Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 127 of 163
Found at i:40875218 original size:20 final size:19
Alignment explanation
Indices: 40875189--40875226 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
40875179 TCTTATCACA
40875189 TCATAACATATTGCAACATG
1 TCATAACATATTG-AACATG
*
40875209 TCATATCATATTGAACAT
1 TCATAACATATTGAACAT
40875227 AGCATAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (19 bp):
TCATAACATATTGAACATG
Found at i:40875247 original size:15 final size:14
Alignment explanation
Indices: 40875209--40875260 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
40875199 TTGCAACATG
*
40875209 TCATATCATATTGA
1 TCATATCATATTTA
* *
40875223 ACATAGCATAGTTTA
1 TCATATCATA-TTTA
40875238 TCATATCATATCTTA
1 TCATATCATAT-TTA
40875253 TCATATCA
1 TCATATCA
40875261 AATCATGTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 9 0.29
15 22 0.71
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (14 bp):
TCATATCATATTTA
Found at i:40881086 original size:51 final size:50
Alignment explanation
Indices: 40880941--40881133 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 50
40880931 TGATCAATGT
* * * *
40880941 TATCCGGTACATATAGTAGCCTACACTTAGTACTACACATGTGACCAATAC
1 TATCAGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAA-AC
* * * *
40880992 CATCAGGTACACGTAGTAG-TTGCACATAGTACTACACACGTGACCAAAGC
1 TATCAGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAAA-C
*
40881042 TATTC-GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCATAAC
1 TA-TCAGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCA-AAC
*** * *
40881093 TATCTTATACTCATAGTATCCTGCACATAGTACTACACATG
1 TATCAGGTACACATAGTAGCCTGCACATAGTACTACACATG
40881134 GGTTCTCATG
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
49 1 0.01
50 41 0.34
51 75 0.63
52 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (50 bp):
TATCAGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAAAC
Found at i:40881110 original size:101 final size:101
Alignment explanation
Indices: 40880945--40881131 Score: 261
Period size: 101 Copynumber: 1.8 Consensus size: 101
40880935 CAATGTTATC
* * *
40880945 CGGTACATATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCAGGTACACGTAGTA
1 CGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCAGATACACATAGTA
40881010 GT-TGCACATAGTACTACACACGTGACCAAAGCTATT
66 -TCTGCACATAGTACTACACACGTGACCAAAGCTATT
* * ** *
40881046 CGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-ATAACTATCTTATACTCATAGT
1 CGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCAAT-ACCATCAGATACACATAGT
40881110 ATCCTGCACATAGTACTACACA
65 AT-CTGCACATAGTACTACACA
40881132 TGGGTTCTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
100 3 0.04
101 54 0.72
102 18 0.24
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (101 bp):
CGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCAGATACACATAGTA
TCTGCACATAGTACTACACACGTGACCAAAGCTATT
Found at i:40881908 original size:5 final size:5
Alignment explanation
Indices: 40881887--40881955 Score: 68
Period size: 5 Copynumber: 13.8 Consensus size: 5
40881877 GGCTGTTACA
* * ** *
40881887 CATAT CATGT CATAT CAGAT CATAT CATAT CATAT CGGAT CATAT CATGT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
*
40881937 CACAT CGA-AT CATAT CATA
1 CATAT C-ATAT CATAT CATA
40881956 CAATGTCCTA
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
4 1 0.02
5 49 0.96
6 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (5 bp):
CATAT
Found at i:40881912 original size:20 final size:19
Alignment explanation
Indices: 40881887--40881954 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 19
40881877 GGCTGTTACA
40881887 CATATCATGTCATATCAGAT
1 CATATCATGTCATATC-GAT
*
40881907 CATATCATATCATATCGGAT
1 CATATCATGTCATATC-GAT
*
40881927 CATATCATGTCACATCGAAT
1 CATATCATGTCATATCG-AT
40881947 CATATCAT
1 CATATCAT
40881955 ACAATGTCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 1 0.02
20 42 0.98
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (19 bp):
CATATCATGTCATATCGAT
Found at i:40882135 original size:7 final size:7
Alignment explanation
Indices: 40882123--40882197 Score: 55
Period size: 7 Copynumber: 10.0 Consensus size: 7
40882113 TGCATATGCA
40882123 TACATAT
1 TACATAT
40882130 TACATAT
1 TACATAT
* *
40882137 AACACTTAA
1 TACA--TAT
40882146 TACATAT
1 TACATAT
40882153 TACATAT
1 TACATAT
40882160 TACATACAT
1 TACAT--AT
40882169 ATACATAT
1 -TACATAT
40882177 TACTATAAT
1 TAC-AT-AT
40882186 T--ATAT
1 TACATAT
40882191 TACATAT
1 TACATAT
40882198 AATTGTTATC
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
5 3 0.05
6 2 0.04
7 31 0.56
8 4 0.07
9 10 0.18
10 5 0.09
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (7 bp):
TACATAT
Found at i:40882151 original size:16 final size:18
Alignment explanation
Indices: 40882130--40882179 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
40882120 GCATACATAT
*
40882130 TACATATAACA-CTTA-A
1 TACATATAACATATTACA
*
40882146 TACATATTACATATTACA
1 TACATATAACATATTACA
40882164 TACATAT-ACATATTAC
1 TACATATAACATATTAC
40882180 TATAATTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 10 0.33
17 12 0.40
18 8 0.27
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (18 bp):
TACATATAACATATTACA
Found at i:40882152 original size:23 final size:24
Alignment explanation
Indices: 40882122--40882184 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
40882112 TTGCATATGC
*
40882122 ATACATATTACATATAAC--ACTT
1 ATACATATTACATATAACATACAT
*
40882144 AATACATATTACATATTACATACAT
1 -ATACATATTACATATAACATACAT
40882169 ATACATATTAC-TATAA
1 ATACATATTACATATAA
40882185 TTATATTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 21 0.60
24 11 0.31
25 3 0.09
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.37
Consensus pattern (24 bp):
ATACATATTACATATAACATACAT
Found at i:40882763 original size:49 final size:49
Alignment explanation
Indices: 40882707--40882822 Score: 169
Period size: 49 Copynumber: 2.4 Consensus size: 49
40882697 AAACCTAGCT
* *
40882707 CGTGTGGTCCACGTGGTCTACCCACATGGTCTGCATCATTTCACATGAC
1 CGTGTGGTCCACATGGTCTACACACATGGTCTGCATCATTTCACATGAC
* * **
40882756 CGTGTGGTCCACATGGTCTACACACATGGTCTGTATGATTTCACATGGT
1 CGTGTGGTCCACATGGTCTACACACATGGTCTGCATCATTTCACATGAC
*
40882805 CGTGTGGTCCACACGGTC
1 CGTGTGGTCCACATGGTC
40882823 AAGCCACACT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.29
Consensus pattern (49 bp):
CGTGTGGTCCACATGGTCTACACACATGGTCTGCATCATTTCACATGAC
Found at i:40882920 original size:49 final size:49
Alignment explanation
Indices: 40882797--40882908 Score: 172
Period size: 49 Copynumber: 2.3 Consensus size: 49
40882787 TGTATGATTT
* * *
40882797 CACATGGTCGTGTGGTCCACACGGTCAAGCCACACTGGCTACAAAAACA
1 CACACGGTCGTGTGGTCCACACGGCCAAACCACACTGGCTACAAAAACA
*
40882846 CACACGGTCTTGTGGTCCACACGGCCAAACCACA-TAGGCTACAAAAACA
1 CACACGGTCGTGTGGTCCACACGGCCAAACCACACT-GGCTACAAAAACA
40882895 CACACGGTCGTGTG
1 CACACGGTCGTGTG
40882909 CCCTACACGG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 1 0.02
49 56 0.98
ACGTcount: A:0.30, C:0.31, G:0.22, T:0.16
Consensus pattern (49 bp):
CACACGGTCGTGTGGTCCACACGGCCAAACCACACTGGCTACAAAAACA
Found at i:40888778 original size:51 final size:51
Alignment explanation
Indices: 40888647--40888839 Score: 196
Period size: 51 Copynumber: 3.8 Consensus size: 51
40888637 GAAAGTGATG
*
40888647 GTCACA-GTTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TGATA
1 GTCACATG-TGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATA
* * * * *
40888696 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TTC
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATA
* * * *
40888747 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATA
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATA
* * * * *
40888799 GTCACTTGTGTATTACGATGTGCAGGCTACTATGTGAACCG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
40888840 AACATCAGTG
Statistics
Matches: 118, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
50 39 0.33
51 76 0.64
52 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (51 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATA
Found at i:40889076 original size:37 final size:38
Alignment explanation
Indices: 40889005--40889077 Score: 107
Period size: 37 Copynumber: 1.9 Consensus size: 38
40888995 AGGTGTGGAA
40889005 TTGAATTGAATGTCGACTTAGAAATGAAAAAGTGAATT
1 TTGAATTGAATGTCGACTTAGAAATGAAAAAGTGAATT
40889043 TTGAATTGAATTGT-GA-TT-GAAAGTGAAAAAGTGAA
1 TTGAATTGAA-TGTCGACTTAGAAA-TGAAAAAGTGAA
40889078 ATTATGAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
36 4 0.12
37 14 0.42
38 12 0.36
39 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATGTCGACTTAGAAATGAAAAAGTGAATT
Found at i:40895740 original size:52 final size:52
Alignment explanation
Indices: 40895683--40895781 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
40895673 TCTAAACAAA
* *
40895683 ATAATAATTAACTACTTAAATTTAAATAAGTTAATAAAATTTTCTTAACACC
1 ATAATAATTAACTAATTAAAATTAAATAAGTTAATAAAATTTTCTTAACACC
* *
40895735 ATAATAATTAACTAATTAAAATTAAATAATTTAATAATATTTTCTTA
1 ATAATAATTAACTAATTAAAATTAAATAAGTTAATAAAATTTTCTTA
40895782 CCATTTGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.41
Consensus pattern (52 bp):
ATAATAATTAACTAATTAAAATTAAATAAGTTAATAAAATTTTCTTAACACC
Found at i:40895929 original size:14 final size:14
Alignment explanation
Indices: 40895907--40895972 Score: 60
Period size: 14 Copynumber: 4.7 Consensus size: 14
40895897 TGGAATTGAG
*
40895907 AATTTAGAATAAAA
