAGAA
* * * * **
38319387 TTTGGAAAA-CAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
1 TTT-GAAAAGCAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * * * * * **
38319451 GAGTTGAGTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
65 GAGTTGA--ATATTAAAAACAAAAATTGAAAATACCTCAATGTGTCCTGAGGCTCAACTCACCTC
* * *
38319516 TAGCAATATGAGTTGATT-TTG-AAAAA
128 TCGCAACATGAGCTGATTCTTGCAAAAA
38319542 TAAAAATTAA
Statistics
Matches: 1022, Mismatches: 158, Indels: 205
0.74 0.11 0.15
Matches are distributed among these distances:
142 2 0.00
143 3 0.00
145 1 0.00
146 7 0.01
147 127 0.12
148 87 0.09
149 84 0.08
150 2 0.00
152 3 0.00
153 4 0.00
154 2 0.00
156 1 0.00
157 21 0.02
158 63 0.06
159 135 0.13
160 101 0.10
161 67 0.07
162 62 0.06
163 6 0.01
174 45 0.04
175 4 0.00
176 2 0.00
177 20 0.02
179 36 0.04
180 1 0.00
181 3 0.00
182 57 0.06
183 30 0.03
184 2 0.00
185 19 0.02
186 4 0.00
188 8 0.01
189 8 0.01
190 5 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (160 bp):
TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGAATATTAAAAACAAAAATTGAAAATACCTCAATGTGTCCTGAGGCTCAACTCACCTCTCG
CAACATGAGCTGATTCTTGCAAAAACAGAA
Found at i:38318827 original size:74 final size:73
Alignment explanation
Indices: 38318706--38319535 Score: 683
Period size: 74 Copynumber: 10.9 Consensus size: 73
38318696 ATAAATTGAA
* * *
38318706 AAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGG
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
38318771 TTTTTTGCT
66 TTTTTTG-T
* * * *
38318780 AAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
***
38318845 TTTAGAAAACAGACAT
66 TTT-----TTTG---T
* ** * * * *
38318861 AAAAACAGAAATTGAAAGTGACTCAAC---ACGTGA-GC-CAAGGCTCAACTCACCTTTCGCAAT
1 --AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA----C---TCACCTCTCGCAAT
*
38318921 ATGAGTTGATTTTTT-T
57 ATGAGTTGGTTTTTTGT
* * * * * *
38318937 GAAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTT
1 -AAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
38319002 -GATTTTTGAA
64 GGTTTTTTG-T
* *
38319012 AAACAGAAATTGAAATTACCTCAGTGTGTCCATGAGGCTCAACTCACCTCTCGCAATATGAGTT-
1 AAACAGAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
38319076 GATTTTTGAAAAACAT
65 GTTTTTTG-------T
* * * *
38319092 AAATTGAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 --A---AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
38319157 GTTGATTTTCTTGA
61 GTTGGTTTT-TTGT
** *
38319171 AAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
38319236 ATTTTTT-T
65 GTTTTTTGT
* **
38319244 GACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 -A-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
38319309 GAGTTGTTTG-
64 G-GTTTTTTGT
* **
38319319 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 A-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*** * *
38319384 AAATTTGGA
65 GTTTTTTGT
* * **
38319393 AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-
38319458 GTTTTTTG-
65 GTTTTTTGT
* *
38319466 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG
1 A-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
38319531 ATTTT
65 GTTTT
38319536 GAAAAATAAA
Statistics
Matches: 627, Mismatches: 83, Indels: 93
0.78 0.10 0.12
Matches are distributed among these distances:
73 97 0.15
74 311 0.50
75 73 0.12
76 16 0.03
77 2 0.00
78 3 0.00
79 6 0.01
80 6 0.01
81 4 0.01
82 2 0.00
83 20 0.03
84 31 0.05
85 53 0.08
86 3 0.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (73 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
TTTTTTGT
Found at i:38318924 original size:159 final size:157
Alignment explanation
Indices: 38318626--38319481 Score: 476
Period size: 159 Copynumber: 5.5 Consensus size: 157
38318616 AAAAACATCT
* * * * * * *
38318626 ATTGAAAATACCTCGGCGTATGACCTGAGGCTCCATTCACCTCTAGCAATATGAATTGATTTTTG
1 ATTGAAAATACCTCGGCG--TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAG
* * * *
38318691 AAAACATAAATTGAAAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCT
63 AAAACAGAAATTGAAAAACAGAAATGGAAAATACCTCAACATGGCCTAAGGCTCAACTCACCTCT
* *
38318756 CGCAGTATGAGTTGGTTTTTTGCTAAACAGT-A