1 AATTGAGAATAAAA
* ** *
40895921 AATCGAGAATTGAC
1 AATTGAGAATAAAA
*
40895935 AATTGAAAATAAAA
1 AATTGAGAATAAAA
* *
40895949 AATTGAGAACAAGA
1 AATTGAGAATAAAA
40895963 AATTGAGAAT
1 AATTGAGAAT
40895973 CAAATTGTGA
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.58, C:0.05, G:0.15, T:0.23
Consensus pattern (14 bp):
AATTGAGAATAAAA
Found at i:40895945 original size:28 final size:28
Alignment explanation
Indices: 40895899--40895957 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
40895889 TTTTAATTTG
* * *
40895899 GAATTGAGAATTTAGAATAAAAAATCGA
1 GAATTGACAATTGAAAATAAAAAATCGA
*
40895927 GAATTGACAATTGAAAATAAAAAATTGA
1 GAATTGACAATTGAAAATAAAAAATCGA
40895955 GAA
1 GAA
40895958 CAAGAAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.56, C:0.03, G:0.17, T:0.24
Consensus pattern (28 bp):
GAATTGACAATTGAAAATAAAAAATCGA
Found at i:40897557 original size:22 final size:24
Alignment explanation
Indices: 40897505--40897559 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
40897495 TAATAGATGC
**
40897505 TTATTTAATATATACATGTAAAAA
1 TTATTTAATATATACAAATAAAAA
*
40897529 -TAATTAA-ATATA-AAATAAAAA
1 TTATTTAATATATACAAATAAAAA
40897550 TTATTTAATA
1 TTATTTAATA
40897560 AAATTTCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
21 7 0.28
22 11 0.44
23 7 0.28
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TTATTTAATATATACAAATAAAAA
Found at i:40902769 original size:16 final size:16
Alignment explanation
Indices: 40902750--40902785 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
40902740 ATATTTTATA
*
40902750 ATTTATGTATACATAT
1 ATTTATGTATACATAC
*
40902766 ATTTATGTCTACATAC
1 ATTTATGTATACATAC
40902782 ATTT
1 ATTT
40902786 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTTATGTATACATAC
Found at i:40909243 original size:85 final size:85
Alignment explanation
Indices: 40909100--40909269 Score: 259
Period size: 85 Copynumber: 2.0 Consensus size: 85
40909090 TTTTGCAAAT
*
40909100 ATCATTCAATTACATGCGGTGCCCTCGAAAATAAATTACGTATGTATGTCTCCAAAATCTTATCT
1 ATCATTCAATTACATGCGGTGCCCTCGAAAATAAATTACGTATGTATGTCTCCAAAATCTAATCT
40909165 TCGGCCTGAATATACAAAAA
66 TCGGCCTGAATATACAAAAA
* * **
40909185 ATCATTCAATTACATGCGGTGCCCTCGATAATAGATTGTGTATGTATGTCTCCAAAATCTAATCT
1 ATCATTCAATTACATGCGGTGCCCTCGAAAATAAATTACGTATGTATGTCTCCAAAATCTAATCT
* * * *
40909250 TTGGCTTGTATATACTAAAA
66 TCGGCCTGAATATACAAAAA
40909270 GTTAAATTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (85 bp):
ATCATTCAATTACATGCGGTGCCCTCGAAAATAAATTACGTATGTATGTCTCCAAAATCTAATCT
TCGGCCTGAATATACAAAAA
Found at i:40911325 original size:39 final size:40
Alignment explanation
Indices: 40911204--40911326 Score: 160
Period size: 40 Copynumber: 3.1 Consensus size: 40
40911194 TTTGGACAAA
* **
40911204 AAAACACCGCTAAAAATCGAGCATTAGCGGCGC-TTTACAT
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTA-GG
*
40911244 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTAGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTAGG
* * *
40911284 AAAGCGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTTGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTAGG
40911323 AAAA
1 AAAA
40911327 ATGCCACAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
39 23 0.32
40 46 0.63
41 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTAGG
Found at i:40911431 original size:41 final size:41
Alignment explanation
Indices: 40911378--40911569 Score: 287
Period size: 41 Copynumber: 4.7 Consensus size: 41
40911368 ATTTTTGGGC
*
40911378 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAGGCT
* *
40911419 TTTAGTGCCGTTTTTCAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAGGCT
* *
40911460 TTCAGCGGCGTTTTTCAAAACGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAGGCT
**
40911501 TTTAGCGGCGTTTTAAAAAAAGCGCCGCTAATGCTCAGAGC-
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAG-GCT
* *
40911542 TTTAGCGGCGTTTTTGATAAAGCGCCGC
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGC
40911570 AAAAACATTT
Statistics
Matches: 136, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
41 134 0.99
42 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAGGCT
Found at i:40911976 original size:133 final size:132
Alignment explanation
Indices: 40911837--40912077 Score: 351
Period size: 133 Copynumber: 1.8 Consensus size: 132
40911827 TTGTGATTTT
* * * *
40911837 GGGGTTAGGGGTTTGAGATCAAGAGTTAAG-GATTTAGGGTTTATG-GATTTGATGTTAGGTTAG
1 GGGGTTAGGGGTTAGAGATCAAGAGTT-AGTGATTTAGGATTTA-GAGATTTGAGGTCAGGTTAG
* *
40911900 GGTTTATGGTTTAGATTAATTAGTGTTTTTTTAATTTATATATTAAATAAAGTTTAGAGGTTAAT
64 GGTTTAAGGTTTAGATTAATTAGT-ATTTTTTAATTTATATATTAAATAAAGTTTAGAGGTTAAT
40911965 AGTTA
128 AGTTA
* * * *
40911970 GGGGTTAGGGGTTAGAGGTTAAGAGTTAGTGATTTAGGATTTAGAGATTTGGGGTCGGGTTAGGG
1 GGGGTTAGGGGTTAGAGATCAAGAGTTAGTGATTTAGGATTTAGAGATTTGAGGTCAGGTTAGGG
40912035 TTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAA
66 TTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAA
40912078 TTAAGTTCTT
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
132 23 0.24
133 73 0.76
ACGTcount: A:0.28, C:0.01, G:0.29, T:0.43
Consensus pattern (132 bp):
GGGGTTAGGGGTTAGAGATCAAGAGTTAGTGATTTAGGATTTAGAGATTTGAGGTCAGGTTAGGG
TTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAAGTTTAGAGGTTAATAGT
TA
Found at i:40911997 original size:14 final size:14
Alignment explanation
Indices: 40911953--40911998 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
40911943 TAAATAAAGT
*
40911953 TTAGAGGTTAATAG
1 TTAGAGGTTAAGAG
* * *
40911967 TTAGGGGTTAGGGG
1 TTAGAGGTTAAGAG
40911981 TTAGAGGTTAAGAG
1 TTAGAGGTTAAGAG
40911995 TTAG
1 TTAG
40911999 TGATTTAGGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.39, T:0.33
Consensus pattern (14 bp):
TTAGAGGTTAAGAG
Found at i:40912279 original size:27 final size:29
Alignment explanation
Indices: 40912234--40912288 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
40912224 TTTATATATT
40912234 AAATAATTTATTATATAAT-TG-TAAAAG
1 AAATAATTTATTATATAATATGTTAAAAG
*
40912261 AAATAATATTATT-TTTAATATGTTAAAA
1 AAATAAT-TTATTATATAATATGTTAAAA
40912289 TTATGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 12 0.50
28 7 0.29
29 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (29 bp):
AAATAATTTATTATATAATATGTTAAAAG
Found at i:40913870 original size:43 final size:43
Alignment explanation
Indices: 40913797--40914031 Score: 234
Period size: 43 Copynumber: 5.6 Consensus size: 43
40913787 GTTATGTTTT
* * * **
40913797 TAGCGGCGTTTTTGCA-AGAAGAGCCGCTAAATATCATGGCCTA
1 TAGCGGCGTTTGTG-AGAAAAGCGCCGCTAAAGGTCATGGCCTA
* * *
40913840 TAGCGGCGTTTGTGAGAAAAGCGCCACTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGCCTA
* * **
40913883 TAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGCCTA
* *
40913926 TAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGG-C-A
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGCCTA
* * *
40913967 T-----CATTTGTGAAAAAAGCGCCGCTAAAGATCATGGCCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGCCTA
* *
40914005 TAGCGGCGTTTGGGGGAAAAGCGCCGC
1 TAGCGGCGTTTGTGAGAAAAGCGCCGC
40914032 GGCGTTTGTG
Statistics
Matches: 161, Mismatches: 23, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
36 30 0.19
37 1 0.01
38 2 0.01
41 2 0.01
42 2 0.01
43 124 0.77
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGCCTA
Found at i:40914025 original size:79 final size:82
Alignment explanation
Indices: 40913819--40914031 Score: 270
Period size: 79 Copynumber: 2.6 Consensus size: 82
40913809 TGCAAGAAGA
* *
40913819 GCCGCTAAATATCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCCACTAAAGGTCATGGTCTTT
1 GCCGCTAAAGATCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC--T
*
40913884 AGCGGCATTTGTGATAAAAGC
64 A--GGCATTTGTGAAAAAAGC
* ** * *
40913905 GCCGCTAAAGGTCATGATCTATAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGG-C-A-
1 GCCGCTAAAGATCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTAG
*
40913967 TCATTTGTGAAAAAAGC
66 GCATTTGTGAAAAAAGC
* *
40913984 GCCGCTAAAGATCATGGCCTATAGCGGCGTTTGGGGGAAAAGCGCCGC
1 GCCGCTAAAGATCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCCGC
40914032 GGCGTTTGTG
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 56 0.50
82 1 0.01
85 1 0.01
86 53 0.48
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (82 bp):
GCCGCTAAAGATCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTAG
GCATTTGTGAAAAAAGC
Found at i:40914033 original size:23 final size:23
Alignment explanation
Indices: 40914007--40914054 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
40913997 ATGGCCTATA
*
40914007 GCGGCGTTTGGGGGAAAAGCGCC
1 GCGGCGTTTGGGAGAAAAGCGCC
* *
40914030 GCGGCGTTTGTGATAAAAGCGCC
1 GCGGCGTTTGGGAGAAAAGCGCC
40914053 GC
1 GC
40914055 TAAAGGTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.19, C:0.23, G:0.42, T:0.17
Consensus pattern (23 bp):
GCGGCGTTTGGGAGAAAAGCGCC
Found at i:40914220 original size:43 final size:43
Alignment explanation
Indices: 40914173--40914267 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
40914163 TTCACAAACA
* ** *
40914173 CCGCTATAGACCATGACCTATAGTGGCGTTTGTGGGAAAAGTG
1 CCGCTAAAGACCATGACCTATAGCAGCGTTTGTGGGAAAAATG
** **
40914216 CCGCTAAAGGTCATGGTCTATAGCAGCGTTTGTGGGAAAAATG
1 CCGCTAAAGACCATGACCTATAGCAGCGTTTGTGGGAAAAATG
40914259 CCGCTAAAG
1 CCGCTAAAG
40914268 GTTATGACCT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (43 bp):
CCGCTAAAGACCATGACCTATAGCAGCGTTTGTGGGAAAAATG
Found at i:40914288 original size:43 final size:43