128 CGCAATATGAGTTGATTTTTT--TAAA-AGTAA
*
38318788 ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAAA
1 ATTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAAA
* * * *
38318853 ACAGACA-T-AAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGCC-AAGGCTCAACTCACCTT
66 ACAGAAATTGAAAAACAGAAATGGAAAAT-ACCTCAACA--TG-GCCTAAGGCTCAACTCACCTC
*
38318914 TCGCAATATGAGTTGATTTTTTTGAAAGTAGA
127 TCGCAATATGAGTTGATTTTTTTAAAAGTA-A
*
38318946 ATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTT----
1 A-TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAA
* * *** * *
38319007 --------TTGAAAAACAGAAATTGAAATTACCTCAGTGTGTCCATGAGGCTCAACTCACCTCTC
65 AACAGAAATTGAAAAACAGAAATGGAAAATACCTCAACATGGCC-TAAGGCTCAACTCACCTCTC
* **
38319064 GCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGA
129 GCAATATGAGTTGATTTTT-------TTAAA---AGTA--A
** * ** *
38319105 ATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTT-----
1 ATTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAAA
* * * ** * * *
38319165 TC-----TTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGC
66 ACAGAAATTGAAAAACAGAAATGGAAAATACCTCAACATGGCCTAAGGCTCAACTCACCTCTCGC
38319225 AATATGAGTTGATTTTTTTGACAACAG-AA
131 AATATGAGTTGATTTTTTT-A-AA-AGTAA
* * * * ** *
38319254 ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTT-----
1 ATTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAAA
* * * * * * * * **
38319314 ---G--TTTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGC
66 ACAGAAATTGAAAAACAGAAATGGAAAATACCTCAACATGGCCTAAGGCTCAACTCACCTCTCGC
** ** **
38319373 AATATGAGTTGAAATTTGGAAAACAAAA
131 AATATGAGTTGATTTTTTTAAAA-GTAA
* * * * ** *
38319401 ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTTTG
1 ATTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTAG
*
38319466 ACAACAGAAATTGAAA
63 AAAACAGAAATTGAAA
38319482 TTACCTCAGC
Statistics
Matches: 580, Mismatches: 69, Indels: 91
0.78 0.09 0.12
Matches are distributed among these distances:
145 1 0.00
146 4 0.01
147 62 0.11
148 99 0.17
149 79 0.14
150 2 0.00
151 1 0.00
152 2 0.00
153 1 0.00
154 2 0.00
155 3 0.01
156 3 0.01
157 26 0.04
158 59 0.10
159 148 0.26
160 70 0.12
161 1 0.00
162 17 0.03
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (157 bp):
ATTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAAA
ACAGAAATTGAAAAACAGAAATGGAAAATACCTCAACATGGCCTAAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTTTAAAAGTAA
Found at i:38319187 original size:233 final size:226
Alignment explanation
Indices: 38318701--38319541 Score: 991
Period size: 233 Copynumber: 3.7 Consensus size: 226
38318691 AAAACATAAA
* * * *
38318701 TTGAAAAACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * * *
38318766 GTTGGTTTTTTGCTAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTC
66 GTTGATTTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
* * *
38318831 GCAATATGAGTTGATTTAGAAAACAGACATAAAAACAGAAATTGAAAGTGA-CTCAACACGTGAG
130 GCAATATGAGTTGATTTTG-AAA-A-ACATAAAAACAGAAATTGAAAAT-ACCTC-A-ACGTG-T
** *
38318895 CCAAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTT
188 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
* * * * * *
38318935 TTG-AAAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTATCGCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
38318999 GTTGA-TTTTTGAAAAACAGAAATTGAAATTACCTCAGTGTGTCCATGAGGCTCAACTCACCTCT
66 GTTGATTTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCT
*
38319063 CGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAAAATACCTCAACGTGTCT
129 CGCAATATGAGTTGA-TTTTGAAAAACATAAA---AACAGAAATTGAAAATACCTCAACGTGTC-
*
38319128 TGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTT
189 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
** *
38319166 CTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 -TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* **
38319231 AGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCT
65 AGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* ** * * * *
38319296 CGCAATATGAGTTGA-GTTG-----TTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAG
129 CGCAATATGAGTTGATTTTGAAAAACATAAAAACAGAAATTGAAAATACCTCAACGTGT-CTGAG