Alignment explanation
Indices: 40914184--40914289 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
40914174 CGCTATAGAC
* *
40914184 CATGACCTATAGTGGCGTTTGTGGGAAAAGTGCCGCTAAAGGT
1 CATGACCTATACTGGCGTTTGTGGGAAAAATGCCGCTAAAGGT
** *
40914227 CATGGTCTATAGC-AGCGTTTGTGGGAAAAATGCCGCTAAAGGT
1 CATGACCTATA-CTGGCGTTTGTGGGAAAAATGCCGCTAAAGGT
* *
40914270 TATGACCTTTACTGGCGTTT
1 CATGACCTATACTGGCGTTT
40914290 ATTTCTAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
CATGACCTATACTGGCGTTTGTGGGAAAAATGCCGCTAAAGGT
Found at i:40914548 original size:3 final size:3
Alignment explanation
Indices: 40914540--40914573 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
40914530 AAAGCCATTG
40914540 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
40914574 GACTTTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:40915725 original size:40 final size:40
Alignment explanation
Indices: 40915681--40915796 Score: 105
Period size: 40 Copynumber: 2.9 Consensus size: 40
40915671 TAAAAAACCT
40915681 AGAATTAGCGGTGCTTTTCTAAAAACACCGCTAAAGATCA
1 AGAATTAGCGGTGCTTTTCTAAAAACACCGCTAAAGATCA
* * ** *
40915721 AGAATTAGCGGCGC--ATCATGAAAAACGTCGCTAAAGGTCA
1 AGAATTAGCGGTGCTTTTC-T-AAAAACACCGCTAAAGATCA
* * *
40915761 A-ACATTTGCGGTGCTTTACGAAAAACACCGC-AAAGA
1 AGA-ATTAGCGGTGCTTTTCTAAAAACACCGCTAAAGA
40915797 AGTTGAGAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
38 2 0.03
39 6 0.10
40 49 0.84
42 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (40 bp):
AGAATTAGCGGTGCTTTTCTAAAAACACCGCTAAAGATCA
Found at i:40916189 original size:21 final size:21
Alignment explanation
Indices: 40916156--40916203 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
40916146 TTAGAATTTT
* *
40916156 GAGTTTTGCGTTTATGGTTTA
1 GAGTTTGGCGTTTAGGGTTTA
* *
40916177 GAGTTTGGGGTTTGGGGTTTA
1 GAGTTTGGCGTTTAGGGTTTA
*
40916198 GGGTTT
1 GAGTTT
40916204 AGGATTTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.10, C:0.02, G:0.40, T:0.48
Consensus pattern (21 bp):
GAGTTTGGCGTTTAGGGTTTA
Found at i:40916265 original size:7 final size:7
Alignment explanation
Indices: 40916253--40916326 Score: 51
Period size: 7 Copynumber: 10.6 Consensus size: 7
40916243 AATATTTATA
40916253 TTTAGGG
1 TTTAGGG
40916260 TTTAGGG
1 TTTAGGG
* *
40916267 TGTA-TG
1 TTTAGGG
*
40916273 TTTATGG
1 TTTAGGG
*
40916280 TTTGGGG
1 TTTAGGG
**
40916287 TTTAAAG
1 TTTAGGG
40916294 TTTAGGG
1 TTTAGGG
* *
40916301 TCTAGAGT
1 TTTAG-GG
40916309 TTTAGGG
1 TTTAGGG
*
40916316 TTTAGAG
1 TTTAGGG
40916323 TTTA
1 TTTA
40916327 ATTAATACTG
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
6 4 0.08
7 40 0.82
8 5 0.10
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:40916296 original size:14 final size:14
Alignment explanation
Indices: 40916279--40916326 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
40916269 TATGTTTATG
* *
40916279 GTTTGGGGTTTAAA
1 GTTTAGGGTTTAGA
*
40916293 GTTTAGGGTCTAGA
1 GTTTAGGGTTTAGA
40916307 GTTTTAGGGTTTAGA
1 G-TTTAGGGTTTAGA
40916322 GTTTA
1 GTTTA
40916327 ATTAATACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:40916314 original size:15 final size:15
Alignment explanation
Indices: 40916294--40916325 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
40916284 GGGTTTAAAG
40916294 TTTAGGGTCTAGAGT
1 TTTAGGGTCTAGAGT
*
40916309 TTTAGGGTTTAGAGT
1 TTTAGGGTCTAGAGT
40916324 TT
1 TT
40916326 AATTAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (15 bp):
TTTAGGGTCTAGAGT
Found at i:40916360 original size:7 final size:7
Alignment explanation
Indices: 40916341--40916495 Score: 62
Period size: 7 Copynumber: 21.1 Consensus size: 7
40916331 ATACTGTAAA
40916341 GGTTTATG
1 GGTTTA-G
40916349 GGTTTAG
1 GGTTTAG
40916356 GGTTTAGG
1 GGTTTA-G
*
40916364 GGATTAG
1 GGTTTAG
*
40916371 GGATTAG
1 GGTTTAG
* *
40916378 GGATTAT
1 GGTTTAG
*
40916385 GATTTAG
1 GGTTTAG
* *
40916392 AGTTTAT
1 GGTTTAG
40916399 GGTTTAG
1 GGTTTAG
*
40916406 GGTTTTAA
1 GG-TTTAG
* *
40916414 AGTTTAA
1 GGTTTAG
** *
40916421 ATTTTAT
1 GGTTTAG
40916428 GGTTTATG
1 GGTTTA-G
*
40916436 GGTTTTAA
1 GG-TTTAG
40916444 GG-TTACG
1 GGTTTA-G
*
40916451 AGTGTTTAT
1 -G-GTTTAG
40916460 GGTATT-G
1 GGT-TTAG
*
40916467 AGTTTAG
1 GGTTTAG
40916474 GGTTTAG
1 GGTTTAG
*
40916481 GGTTTAA
1 GGTTTAG
40916488 GGTTTAG
1 GGTTTAG
40916495 G
1 G
40916496 ATTTCTTTTT
Statistics
Matches: 112, Mismatches: 25, Indels: 21
0.71 0.16 0.13
Matches are distributed among these distances:
6 5 0.04
7 74 0.66
8 25 0.22
9 5 0.04
10 3 0.03
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:40916410 original size:14 final size:14
Alignment explanation
Indices: 40916341--40916495 Score: 71
Period size: 14 Copynumber: 10.6 Consensus size: 14
40916331 ATACTGTAAA
*
40916341 GGTTTATGGGTTTAG
1 GGTTTA-GGGTTTAT
* *
40916356 GGTTTAGGGGATTAG
1 GGTTTA-GGGTTTAT
* *
40916371 GGATTAGGGATTAT
1 GGTTTAGGGTTTAT
* *
40916385 GATTTAGAGTTTAT
1 GGTTTAGGGTTTAT
*
40916399 GGTTTAGGGTTTTAA
1 GGTTTAGGG-TTTAT
* ***
40916414 AGTTTAAATTTTAT
1 GGTTTAGGGTTTAT
*
40916428 GGTTTATGGGTTTTAA
1 GGTTTA-GGG-TTTAT
40916444 GG-TTACGAGTGTTTAT
1 GGTTTA-G-G-GTTTAT
* *
40916460 GGTATT-GAGTTTAG
1 GGT-TTAGGGTTTAT
*
40916474 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAT
40916488 GGTTTAGG
1 GGTTTAGG
40916496 ATTTCTTTTT
Statistics
Matches: 105, Mismatches: 27, Indels: 17
0.70 0.18 0.11
Matches are distributed among these distances:
13 2 0.02
14 55 0.52
15 31 0.30
16 14 0.13
17 1 0.01
18 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGTTTAT
Found at i:40916419 original size:29 final size:30
Alignment explanation
Indices: 40916387--40916443 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
40916377 GGGATTATGA
*
40916387 TTTAGAGTTTATGGTTTA-GGGTTTTAAAG
1 TTTAAAGTTTATGGTTTATGGGTTTTAAAG
*
40916416 TTTAAATTTTATGGTTTATGGGTTTTAA
1 TTTAAAGTTTATGGTTTATGGGTTTTAA
40916444 GGTTACGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (30 bp):
TTTAAAGTTTATGGTTTATGGGTTTTAAAG
Found at i:40916756 original size:38 final size:38
Alignment explanation
Indices: 40916703--40916777 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 38
40916693 TTATATTCAG
*
40916703 TTTTAAAATTGAACAATT-AAATACTGTCATATTAAAA
1 TTTTAAAATTGAACAATTAAAATAATGTCATATTAAAA
*
40916740 TTTTAAAAATTTAACAATTAAAAATAATGTCATATTAA
1 TTTT-AAAATTGAACAATT-AAAATAATGTCATATTAA
40916778 TGTATCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 4 0.12
38 13 0.39
40 16 0.48
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.39
Consensus pattern (38 bp):
TTTTAAAATTGAACAATTAAAATAATGTCATATTAAAA
Found at i:40917252 original size:19 final size:20
Alignment explanation
Indices: 40917228--40917267 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
40917218 CGCACCCAGC
40917228 CCCTAATT-CCCTTCCAAAT
1 CCCTAATTCCCCTTCCAAAT
*
40917247 CCCTAATTCCCCTTCGAAAT
1 CCCTAATTCCCCTTCCAAAT
40917267 C
1 C
40917268 TCTTCCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.25, C:0.42, G:0.03, T:0.30
Consensus pattern (20 bp):
CCCTAATTCCCCTTCCAAAT
Found at i:40917934 original size:21 final size:20
Alignment explanation
Indices: 40917908--40917981 Score: 93
Period size: 21 Copynumber: 3.8 Consensus size: 20
40917898 TTCATTATTA
40917908 TATCTAAGTAAAATTCAATTT
1 TATCTAA-TAAAATTCAATTT
40917929 TATCTAAGTAAAATTCAATTT
1 TATCTAA-TAAAATTCAATTT
40917950 TATCT--T--AATTCAATTT
1 TATCTAATAAAATTCAATTT
40917966 TATCTTAATAAAATTC
1 TATC-TAATAAAATTC
40917982 TTTAATTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
16 14 0.29
17 1 0.02
18 1 0.02
19 1 0.02
21 31 0.65
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (20 bp):
TATCTAATAAAATTCAATTT
Found at i:40917959 original size:16 final size:16
Alignment explanation
Indices: 40917940--40917974 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
40917930 ATCTAAGTAA
40917940 AATTCAATTTTATCTT
1 AATTCAATTTTATCTT
40917956 AATTCAATTTTATCTT
1 AATTCAATTTTATCTT
40917972 AAT
1 AAT
40917975 AAAATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTCAATTTTATCTT
Found at i:40917980 original size:16 final size:16
Alignment explanation
Indices: 40917945--40917980 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
40917935 AGTAAAATTC
**
40917945 AATTTTATCTTAATTC
1 AATTTTATCTTAATAA
40917961 AATTTTATCTTAATAA
1 AATTTTATCTTAATAA
40917977 AATT
1 AATT
40917981 CTTTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTTATCTTAATAA
Found at i:40918441 original size:28 final size:28
Alignment explanation
Indices: 40918403--40918456 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
40918393 AATTTCGGTA
*
40918403 TATTTGTAGTTGGGATTGTTTTATTTGG
1 TATTTGTAGTTGGGACTGTTTTATTTGG
40918431 TATTTGTAGTTGGGACTGTTTTATTT
1 TATTTGTAGTTGGGACTGTTTTATTT
40918457 AGGTTGTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.15, C:0.02, G:0.26, T:0.57
Consensus pattern (28 bp):
TATTTGTAGTTGGGACTGTTTTATTTGG
Found at i:40918506 original size:35 final size:35
Alignment explanation
Indices: 40918459--40918532 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
40918449 TTTTATTTAG
40918459 GTTGTCTAAATTAATTTCTGCAAGTTCTACTAAGT
1 GTTGTCTAAATTAATTTCTGCAAGTTCTACTAAGT
*
40918494 GTTGTCTGAATTAATTTCTGCAAGTTCTACTAAGT
1 GTTGTCTAAATTAATTTCTGCAAGTTCTACTAAGT
40918529 GTTG
1 GTTG
40918533 CCTTAGATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.43
Consensus pattern (35 bp):
GTTGTCTAAATTAATTTCTGCAAGTTCTACTAAGT
Found at i:40919678 original size:9 final size:9
Alignment explanation
Indices: 40919664--40919988 Score: 196
Period size: 9 Copynumber: 34.8 Consensus size: 9
40919654 ATATATATCA
*
40919664 TACATAATT
1 TACATAACT
40919673 TACATAACT
1 TACATAACT
40919682 TACATAACT
1 TACATAACT
*
40919691 TA-TTAACT
1 TACATAACT
*
40919699 TACATATATCA
1 TACATA-A-CT
40919710 TACCATAACT
1 TA-CATAACT
*
40919720 TAAATAACT
1 TACATAACT
* * *
40919729 CATAGAACT
1 TACATAACT
*
40919738 TACTTAACT
1 TACATAACT
40919747 TA-ATAACT
1 TACATAACT
* *
40919755 TATATATATCA
1 TACATA-A-CT
*
40919766 TACCACAACT
1 TA-CATAACT
*
40919776 TAAATAACT
1 TACATAACT
*
40919785 CACATAACT
1 TACATAACT
*
40919794 TACTTAACT
1 TACATAACT
40919803 TA-ATAACT
1 TACATAACT
* *
40919811 TATATATATCA
1 TACATA-A-CT
40919822 TACAATAACT
1 TAC-ATAACT
*
40919832 TAAATAACT
1 TACATAACT
*
40919841 CACATAACT
1 TACATAACT
40919850 TACATAACT
1 TACATAACT
40919859 TA-ATAACT
1 TACATAACT
* *
40919867 TATATATATCA
1 TACATA-A-CT
40919878 TACCATAACT
1 TA-CATAACT
40919888 TA-ATAACT
1 TACATAACT
*
40919896 T-CTATATATCA
1 TAC-ATA-A-CT
40919907 TATCATAACT
1 TA-CATAACT
40919917 TACATAACT
1 TACATAACT
*
40919926 CACATAACT
1 TACATAACT
40919935 TACATAACT
1 TACATAACT
40919944 TA-ATAACT
1 TACATAACT
* * *
40919952 TATGTATATCA
1 TA--CATAACT
40919963 TATCATAACT
1 TA-CATAACT
40919973 TACATAACT
1 TACATAACT
*
40919982 TGCATAA
1 TACATAA
40919989 TACATAAATA
Statistics
Matches: 245, Mismatches: 46, Indels: 50
0.72 0.13 0.15
Matches are distributed among these distances:
8 44 0.18
9 134 0.55
10 26 0.11
11 25 0.10
12 15 0.06
13 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:40919746 original size:56 final size:56
Alignment explanation
Indices: 40919674--40919895 Score: 365
Period size: 56 Copynumber: 4.0 Consensus size: 56
40919664 TACATAATTT
* *
40919674 ACATAACTTACATAACTTATTAACTTACATATATCATACCATAACTTAAATAACTC
1 ACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTC
* * * *
40919730 ATAGAACTTACTTAACTTAATAACTTATATATATCATACCACAACTTAAATAACTC
1 ACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTC
* *
40919786 ACATAACTTACTTAACTTAATAACTTATATATATCATACAATAACTTAAATAACTC
1 ACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTC
40919842 ACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTT-AATAACT
1 ACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACT
40919896 TCTATATATC
Statistics
Matches: 154, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
55 7 0.05
56 147 0.95
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (56 bp):
ACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTC
Found at i:40919803 original size:112 final size:111
Alignment explanation
Indices: 40919674--40919951 Score: 366
Period size: 112 Copynumber: 2.5 Consensus size: 111
40919664 TACATAATTT
* * *
40919674 ACATAACTTACATAACTTATTAACTTACATATATCATACCATAACTTAAATAACTCATAGAACTT
1 ACATAACTTACATAACTTAATAACTTACATATATCATACAATAACTTAAATAACTCACAGAACTT
*
40919739 ACTTAACTTAATAACTTATATATATCATACCACAACTTAAATAACTC
66 ACATAACTTAATAACTTATATATATCATACCACAACTT-AATAACTC
* * *
40919786 ACATAACTTACTTAACTTAATAACTTATATATATCATACAATAACTTAAATAACTCACATAACTT
1 ACATAACTTACATAACTTAATAACTTACATATATCATACAATAACTTAAATAACTCACAGAACTT
*
40919851 ACATAACTTAATAACTTATATATATCATACCATAACTTAATAACTTC
66 ACATAACTTAATAACTTATATATATCATACCACAACTTAATAAC-TC
* * * * *
40919898 TATATATCATATCATAACTTACATAACTCACATA-A-CTTAC-ATAACTT-AATAACT
1 -ACATAACTTA-CATAACTTA-ATAACTTACATATATCATACAATAACTTAAATAACT
40919952 TATGTATATC
Statistics
Matches: 147, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
111 13 0.09
112 104 0.71
113 11 0.07
114 9 0.06
115 10 0.07
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (111 bp):
ACATAACTTACATAACTTAATAACTTACATATATCATACAATAACTTAAATAACTCACAGAACTT
ACATAACTTAATAACTTATATATATCATACCACAACTTAATAACTC
Found at i:40919988 original size:56 final size:54
Alignment explanation
Indices: 40919881--40919995 Score: 176
Period size: 56 Copynumber: 2.1 Consensus size: 54
40919871 TATATCATAC
*
40919881 CATAACTTAATAACTTCTATATATCATATCATAACTTACATAACTCACATAACTTA
1 CATAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAA--TA
* **
40919937 CATAACTTAATAACTTATGTATATCATATCATAACTTACATAACTTGCATAATA
1 CATAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAATA
40919991 CATAA
1 CATAA
40919996 ATATATAACA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 7 0.13
56 48 0.87
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (54 bp):
CATAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAATA
Found at i:40920007 original size:85 final size:85
Alignment explanation
Indices: 40919798--40919982 Score: 291
Period size: 85 Copynumber: 2.2 Consensus size: 85
40919788 ATAACTTACT
* *
40919798 TAACTTAATAACTTATATATATCATACAATAACTTAA-ATAACTCACATAACTTACATAACTTAA
1 TAACTTAATAACTTCTATATATCATATAATAAC-TAACATAACTCACATAACTTACATAACTTAA
40919862 TAACTTATATATATCATACCA
65 TAACTTATATATATCATACCA
* *
40919883 TAACTTAATAACTTCTATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTAAT
1 TAACTTAATAACTTCTATATATCATATAATAACTAACATAACTCACATAACTTACATAACTTAAT
* *
40919948 AACTTATGTATATCATATCA
66 AACTTATATATATCATACCA
40919968 TAACTTACATAACTT
1 TAACTTA-ATAACTT
40919983 GCATAATACA
Statistics
Matches: 92, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
84 2 0.02
85 83 0.90
86 7 0.08
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (85 bp):
TAACTTAATAACTTCTATATATCATATAATAACTAACATAACTCACATAACTTACATAACTTAAT
AACTTATATATATCATACCA
Found at i:40925527 original size:21 final size:21
Alignment explanation
Indices: 40925503--40925559 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
40925493 CTACAACTTA
40925503 AAGCAGAGGCAGCAGCAAGGG
1 AAGCAGAGGCAGCAGCAAGGG
*
40925524 AAGCAGAGGTAGCAGCAAGGG
1 AAGCAGAGGCAGCAGCAAGGG
*
40925545 AAGTAGA-GCAG-AGCA
1 AAGCAGAGGCAGCAGCA
40925560 GAAAGTACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 26 0.79
ACGTcount: A:0.40, C:0.16, G:0.40, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCAAGGG
Found at i:40929385 original size:35 final size:35
Alignment explanation
Indices: 40929339--40929405 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
40929329 TTTGCCTACT
*
40929339 CCTCTACTTTTAGGCTAAAAATACTTTTAGAATTA
1 CCTCTACTTTTAAGCTAAAAATACTTTTAGAATTA
40929374 CCTCTACTTTTAAGCTAAAAATACTTTTAGAA
1 CCTCTACTTTTAAGCTAAAAATACTTTTAGAA
40929406 CCATAAGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (35 bp):
CCTCTACTTTTAAGCTAAAAATACTTTTAGAATTA
Found at i:40937930 original size:40 final size:40
Alignment explanation
Indices: 40937869--40938049 Score: 308
Period size: 40 Copynumber: 4.5 Consensus size: 40
40937859 TGAATCAGAA
40937869 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
* *
40937909 TACCGGCATTAAGCCTACTAGACATTAAGTCTGTAAAGTT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
*
40937949 CACCGGCACTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
* * *
40937989 CACCGGCATTAAGCCTGCTAAACATTAAGTCTATAAAGGT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
40938029 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
40938050 GCACAGGACC
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
Found at i:40940479 original size:143 final size:142
Alignment explanation
Indices: 40940253--40940733 Score: 592
Period size: 143 Copynumber: 3.4 Consensus size: 142
40940243 ATTTTAATTC
* * *** * * * * *
40940253 GCTCCACTGCAACTTCAGGGAGAT-AGGATTGGTTTTTTCTATTTGCTGCACTGTAACTTCAAGA
1 GCTCCTCTGCAACTTCAGGGAGATAAGG-CTGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGA
* *
40940317 AGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTGCAATCTTCAAGGAAATAAGATT
65 AGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAATC--CAGGGAAATAAGATT
*
40940382 CG-TTTCTTCAGTCT
128 CGCTATCTTCAGTCT
* * *
40940396 GCTCCTCTGTAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTTCACTGCAACTTTAGGAA
1 GCTCCTCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAA
* *
40940461 GATAAGCTCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
66 GATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAA-TCCAGGGAAATAAGATTCG
*
40940526 CTGA-CTTTAGTCT
130 CT-ATCTTCAGTCT
* * * *
40940539 GCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAACTGCTCCACTACAACTTCAGGAA
1 GCTCCTCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAA
* * * *
40940604 GATAAGATTCACCATAACTTGTAGCTTTAATCTATTCCACTGCAATGCCAGGGAAATAAGATTCG
66 GATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAAT-CCAGGGAAATAAGATTCG
40940669 CTATCTTCAGTCT
130 CTATCTTCAGTCT
* * * *
40940682 GCT-CTGCTGCAATTTTAGGGAGATAAGGCTAGAGGCTTCAATCTGCTTCACT
1 GCTCCT-CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACT
40940734 ACTGTTTAGG
Statistics
Matches: 291, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
142 18 0.06
143 269 0.92
144 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (142 bp):
GCTCCTCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAA
GATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAATCCAGGGAAATAAGATTCGC
TATCTTCAGTCT
Found at i:40941064 original size:89 final size:90
Alignment explanation
Indices: 40940906--40941250 Score: 412
Period size: 89 Copynumber: 3.9 Consensus size: 90
40940896 ACCTACTCCA
* * * * *
40940906 CTGCAAACTCAGAGAGG-CAAGGCTGGTGTTTTCGATATGCTTCACTACCAGTACAGGAAGA-AA
1 CTGCAAACTCAGGGAGGTCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAA
* * *
40940969 AGATTTGTTGTTTTCAGTCTGCTTTG
66 A-ATTTGTTATCTTCAGTCTGCTTCG
* * * * *
40940995 TTGCAAACTCAGGGAGG-CAAGGTTGGTGTCTTCAATCCGCTTCGCTGCCAATACAGGAAGACAA
1 CTGCAAACTCAGGGAGGTCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAA
*
40941059 AATTTGTTATCTTCTGTCTGCTTCG
66 AATTTGTTATCTTCAGTCTGCTTCG
* *
40941084 CTGCAAACTCAGGGAGGTC-AGGCTGGTATCTTCGATCTGCTTCGCTTCCAGTACAGGAAGACAA
1 CTGCAAACTCAGGGAGGTCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAA
* ** *
40941148 GATCGGTTATCTTCAGTCTGCTCCG
66 AATTTGTTATCTTCAGTCTGCTTCG
* * *
40941173 CTGCAAACTCAGGGAGGTCAA-GCTGGTGTATTCGATCTACTTCGCTGCCAGTATAGGAAGACAA
1 CTGCAAACTCAGGGAGGTCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAA
* * *
40941237 GATCTGCTATCTTC
66 AATTTGTTATCTTC
40941251 TTCAATCCAT
Statistics
Matches: 220, Mismatches: 33, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
89 215 0.98
90 5 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (90 bp):
CTGCAAACTCAGGGAGGTCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAA
AATTTGTTATCTTCAGTCTGCTTCG
Found at i:40941123 original size:44 final size:44
Alignment explanation
Indices: 40941066--40941220 Score: 138
Period size: 44 Copynumber: 3.5 Consensus size: 44
40941056 CAAAATTTGT
*
40941066 TATCTTCTG-TCTGCTTCGCTGCAAACTCAGGGAGGTCAGGCTGG
1 TATCTTC-GATCTGCTTCGCTGCAAACTCAGGGAGGTCAAGCTGG
* * * * * *
40941110 TATCTTCGATCTGCTTCGCTTC-CAGTACA-GGAAGACAAGATCGG
1 TATCTTCGATCTGCTTCGCTGCAAACT-CAGGGAGGTCAAGCT-GG
*
40941154 TTATCTTC-AGTCTGCTCCGCTGCAAACTCAGGGAGGTCAAGCTGG
1 -TATCTTCGA-TCTGCTTCGCTGCAAACTCAGGGAGGTCAAGCTGG
* * *
40941199 TGTATTCGATCTACTTCGCTGC
1 TATCTTCGATCTGCTTCGCTGC
40941221 CAGTATAGGA
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
43 11 0.13
44 40 0.47
45 23 0.27
46 11 0.13
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (44 bp):
TATCTTCGATCTGCTTCGCTGCAAACTCAGGGAGGTCAAGCTGG
Found at i:40941168 original size:45 final size:44
Alignment explanation
Indices: 40941023--40941176 Score: 125
Period size: 45 Copynumber: 3.5 Consensus size: 44
40941013 AAGGTTGGTG
* * * *
40941023 TCTTCAATCCGCTTCGCTGCCAATACAGGAAGACAAAATTTGTTA
1 TCTTCAGTCTGCTTCGCTGCCAATACAGGAAGACAAGA-TGGTTA
* * * * * *
40941068 TCTTCTGTCTGCTTCGCTGCAAACT-CAGGGAGGTCAGGCTGG-TA
1 TCTTCAGTCTGCTTCGCTGCCAA-TACA-GGAAGACAAGATGGTTA
* *
40941112 TCTTC-GATCTGCTTCGCTTCCAGTACAGGAAGACAAGATCGGTTA
1 TCTTCAG-TCTGCTTCGCTGCCAATACAGGAAGACAAGAT-GGTTA
*
40941157 TCTTCAGTCTGCTCCGCTGC
1 TCTTCAGTCTGCTTCGCTGC
40941177 AAACTCAGGG
Statistics
Matches: 83, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
43 10 0.12
44 24 0.29
45 41 0.49
46 8 0.10
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTTCAGTCTGCTTCGCTGCCAATACAGGAAGACAAGATGGTTA
Found at i:40953952 original size:3 final size:3
Alignment explanation
Indices: 40953946--40954002 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
40953936 TTGGTTGTTG
40953946 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
40953994 TTA TTA TTA
1 TTA TTA TTA
40954003 ANNNNNNNNN
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:40960736 original size:16 final size:15
Alignment explanation
Indices: 40960711--40960741 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
40960701 CATTCTTAAG
40960711 AAAAAAAAGGAAAAA
1 AAAAAAAAGGAAAAA
40960726 AAAAAAGAAGGAAAAA
1 AAAAAA-AAGGAAAAA
40960742 CAAGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGGAAAAA
Found at i:40965473 original size:26 final size:26
Alignment explanation
Indices: 40965457--40965524 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
40965447 AAAGAAAGCT
40965457 AAGGAAAAATGAAAAGAAGAGAAGAA
1 AAGGAAAAATGAAAAGAAGAGAAGAA
40965483 AAGGAAAAATGAAAAGAAGAGAAGAA
1 AAGGAAAAATGAAAAGAAGAGAAGAA
40965509 AAGGAAAAAT-AAAAGA
1 AAGGAAAAATGAAAAGA
40965525 TATTTTATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 6 0.14
26 36 0.86
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (26 bp):
AAGGAAAAATGAAAAGAAGAGAAGAA
Found at i:40965502 original size:21 final size:19
Alignment explanation
Indices: 40965468--40965516 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
40965458 AGGAAAAATG
*
40965468 AAAAGAAGAGAAGAAAAGGA
1 AAAAGAAAAGAAGAAAA-GA
*
40965488 AAAATGAAAAGAAGAGAAGA
1 AAAA-GAAAAGAAGAAAAGA
*
40965508 AAAGGAAAA
1 AAAAGAAAA
40965517 ATAAAAGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 9 0.36
21 11 0.44
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (19 bp):
AAAAGAAAAGAAGAAAAGA
Found at i:40966657 original size:15 final size:15
Alignment explanation
Indices: 40966638--40966683 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
40966628 AGGAAAAATA
40966638 AATAATAATAATAAC
1 AATAATAATAATAAC
*
40966653 GATAATAATAATAAC
1 AATAATAATAATAAC
*
40966668 AATAAT-ACAATAAC
1 AATAATAATAATAAC
40966682 AA
1 AA
40966684 CAAATGAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 9 0.32
15 19 0.68
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.24
Consensus pattern (15 bp):
AATAATAATAATAAC
Found at i:40968527 original size:51 final size:49
Alignment explanation
Indices: 40968467--40968717 Score: 136
Period size: 51 Copynumber: 5.2 Consensus size: 49
40968457 CTTTAAGGAG
40968467 ATAAGATTTGCAACTTGTAGCTTTAATCTGTCCCACTGCAACATCAGGGAA
1 ATAAGATTTG-AACTTGTAGCTTTAATCTGTCCCACTGCAAC-TCAGGGAA
* *
40968518 ATAAGA--T----TTGTAG-TTTCAATCTG-CTCTACTGCAACTCCAGGGAG
1 ATAAGATTTGAACTTGTAGCTTT-AATCTGTC-CCACTGCAACT-CAGGGAA
* * * * *
40968562 ATAAGATTTGTAACTTGTAGATTTAATTTGTTCCATTGCAACTTTAGGGAA
1 ATAAGATTTG-AACTTGTAGCTTTAATCTGTCCCACTGCAAC-TCAGGGAA
* * * * *
40968613 AT---A--TG-ATTTGTAGCTTAAATCTG-CTCCACTGTAATTTCAGGGAG
1 ATAAGATTTGAACTTGTAGCTTTAATCTGTC-CCACTGCAA-CTCAGGGAA
* * ** * *
40968657 ATAATATTTGTAACTTGTAGCTTTAATTTGTTTCACTGAAACTCTAGGAAA
1 ATAAGATTTG-AACTTGTAGCTTTAATCTGTCCCACTGCAACTC-AGGGAA
40968708 ATAAGATTTG
1 ATAAGATTTG
40968718 TAGCTATTTT
Statistics
Matches: 148, Mismatches: 28, Indels: 48
0.66 0.12 0.21
Matches are distributed among these distances:
43 5 0.03
44 62 0.42
46 3 0.02
47 1 0.01
48 1 0.01
49 3 0.02
50 2 0.01
51 67 0.45
52 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (49 bp):
ATAAGATTTGAACTTGTAGCTTTAATCTGTCCCACTGCAACTCAGGGAA
Found at i:40968602 original size:95 final size:94
Alignment explanation
Indices: 40968463--40968767 Score: 376
Period size: 95 Copynumber: 3.2 Consensus size: 94
40968453 GTAACTTTAA
* * *
40968463 GGAGATAAGATTTGCAACTTGTAGCTTTAATCTGTCCCACTGCAACATCAGGGAAATAAGATTTG
1 GGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTGCAAC-TCAGGGAAATAAGATTTG
* *
40968528 TAGTTTCAATCTGCTCTACTGCAACTCCAG
65 TAGTTTCAATCTGCTCCACTGCAACTTCAG
* * * *
40968558 GGAGATAAGATTTGTAACTTGTAGATTTAATTTGTTCCATTGCAACTTTAGGGAAATATGATTTG
1 GGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTGCAAC-TCAGGGAAATAAGATTTG
* * * *
40968623 TAGCTTAAATCTGCTCCACTGTAATTTCAG
65 TAGTTTCAATCTGCTCCACTGCAACTTCAG
* * * *
40968653 GGAGATAATATTTGTAACTTGTAGCTTTAATTTGTTTCACTGAAACTCTAGGAAAATAAGATTTG
1 GGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTGCAACTC-AGGGAAATAAGATTTG
*
40968718 TAGCTATTTTTCAATCTGCTCCACTTCAACTTCAG
65 TAG-----TTTCAATCTGCTCCACTGCAACTTCAG
40968753 GGAGATAAGATTTGT
1 GGAGATAAGATTTGT
40968768 GCCTTTAATC
Statistics
Matches: 176, Mismatches: 28, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
94 1 0.01
95 139 0.79
100 36 0.20
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (94 bp):
GGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTGCAACTCAGGGAAATAAGATTTGT
AGTTTCAATCTGCTCCACTGCAACTTCAG
Found at i:40968666 original size:44 final size:44
Alignment explanation
Indices: 40968481--40968984 Score: 272
Period size: 44 Copynumber: 11.0 Consensus size: 44
40968471 GATTTGCAAC
* * *
40968481 TTGTAGCTTTAATCTG-TCCCACTGCAACATCAGGGAAATAAGAT
1 TTGTAGCTTTAATCTGCT-CCACTGTAACTTCAGGGAGATAAGAT
* * *
40968525 TTGTAG-TTTCAATCTGCTCTACTGCAACTCCAGGGAGATAAGATTTGT
1 TTGTAGCTTT-AATCTGCTCCACTGTAACTTCAGGGAGATAAGA----T
* * * * * * * *
40968573 AACTTGTAGATTTAATTTGTTCCATTGCAACTTTAGGGAAATATGAT
1 ---TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
* * *
40968620 TTGTAGCTTAAATCTGCTCCACTGTAATTTCAGGGAGATAATATTTGTAAC
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGAT-A-A---G--AT
* * * * * *
40968671 TTGTAGCTTTAATTTGTTTCACTGAAAC-TCTAGGAAAATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTC-AGGGAGATAAGAT
40968715 TTGTAGCTATTTTTCAATCTGCTCCACT-TCAACTTCAGGGAGATAAGAT
1 TTGTAGC----TTT-AATCTGCTCCACTGT-AACTTCAGGGAGATAAGAT
* * *
40968764 TTGT-GCCTTTAATCTTCTCCATTGCAACTT-AGGGAGATAAGAT
1 TTGTAG-CTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
* * *
40968807 TTGT-GTCTTTAATCTGCTCCACTATGAA-TTTAGGGAGATAATAT
1 TTGTAG-CTTTAATCTGCTCCACTGT-AACTTCAGGGAGATAAGAT
* * * * *
40968851 TTGAAG-TTTCAATTTGCTTCA-TTTCAACTTCAGGGAGATAAGGT
1 TTGTAGCTTT-AATCTGCTCCACTGT-AACTTCAGGGAGATAAGAT
* * * * * *
40968895 TTGTAACTTTAATCTGCTCCACTGCAAATTCAAGGAGAGAAGAA
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
* * * * * *
40968939 TTATGGCTTCAACCTACTCCACTGTAACTTTAGGGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
40968983 TT
1 TT
40968985 TCCATGATGA
Statistics
Matches: 348, Mismatches: 78, Indels: 68
0.70 0.16 0.14
Matches are distributed among these distances:
43 45 0.13
44 187 0.54
45 10 0.03
46 1 0.00
47 1 0.00
48 5 0.01
49 31 0.09
50 5 0.01
51 60 0.17
52 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (44 bp):
TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
Found at i:40978797 original size:3 final size:3
Alignment explanation
Indices: 40978774--40978829 Score: 87
Period size: 3 Copynumber: 18.7 Consensus size: 3
40978764 TAAATATATA
*
40978774 AAT AGT AAT AAAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