** **
38319355 GCTCAACTCATTTCTCGCAATATGAGTTGAAATT
193 GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * **
38319389 TGGAAAA-CAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
38319453 GTTGAGTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTA
66 GTTGA-TTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
38319518 GCAATATGAGTTGATTTTGAAAAA
130 GCAATATGAGTTGATTTTGAAAAA
38319542 TAAAAATTAA
Statistics
Matches: 524, Mismatches: 65, Indels: 43
0.83 0.10 0.07
Matches are distributed among these distances:
221 125 0.24
222 9 0.02
223 58 0.11
224 1 0.00
226 2 0.00
231 15 0.03
232 72 0.14
233 182 0.35
234 54 0.10
235 6 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (226 bp):
TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTGAAAAACATAAAAACAGAAATTGAAAATACCTCAACGTGTCTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTT
Found at i:38319698 original size:73 final size:71
Alignment explanation
Indices: 38319553--38319875 Score: 314
Period size: 73 Copynumber: 4.5 Consensus size: 71
38319543 AAAAATTAAA
* * * * * * *
38319553 AGGCTTAACTCACTTCTCGCAATATGAGTCAA--TTTAAAACATAA-ACTAAAAATACCTCGGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGT-AATTTTTGAAACAAAAGAATTAAAATACCTCAGCG
* *
38319615 TGCCCCG
65 TGACCTG
* *
38319622 AGGCTCAACTCACCCCTCGCAATATGAGCTGATTTTTGAAACAAAAGGAATTAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAG-TAATTTTTGAAACAAAA-GAATTAAAATACCTCAGC
38319687 GTGACCTG
64 GTGACCTG
** * * *
38319695 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTGAAACATAA-ACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGT-AATTTTTGAAACAAAAGAATTAAAATACCTCAGC-
38319759 TGTGACCTG
64 -GTGACCTG
*** * * *
38319768 AGGCTCAACTCTTTTCTCACAATATGAGTTAAGTTTTTGAAA-ACATGAATTAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAG-TAA-TTTTTGAAACAAAAGAATTAAAATACCTCAGC
38319832 GTGACCTG
64 GTGACCTG
**
38319840 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGT-AATTTT
38319876 CCTTGGAAAG
Statistics
Matches: 208, Mismatches: 34, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
69 26 0.12
70 1 0.00
71 30 0.14
72 33 0.16
73 93 0.45
74 25 0.12
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTAATTTTTGAAACAAAAGAATTAAAATACCTCAGCGT
GACCTG
Found at i:38319842 original size:145 final size:144
Alignment explanation
Indices: 38319553--38319875 Score: 456
Period size: 145 Copynumber: 2.2 Consensus size: 144
38319543 AAAAATTAAA
* *
38319553 AGGCTTAACTCACTTCTCGCAATATGAGTCAA--TTTAAAACATAAACTAAAAATACCTCGGCGT
1 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTAAAACATAAACTAAAAATACCTCGGCGT
* * *
38319616 GCCCCGAGGCTCAACTCACCCCTCGCAATATGAGCTGATTTTTGAAACAAAAGGAATTAAAATAC
66 GACCCGAGGCTCAACTCACCCCTCACAATATGAGCTAATTTTTGAAACAAAAGGAATTAAAATAC
38319681 CTCAGCGTGACCTG
131 CTCAGCGTGACCTG
* *
38319695 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTGAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTAAAACATAAACTAAAAATACCTC-G-GC
* **** * * *
38319760 GTGACCTGAGGCTCAACTCTTTTCTCACAATATGAGTTAAGTTTTTG-AA-AACATGAATTAAAA
64 GTGACCCGAGGCTCAACTCACCCCTCACAATATGAGCTAA-TTTTTGAAACAAAAGGAATTAAAA
38319823 TACCTCAGCGTGACCTG
128 TACCTCAGCGTGACCTG
38319840 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTT
1 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTT
38319876 CCTTGGAAAG
Statistics
Matches: 161, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
142 30 0.19
144 25 0.16
145 66 0.41
146 34 0.21
147 6 0.04
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (144 bp):
AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTAAAACATAAACTAAAAATACCTCGGCGT
GACCCGAGGCTCAACTCACCCCTCACAATATGAGCTAATTTTTGAAACAAAAGGAATTAAAATAC
CTCAGCGTGACCTG
Found at i:38327568 original size:28 final size:28
Alignment explanation
Indices: 38327532--38327595 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
38327522 CTTCTATTGC
*
38327532 TTTGAGTCTTTCCTCTAGACTCCTATAT
1 TTTGCGTCTTTCCTCTAGACTCCTATAT
38327560 TTTGCGTCTTTCCTCTAGACTCCTATAT
1 TTTGCGTCTTTCCTCTAGACTCCTATAT
38327588 TTTGCGTC
1 TTTGCGTC