40978819 AAT AAT AAT AA
1 AAT AAT AAT AA
40978830 AGGCGTAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:40978947 original size:23 final size:24
Alignment explanation
Indices: 40978918--40978963 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
40978908 ATAAATAAAA
*
40978918 TAAATAAA-GGACTTAATTGTAAC
1 TAAATAAATGGACTAAATTGTAAC
*
40978941 TAAATAAATGGGCTAAATTGTAA
1 TAAATAAATGGACTAAATTGTAA
40978964 AAATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (24 bp):
TAAATAAATGGACTAAATTGTAAC
Found at i:40981225 original size:19 final size:19
Alignment explanation
Indices: 40981201--40981243 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
40981191 TGAAAGGAAG
*
40981201 AAAAGTTTTGGGAGAAAGT
1 AAAAGTTTTGGGAGAAAGC
40981220 AAAAGTTTTGGGAGAAAGC
1 AAAAGTTTTGGGAGAAAGC
40981239 AAAAG
1 AAAAG
40981244 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.30, T:0.21
Consensus pattern (19 bp):
AAAAGTTTTGGGAGAAAGC
Found at i:40996447 original size:13 final size:12
Alignment explanation
Indices: 40996431--40996473 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
40996421 ATAAAAAGTA
40996431 AAAAAAAAATTGT
1 AAAAAAAAATT-T
40996444 AAAAAAAAATTT
1 AAAAAAAAATTT
40996456 AAAATTAAAAA-TT
1 AAAA--AAAAATTT
40996469 AAAAA
1 AAAAA
40996474 CTTGAAGGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.04
12 5 0.18
13 17 0.61
14 5 0.18
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (12 bp):
AAAAAAAAATTT
Found at i:40997059 original size:95 final size:94
Alignment explanation
Indices: 40996885--40997074 Score: 249
Period size: 95 Copynumber: 2.0 Consensus size: 94
40996875 TCGACTAGCT
* * *
40996885 TTGTTGAAAAACACAAATGGGATGAAATTTTGTGGTTTATGATTCATGGATGGGGCCCAAAAATA
1 TTGTTGAAAAACACAAATGGGATCAAATTTTGTGGTTTATGATTCATGAATGGGACCCAAAAATA
*
40996950 TCGGATACATTAAGCACTAAGCAGCTATA
66 TCGGATACAGTAAGCACTAAGCAGCTATA
** *
40996979 TTGTTGAAAAACACAAATGGGATCAAACTTTTGTGGTTTATGATTGGTGAATGGGACTCAAAAGT
1 TTGTTGAAAAACACAAATGGGATCAAA-TTTTGTGGTTTATGATTCATGAATGGGACCCAAAA--
* * *
40997044 ATAT-TG-TGCAGTAAGCACTAAGCAGTTATA
63 ATATCGGATACAGTAAGCACTAAGCAGCTATA
40997074 T
1 T
40997075 ATGTAGCCCT
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
94 26 0.31
95 52 0.63
96 1 0.01
97 4 0.05
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (94 bp):
TTGTTGAAAAACACAAATGGGATCAAATTTTGTGGTTTATGATTCATGAATGGGACCCAAAAATA
TCGGATACAGTAAGCACTAAGCAGCTATA
Found at i:40997617 original size:13 final size:13
Alignment explanation
Indices: 40997599--40997624 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40997589 TTTTACACGC
40997599 ATTAAAATATAAT
1 ATTAAAATATAAT
40997612 ATTAAAATATAAT
1 ATTAAAATATAAT
40997625 GATTTTGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTAAAATATAAT
Found at i:41001367 original size:26 final size:26
Alignment explanation
Indices: 41001338--41001387 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
41001328 AACACAATTT
* *
41001338 TAAAGTAATA-GCACAACAATTTAAGG
1 TAAA-TAATATGCAAAACAAATTAAGG
41001364 TAAATAATATGCAAAACAAATTAA
1 TAAATAATATGCAAAACAAATTAA
41001388 AATGAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24
Consensus pattern (26 bp):
TAAATAATATGCAAAACAAATTAAGG
Found at i:41002088 original size:18 final size:18
Alignment explanation
Indices: 41002065--41002100 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
41002055 GTTAGAAGAA
41002065 CAAATCAAACTTATTTGG
1 CAAATCAAACTTATTTGG
41002083 CAAATCAAACTTATTTGG
1 CAAATCAAACTTATTTGG
41002101 AACCTCGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
CAAATCAAACTTATTTGG
Found at i:41002502 original size:15 final size:15
Alignment explanation
Indices: 41002482--41002520 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
41002472 TATTCTTTAC
* *
41002482 AAAAAAAGTGAAAAG
1 AAAAAAAATAAAAAG
41002497 AAAAAAAATAAAAAG
1 AAAAAAAATAAAAAG
41002512 AAATAAAAA
1 AAA-AAAAA
41002521 AAGGAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (15 bp):
AAAAAAAATAAAAAG
Found at i:41003318 original size:44 final size:45
Alignment explanation
Indices: 41003212--41003321 Score: 116
Period size: 45 Copynumber: 2.5 Consensus size: 45
41003202 TGTAGCTTCG
*
41003212 ATCTACTCCACTGGAACTTCAAGGAGATAAGAAAGGGTAACTTTA
1 ATCTACTCCACTGCAACTTCAAGGAGATAAGAAAGGGTAACTTTA
* * * *** **
41003257 ATCTACTCCATTACAACTTCATGGAGATAAG-GTTGGT-GGTTTCA
1 ATCTACTCCACTGCAACTTCAAGGAGATAAGAAAGGGTAACTTT-A
41003301 ATCTACTCCACTGCAACTTCA
1 ATCTACTCCACTGCAACTTCA
41003322 GGAATATAAG
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
43 3 0.06
44 23 0.43
45 27 0.51
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (45 bp):
ATCTACTCCACTGCAACTTCAAGGAGATAAGAAAGGGTAACTTTA
Found at i:41003657 original size:45 final size:44
Alignment explanation
Indices: 41003604--41003758 Score: 136
Period size: 44 Copynumber: 3.4 Consensus size: 44
41003594 TTCAATCTGT
* * *
41003604 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTCAC
1 TCCACTGCAACTTCA-GGAAATAAGATTCGCTAACTTCAATCCAC
* *
41003649 TCCACTGCAACTTCAGGAAGATAACACTT-G-TAACTTCAATCCGC
1 TCCACTGCAACTTCAGGAA-ATAAGA-TTCGCTAACTTCAATCCAC
*
41003693 TCCACTGCAACTTCAAGGAGATAAGATTCGCCATAACGACTTCAATCCA-
1 TCCACTGCAACTTC-AGGAAATAAGATTCG-C-T-A--ACTTCAATCCAC
*
41003742 TCCCACTACAACTTCAG
1 T-CCACTGCAACTTCAG
41003759 CGGTATAGGA
Statistics
Matches: 90, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
43 2 0.02
44 34 0.38
45 25 0.28
46 2 0.02
47 1 0.01
48 1 0.01
49 3 0.03
50 22 0.24
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.25
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGAAATAAGATTCGCTAACTTCAATCCAC
Found at i:41014131 original size:26 final size:26
Alignment explanation
Indices: 41014100--41014158 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
41014090 CAATTTAAGG
*
41014100 TAAATAATATGCAAAACAAATTAAAA
1 TAAATAATATACAAAACAAATTAAAA
* * * *
41014126 TGAATAATATACACAGCAATTTAAAA
1 TAAATAATATACAAAACAAATTAAAA
41014152 TAAATAA
1 TAAATAA
41014159 CCTCCATGAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.25
Consensus pattern (26 bp):
TAAATAATATACAAAACAAATTAAAA
Found at i:41015654 original size:17 final size:17
Alignment explanation
Indices: 41015632--41015672 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
41015622 CTGTTAGGTT
41015632 TTGGGCTAGGGTTTGTA
1 TTGGGCTAGGGTTTGTA
*
41015649 TTGGGCTTGGGTTTGTA
1 TTGGGCTAGGGTTTGTA
*
41015666 TTAGGCT
1 TTGGGCT
41015673 TATTTATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.10, C:0.07, G:0.39, T:0.44
Consensus pattern (17 bp):
TTGGGCTAGGGTTTGTA
Found at i:41015698 original size:18 final size:19
Alignment explanation
Indices: 41015675--41015718 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
41015665 ATTAGGCTTA
*
41015675 TTTATTTGTAATTGGA-TT
1 TTTATTTGTAAATGGACTT
41015693 TTTA-TTGTAAATGGACTT
1 TTTATTTGTAAATGGACTT
41015711 TGTTATTT
1 T-TTATTT
41015719 TTGGACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.45
18 7 0.32
19 3 0.14
20 2 0.09
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.59
Consensus pattern (19 bp):
TTTATTTGTAAATGGACTT
Found at i:41016203 original size:27 final size:27
Alignment explanation
Indices: 41016173--41016266 Score: 154
Period size: 27 Copynumber: 3.5 Consensus size: 27
41016163 ACCCCCAAAC
41016173 TGTTATAAAATGACTATTATGCCCCTA
1 TGTTATAAAATGACTATTATGCCCCTA
41016200 TGTTATAAAATGA-TGATTATGCCCCTA
1 TGTTATAAAATGACT-ATTATGCCCCTA
* *
41016227 TGTTATAAAATTACTATTATACCCCTA
1 TGTTATAAAATGACTATTATGCCCCTA
41016254 TGTTATAAAATGA
1 TGTTATAAAATGA
41016267 TTGTATGCCT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
26 1 0.02
27 60 0.97
28 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (27 bp):
TGTTATAAAATGACTATTATGCCCCTA
Found at i:41018170 original size:33 final size:33
Alignment explanation
Indices: 41018122--41018185 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
41018112 ATCAAATTGG
*
41018122 TATATCTTTCCATGAGA-GACTCTTTCATAGGGA
1 TATATCTTTCAATGAGATGAC-CTTTCATAGGGA
* *
41018155 TATATCTTTTAATGAGATGTCCTTTCATAGG
1 TATATCTTTCAATGAGATGACCTTTCATAGG
41018186 ATTATTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.41
Consensus pattern (33 bp):
TATATCTTTCAATGAGATGACCTTTCATAGGGA
Found at i:41018635 original size:27 final size:27
Alignment explanation
Indices: 41018599--41018650 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
41018589 AGTCTACAAG
* *
41018599 GGAAATGTATTAATTATGTTTTATTTT
1 GGAAAGGTATTAATTATATTTTATTTT
41018626 GGAAAGGTATTAATTATATTTTATT
1 GGAAAGGTATTAATTATATTTTATT
41018651 AAATAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (27 bp):
GGAAAGGTATTAATTATATTTTATTTT
Found at i:41020440 original size:163 final size:162
Alignment explanation
Indices: 41020168--41020470 Score: 498
Period size: 163 Copynumber: 1.9 Consensus size: 162
41020158 GAACATGGTC
* * *
41020168 CTCGTCGTAATGTTAAATACTGTCCTCATCCTTCATGTTGCTGATGGCCAGAAGCTAAGAAATTA
1 CTCGTCGTAATGGTAAATACTGTCCTCATCCTTAATGTTGCTGATAGCCAGAAGCTAAGAAATTA
* * *
41020233 CGTTACCAGGGCAACCGAAATGAATGGTTATTAGACATGATTACTTGTGATTTTGTATTCTTATG
66 CGTTACCAGGGAAACCCAAATGAATGGTTATTAGACACGATTACTTGTGA-TTTGTATTCTTATG
41020298 GTTTTCATATTCGCAATCATGCAGGTGGTGATT
130 GTTTTCATATTCGCAATCATGCAGGTGGTGATT
* * *
41020331 CTCGTCGTCATGGTAAATACTGTTCTCATCCTTAATGTTGCTGATAGCCAGAAGCTAAGAAATTG
1 CTCGTCGTAATGGTAAATACTGTCCTCATCCTTAATGTTGCTGATAGCCAGAAGCTAAGAAATTA
* *
41020396 CGTTACCAGGGAAACCCAAATGAATGGTTATTAGACACGATTACTTGTGATTTGTATTCTTTTGT
66 CGTTACCAGGGAAACCCAAATGAATGGTTATTAGACACGATTACTTGTGATTTGTATTCTTATGG
41020461 TTTTCATATT
131 TTTTCATATT
41020471 TCTAATCCTA
Statistics
Matches: 129, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
162 23 0.18
163 106 0.82
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (162 bp):
CTCGTCGTAATGGTAAATACTGTCCTCATCCTTAATGTTGCTGATAGCCAGAAGCTAAGAAATTA
CGTTACCAGGGAAACCCAAATGAATGGTTATTAGACACGATTACTTGTGATTTGTATTCTTATGG
TTTTCATATTCGCAATCATGCAGGTGGTGATT
Found at i:41022810 original size:214 final size:215
Alignment explanation
Indices: 41022441--41022870 Score: 826
Period size: 214 Copynumber: 2.0 Consensus size: 215
41022431 ACAAAATCAT
41022441 AAAAAACAATAAAAGACATGTATATATGTATAAAATTATGAAAATGTGAAACAACATACACATGT
1 AAAAAACAATAAAAGACATGTATATATGTATAAAATTATGAAAATGTGAAACAACATACACATGT
41022506 GCACATATTTAAACTATTATGCACGAAAATATATGTGAGTATGTATGTACATATATATATACACG
66 GCACATATTTAAACTATTATGCACGAAAATATATGTGAGTATGTATGTACATATATATATACACG
41022571 TATATAACAATTATCAATTATCAAAAAGTATATATATATATAGGTATATATATATGAACCATCAA
131 TATATAACAATTATCAATTATCAAAAAGTATATATATATATAGGTATATATATATGAACCATCAA
41022636 ATATAGAGAA-ATAAACAAA
196 ATATAGAGAATATAAACAAA
* * *
41022655 AAAAAACAATAAAAGACATGTATATATGTCTAAAATTATGAAAATGTGAAAGAGCATACACATGT
1 AAAAAACAATAAAAGACATGTATATATGTATAAAATTATGAAAATGTGAAACAACATACACATGT
41022720 GCACATATTTAAACTATTATGCACGAAAATATATGTGAGTATGTATGTACATATATATATACACG
66 GCACATATTTAAACTATTATGCACGAAAATATATGTGAGTATGTATGTACATATATATATACACG
41022785 TATATAACAATTATCAATTATCAAAAAGTATATATATATATAGGTATATATATATGAACCATCAA
131 TATATAACAATTATCAATTATCAAAAAGTATATATATATATAGGTATATATATATGAACCATCAA
41022850 ATATAGAGAATATAAACAAA
196 ATATAGAGAATATAAACAAA
41022870 A
1 A
41022871 TATATTTTGA
Statistics
Matches: 212, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
214 202 0.95
215 10 0.05
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.30
Consensus pattern (215 bp):
AAAAAACAATAAAAGACATGTATATATGTATAAAATTATGAAAATGTGAAACAACATACACATGT
GCACATATTTAAACTATTATGCACGAAAATATATGTGAGTATGTATGTACATATATATATACACG
TATATAACAATTATCAATTATCAAAAAGTATATATATATATAGGTATATATATATGAACCATCAA
ATATAGAGAATATAAACAAA
Found at i:41024919 original size:44 final size:44
Alignment explanation
Indices: 41024871--41025020 Score: 144
Period size: 44 Copynumber: 3.4 Consensus size: 44
41024861 GTGGTTTTAG
41024871 TCTGCTCCACTGCAA-TGTTAGGGAAATAAGACTTGTAGCTTCAA
1 TCTGCTCCACTGCAACT-TTAGGGAAATAAGACTTGTAGCTTCAA
* * *
41024915 TCTGCTCCACTGCAACTTTAGGGAGATGAGACTTGTATCTTCAA
1 TCTGCTCCACTGCAACTTTAGGGAAATAAGACTTGTAGCTTCAA
* * * * ** * *
41024959 CCTGCCCCACTACAACTTCAGGGGGATAAGGTCTAT-TA-CTTTAA
1 TCTGCTCCACTGCAACTTTAGGGAAATAA-GACT-TGTAGCTTCAA
*
41025003 TCTGCTCTACTGCAACTT
1 TCTGCTCCACTGCAACTT
41025021 CAGAGAGATA
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
44 81 0.92
45 6 0.07
46 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTTAGGGAAATAAGACTTGTAGCTTCAA
Found at i:41025100 original size:85 final size:84
Alignment explanation
Indices: 41025011--41025380 Score: 291
Period size: 85 Copynumber: 4.3 Consensus size: 84
41025001 AATCTGCTCT
* ** *
41025011 ACTGCAACTTCAGAGAGATAAGGTTTGATATGATCCGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGAGAGATAAGATTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
*
41025076 CGGTAATTTTAATCCGCTTC
66 CTGTAATTTTAATCC-CTTC
* * * * *
41025096 ACTGCAACTTCAGAAAGATAGGATTGATTT-CTTCAATCTGCTCCACTGCAACTTCA-AGGAGAT
1 ACTGCAACTTCAGAGAGATA--A--GATTTGATGCGATCTGCTCTACTGCAACTTCAGA-GAGAT
* * * * *
41025159 AGGA-CTAGTAACTTCT-GTCTACTCC
61 AAGATCT-GTAA-TTTTAATC-CCTTC
** * * * *
41025184 GTTGCAACTTCAG-GAAGATAAGACTAGATGCGATCTACTCTACTGCAACTTTAGAGAGATAAGA
1 ACTGCAACTTCAGAG-AGATAAGATTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
** *
41025248 TCTGTGGTTTTAATCCATTCC
65 TCTGTAATTTTAATCCCTT-C
* * * *
41025269 GCTGCAACTTTAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGAGAGATAAGATTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
** *
41025334 CTGTGGTTTTAATCCATTCC
66 CTGTAATTTTAATCCCTT-C
* * *
41025354 ACTACCACTTCAGGGAGATAAGATTTG
1 ACTGCAACTTCAGAGAGATAAGATTTG
41025381 TAGTCCATCT
Statistics
Matches: 226, Mismatches: 44, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
84 7 0.03
85 151 0.67
86 5 0.02
87 3 0.01
88 53 0.23
89 7 0.03
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (84 bp):
ACTGCAACTTCAGAGAGATAAGATTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
CTGTAATTTTAATCCCTTC
Found at i:41025160 original size:44 final size:44
Alignment explanation
Indices: 41024909--41025162 Score: 161
Period size: 44 Copynumber: 5.8 Consensus size: 44
41024899 AGACTTGTAG
* * *
41024909 CTTCAATCTGCTCCACTGCAACTTTAGGGAGAT-GAGACTTG-TAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAG-GA-TTGATTT
* * * * * *
41024953 CTTCAACCTGCCCCACTACAACTTCAGGGGGATAAGG-TCT-ATTA
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGAT-AGGAT-TGATTT
* * *
41024997 CTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGA--T
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGAT-AGGATTGATTT
* * * * * * *
41025040 -AT-GATCCGCTCTACTGCAACTTCAGAGAGATAAGATCGGTAATT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAGGAT-TG-ATTT
* * *
41025084 -TT-AATCCGCTTCACTGCAACTTCAGAAAGATAGGATTGATTT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGATTT
41025126 CTTCAATCTGCTCCACTGCAACTTCA-AGGAGATAGGA
1 CTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAGGA
41025163 CTAGTAACTT
Statistics
Matches: 165, Mismatches: 32, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
40 3 0.02
41 28 0.17
42 5 0.03
43 5 0.03
44 120 0.73
45 3 0.02
46 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGATTT
Found at i:41025233 original size:41 final size:41
Alignment explanation
Indices: 41025186--41025332 Score: 125
Period size: 41 Copynumber: 3.5 Consensus size: 41
41025176 TCTACTCCGT
*
41025186 TGCAACTTCAG-GAAGATAAGACTAGATGCGATCTACTCTAC
1 TGCAACTTCAGAG-AGATAAGACTGGATGCGATCTACTCTAC
* * *** * * **
41025227 TGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCATTCCGC
1 TGCAACTTCAGAGAGATAAGA-C--TGGATGCGATCTACTCTAC
* * * *
41025271 TGCAACTTTAGGGAGATAAGATTGGATGCGATCTGCTCTAC
1 TGCAACTTCAGAGAGATAAGACTGGATGCGATCTACTCTAC
41025312 TGCAACTTCAGAGAGATAAGA
1 TGCAACTTCAGAGAGATAAGA
41025333 TCTGTGGTTT
Statistics
Matches: 79, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
41 47 0.59
42 2 0.03
44 30 0.38
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (41 bp):
TGCAACTTCAGAGAGATAAGACTGGATGCGATCTACTCTAC
Found at i:41025277 original size:44 final size:44
Alignment explanation
Indices: 41025225--41025377 Score: 150
Period size: 44 Copynumber: 3.5 Consensus size: 44
41025215 GATCTACTCT
*
41025225 ACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
1 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
* * * * *** *** *
41025269 GCTGCAACTTTAGGGAGATAAGA--T-TGGATGCGATCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
41025310 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
1 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
* * *
41025354 ACTACCACTTCAGGGAGATAAGAT
1 ACTGCAACTTCAGAGAGATAAGAT
41025378 TTGTAGTCCA
Statistics
Matches: 82, Mismatches: 24, Indels: 6
0.73 0.21 0.05
Matches are distributed among these distances:
41 29 0.35
42 1 0.01
43 1 0.01
44 51 0.62
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
Found at i:41026527 original size:44 final size:44
Alignment explanation
Indices: 41026479--41026628 Score: 144
Period size: 44 Copynumber: 3.4 Consensus size: 44
41026469 GTGGTTTTAG
41026479 TCTGCTCCACTGCAA-TGTTAGGGAAATAAGACTTGTAGCTTCAA
1 TCTGCTCCACTGCAACT-TTAGGGAAATAAGACTTGTAGCTTCAA
* * *
41026523 TCTGCTCCACTGCAACTTTAGGGAGATGAGACTTGTATCTTCAA
1 TCTGCTCCACTGCAACTTTAGGGAAATAAGACTTGTAGCTTCAA
* * * * ** * *
41026567 CCTGCCCCACTACAACTTCAGGGGGATAAGGTCTAT-TA-CTTTAA
1 TCTGCTCCACTGCAACTTTAGGGAAATAA-GACT-TGTAGCTTCAA
*
41026611 TCTGCTCTACTGCAACTT
1 TCTGCTCCACTGCAACTT
41026629 CAGAGAGATA
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
44 81 0.92
45 6 0.07
46 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTTAGGGAAATAAGACTTGTAGCTTCAA
Found at i:41026768 original size:44 final size:44
Alignment explanation
Indices: 41026517--41026770 Score: 161
Period size: 44 Copynumber: 5.8 Consensus size: 44
41026507 AGACTTGTAG
* * *
41026517 CTTCAATCTGCTCCACTGCAACTTTAGGGAGAT-GAGACTTG-TAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAG-GA-TTGATTT
* * * * * *
41026561 CTTCAACCTGCCCCACTACAACTTCAGGGGGATAAGG-TCT-ATTA
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGAT-AGGAT-TGATTT
* * *
41026605 CTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGA--T
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGAT-AGGATTGATTT
* * * * * * *
41026648 -AT-GATCCGCTCTACTGCAACTTCAGAGAGATAAGATCGGTAATT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAGGAT-TG-ATTT
* * *
41026692 -TT-AATCCGCTTCACTGCAACTTCAGAAAGATAGGATTGATTT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGATTT
41026734 CTTCAATCTGCTCCACTGCAACTTCA-AGGAGATAGGA
1 CTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAGGA
41026771 CTAGTAACTT
Statistics
Matches: 165, Mismatches: 32, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
40 3 0.02
41 28 0.17
42 5 0.03
43 5 0.03
44 120 0.73
45 3 0.02
46 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGATTT
Found at i:41026926 original size:44 final size:44
Alignment explanation
Indices: 41026833--41027028 Score: 220
Period size: 44 Copynumber: 4.5 Consensus size: 44