38327596 ATGGTTATCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.14, C:0.27, G:0.12, T:0.47
Consensus pattern (28 bp):
TTTGCGTCTTTCCTCTAGACTCCTATAT
Found at i:38328190 original size:12 final size:12
Alignment explanation
Indices: 38328173--38328203 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38328163 TATGCAATGA
*
38328173 ATGAATTGATGC
1 ATGAATGGATGC
38328185 ATGAATGGATGC
1 ATGAATGGATGC
38328197 ATGAATG
1 ATGAATG
38328204 TCAAATGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (12 bp):
ATGAATGGATGC
Found at i:38332986 original size:20 final size:19
Alignment explanation
Indices: 38332963--38333008 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
38332953 AGGAAGAGGA
*
38332963 GGGAGAGAAAAGAGGGAGCG
1 GGGAGAGAAAAGAGGG-GAG
* *
38332983 GGGAAAGAAGAGAGGGGAG
1 GGGAGAGAAAAGAGGGGAG
38333002 GGGAGAG
1 GGGAGAG
38333009 CTCCGGCCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.59, T:0.00
Consensus pattern (19 bp):
GGGAGAGAAAAGAGGGGAG
Found at i:38344512 original size:35 final size:34
Alignment explanation
Indices: 38344473--38344631 Score: 212
Period size: 35 Copynumber: 4.6 Consensus size: 34
38344463 GTGCAAACAA
*
38344473 GGTCTAACCAAACCTTTTTAAGGTTGCCTTAGAC
1 GGTCTATCCAAACCTTTTTAAGGTTGCCTTAGAC
*
38344507 AGGTCTATCCAAACCTTTTTTAGGTTGCCTTAGAC
1 -GGTCTATCCAAACCTTTTTAAGGTTGCCTTAGAC
*
38344542 GAGTCTATCTC-AACCTTTTTAAGGTTGCCCTAGAC
1 G-GTCTATC-CAAACCTTTTTAAGGTTGCCTTAGAC
* *
38344577 GGGTCTATCCTAACCTCTTTAAGGTTGCCTTAGAC
1 -GGTCTATCCAAACCTTTTTAAGGTTGCCTTAGAC
*
38344612 GAGTCTATCCTAACCTTTTT
1 G-GTCTATCCAAACCTTTTT
38344632 TTTCATTGTC
Statistics
Matches: 112, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
34 3 0.03
35 107 0.96
36 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (34 bp):
GGTCTATCCAAACCTTTTTAAGGTTGCCTTAGAC
Found at i:38344592 original size:70 final size:70
Alignment explanation
Indices: 38344474--38344631 Score: 237
Period size: 70 Copynumber: 2.3 Consensus size: 70
38344464 TGCAAACAAG
* * * * *
38344474 GTCTAACCAAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCAAACCTTTTTTAGGTTGCCTTA
1 GTCTATCCTAACCTTTTTAAGGTTGCCCTAGACAGGTCTATCCAAACCTCTTTAAGGTTGCCTTA
38344539 GACGA
66 GACGA
* *
38344544 GTCTAT-CTCAACCTTTTTAAGGTTGCCCTAGACGGGTCTATCCTAACCTCTTTAAGGTTGCCTT
1 GTCTATCCT-AACCTTTTTAAGGTTGCCCTAGACAGGTCTATCCAAACCTCTTTAAGGTTGCCTT
38344608 AGACGA
65 AGACGA
38344614 GTCTATCCTAACCTTTTT
1 GTCTATCCTAACCTTTTT
38344632 TTTCATTGTC
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
69 1 0.01
70 76 0.96
71 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (70 bp):
GTCTATCCTAACCTTTTTAAGGTTGCCCTAGACAGGTCTATCCAAACCTCTTTAAGGTTGCCTTA
GACGA
Found at i:38349584 original size:23 final size:22
Alignment explanation
Indices: 38349532--38349584 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38349522 TCCTCGTCTT
*
38349532 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38349554 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38349577 TTTCTTTT
1 TTTCTTTT
38349585 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38361095 original size:42 final size:40
Alignment explanation
Indices: 38361023--38361136 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
38361013 GAAACAGTTT
* ** *
38361023 GGGCCTTAGCCCACTCGGATATAGAATCAGATATATATAATA
1 GGGCCTTAGCCCAATCAAATACAGAATCAGA-A-ATATAATA
* *
38361065 GGGCCTTAGCCCAATCAAATACAGAGTCAGAAATATATTA
1 GGGCCTTAGCCCAATCAAATACAGAATCAGAAATATAATA
* *
38361105 GGGCCTCATCCCAATCAAATACAGAATGCAGA
1 GGGCCTTAGCCCAATCAAATACAGAAT-CAGA
38361137 TCAGAATATC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 31 0.50
41 5 0.08
42 26 0.42
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (40 bp):
GGGCCTTAGCCCAATCAAATACAGAATCAGAAATATAATA
Found at i:38361600 original size:17 final size:18
Alignment explanation
Indices: 38361568--38361602 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
38361558 CATGTGGCCT
*
38361568 GCCCGTGTGCGCCCACAC
1 GCCCGTGCGCGCCCACAC
38361586 GCCCGTGCG-GCCCACAC
1 GCCCGTGCGCGCCCACAC
38361603 AGTCTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.51, G:0.29, T:0.09
Consensus pattern (18 bp):
GCCCGTGCGCGCCCACAC
Done.