41026823 GATCTACTCT
*
41026833 ACTGCAACTTTAGAGAGATAAGATCTGTGG-TTTAATCCATTCT
1 ACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
41026876 ACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
1 ACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
* * * *** *** *
41026920 GCTGCAACTTTAGGGAGATAAGA--T-TGGATGCGATCTGCTCT
1 ACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
*
41026961 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
1 ACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
* * * *
41027005 ACTACCACTTCAGGGAGATAAGAT
1 ACTGCAACTTTAGAGAGATAAGAT
41027029 TTGTAGTCCA
Statistics
Matches: 124, Mismatches: 25, Indels: 7
0.79 0.16 0.04
Matches are distributed among these distances:
41 29 0.23
42 1 0.01
43 31 0.25
44 63 0.51
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
Found at i:41026926 original size:128 final size:129
Alignment explanation
Indices: 41026789--41027028 Score: 365
Period size: 128 Copynumber: 1.9 Consensus size: 129
41026779 TTTTTTCTAC
* *
41026789 TCCGTTGCAACTTCAGGAAGATAAGACTAGATGCGATCTACTCTACTGCAACTTTAGAGAGATAA
1 TCCGCTGCAACTTCAGGAAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAA
* * *
41026854 GATCTGTGG-TTTAATCCATTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCAT
66 GATCTGTGGTTTTAATCCATTCCACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCAT
* * * * *
41026917 TCCGCTGCAACTTTAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAA
1 TCCGCTGCAACTTCAGGAAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAA
* *
41026982 GATCTGTGGTTTTAATCCATTCCACTACCACTTCAGGGAGATAAGAT
66 GATCTGTGGTTTTAATCCATTCCACTACAACTTCAGAGAGATAAGAT
41027029 TTGTAGTCCA
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
128 67 0.68
129 32 0.32
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (129 bp):
TCCGCTGCAACTTCAGGAAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAA
GATCTGTGGTTTTAATCCATTCCACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCAT
Found at i:41026985 original size:85 final size:85
Alignment explanation
Indices: 41026873--41027029 Score: 269
Period size: 85 Copynumber: 1.8 Consensus size: 85
41026863 TTTAATCCAT
* * * *
41026873 TCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCATTCCGCTGCAACTTTAGGGAGA
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCCACTACAACTTCAGGGAGA
41026938 TAAGATTGGATGCGATCTGC
66 TAAGATTGGATGCGATCTGC
*
41026958 TCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCCACTACCACTTCAGGGAGA
1 TCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCCACTACAACTTCAGGGAGA
41027023 TAAGATT
66 TAAGATT
41027030 TGTAGTCCAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (85 bp):
TCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCCACTACAACTTCAGGGAGA
TAAGATTGGATGCGATCTGC
Found at i:41027193 original size:90 final size:90
Alignment explanation
Indices: 41027038--41027543 Score: 827
Period size: 90 Copynumber: 5.6 Consensus size: 90
41027028 TTTGTAGTCC
* * *
41027038 ATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTATTATCTTCAGTCTACTTCGCTG
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTTAGCTG
*
41027103 CCAATATAGGAAGACAAGACTTGCT
66 CCAATACAGGAAGACAAGACTTGCT
*
41027128 ATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTTAGCTG
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTTAGCTG
*
41027193 CCAATACAGGAAGACAAAACTTGCT
66 CCAATACAGGAAGACAAGACTTGCT
* * * *
41027218 ATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCAATCTACTTTGCTG
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTTAGCTG
*
41027283 CCAATACAGGAATACAAGACTTGCT
66 CCAATACAGGAAGACAAGACTTGCT
* *
41027308 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCTATCTTCAGTCTACTTCA-CT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTT-AGCT
41027372 GCCAATACAGGAAGACAAGACTTGCT
65 GCCAATACAGGAAGACAAGACTTGCT
* * *
41027398 ATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTACTATCTTCTGTCTACTTTGCTG
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTTAGCTG
41027463 CCAATACAGGAAGACAAGACTTGCT
66 CCAATACAGGAAGACAAGACTTGCT
*
41027488 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA-CTTTCAGTCT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATC-TTCAGTCT
41027544 TAACTCTAGG
Statistics
Matches: 387, Mismatches: 26, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
89 1 0.00
90 386 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (90 bp):
ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTTAGCTG
CCAATACAGGAAGACAAGACTTGCT
Found at i:41027533 original size:45 final size:45
Alignment explanation
Indices: 41027038--41027533 Score: 695
Period size: 45 Copynumber: 11.0 Consensus size: 45
41027028 TTTGTAGTCC
* **
41027038 ATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTATT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
*
41027083 ATCTTC-AGTCTACTTCGCTGCCAATATAGGAAGACAAGA-CTTGCT
1 ATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT
* *
41027128 ATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTACT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
* *
41027173 ATCTTC-AGTCTACTTAGCTGCCAATACAGGAAGACAA-AACTTGCT
1 ATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT
*
41027218 ATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
* * *
41027263 ATCTTCAATCTACTTTGCTGCCAATACAGGAATACAAGA-CTTGCT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT
*
41027308 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
*
41027353 ATCTTC-AGTCTACTTCACTGCCAATACAGGAAGACAAGA-CTTGCT
1 ATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT
* *
41027398 ATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTACT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
*
41027443 ATCTTCTG-TCTACTTTGCTGCCAATACAGGAAGACAAGA-CTTGCT
1 ATCTTC-GATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT
41027488 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
41027533 A
1 A
41027534 CTTTCAGTCT
Statistics
Matches: 405, Mismatches: 28, Indels: 36
0.86 0.06 0.08
Matches are distributed among these distances:
44 10 0.02
45 385 0.95
46 10 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (45 bp):
ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
Found at i:41027760 original size:44 final size:45
Alignment explanation
Indices: 41027668--41027769 Score: 136
Period size: 44 Copynumber: 2.3 Consensus size: 45
41027658 CTTCACTGTT
* *
41027668 AGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTATC
1 AGTACAGGAAGGCAAGAGCTGCTATCTTCAGTCTGCTCCGCTACC
* * *
41027713 AGTACAGGAAGGCAAG-GCTGGTATCTTC-GATCTGCTTCGCTGCC
1 AGTACAGGAAGGCAAGAGCTGCTATCTTCAG-TCTGCTCCGCTACC
41027757 AGTACAGGAAGGC
1 AGTACAGGAAGGC
41027770 GTGATCTGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
43 1 0.02
44 34 0.67
45 16 0.31
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTACAGGAAGGCAAGAGCTGCTATCTTCAGTCTGCTCCGCTACC
Found at i:41029034 original size:12 final size:12
Alignment explanation
Indices: 41029017--41029073 Score: 62
Period size: 12 Copynumber: 4.5 Consensus size: 12
41029007 TTGGCCTCTC
41029017 CTTTTTCTTTTT
1 CTTTTTCTTTTT
*
41029029 CTTTTTATTTTT
1 CTTTTTCTTTTT
41029041 CTTCTTTCTTTTTT
1 CTT-TTTC-TTTTT
41029055 CTTTTT-TTTCTCT
1 CTTTTTCTTT-T-T
41029068 CTTTTT
1 CTTTTT
41029074 TATATTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
11 3 0.08
12 15 0.38
13 13 0.33
14 8 0.21
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:41029048 original size:25 final size:25
Alignment explanation
Indices: 41029020--41029085 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
41029010 GCCTCTCCTT
41029020 TTTCTTTTTCTTTTTATTTTTCT-TC
1 TTTCTTTTT-TTTTTATTTTTCTCTC
*
41029045 TTTCTTTTTTCTTT-TTTTTCTCTC
1 TTTCTTTTTTTTTTATTTTTCTCTC
*
41029069 TTT-TTTATATTTTTATT
1 TTTCTTT-TTTTTTTATT
41029086 GAATTTGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 10 0.29
24 14 0.40
25 11 0.31
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTCTTTTTTTTTTATTTTTCTCTC
Found at i:41029059 original size:20 final size:20
Alignment explanation
Indices: 41029017--41029074 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
41029007 TTGGCCTCTC
41029017 CTTTTTCTT-TTTC-TTTTT
1 CTTTTTCTTCTTTCTTTTTT
*
41029035 ATTTTTCTTCTTTCTTTTTT
1 CTTTTTCTTCTTTCTTTTTT
* *
41029055 CTTTTTTTTCTCTCTTTTTT
1 CTTTTTCTTCTTTCTTTTTT
41029075 ATATTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.24
19 4 0.12
20 22 0.65
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (20 bp):
CTTTTTCTTCTTTCTTTTTT
Found at i:41029081 original size:20 final size:19
Alignment explanation
Indices: 41029030--41029082 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
41029020 TTTCTTTTTC
*
41029030 TTTTTATTTTTCTTCTTTCT
1 TTTTTATTTTT-TTCTCTCT
*
41029050 TTTTTCTTTTTTTTCTCTCT
1 TTTTT-ATTTTTTTCTCTCT
41029070 TTTTTATATTTTT
1 TTTTTAT-TTTTT
41029083 ATTGAATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 22 0.79
21 5 0.18
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTATTTTTTTCTCTCT
Found at i:41029081 original size:27 final size:27
Alignment explanation
Indices: 41029012--41029074 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
41029002 TCGCCTTGGC
*
41029012 CTCTCCTTTTTCTTTTTCTTTTTATTT
1 CTCTCTTTTTTCTTTTTCTTTTTATTT
*
41029039 -T-TCTTCTTTCTTTTTTCTTTTT-TTT
1 CTCTCTTTTTTC-TTTTTCTTTTTATTT
41029064 CTCTCTTTTTT
1 CTCTCTTTTTT
41029075 ATATTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 10 0.33
26 13 0.43
27 7 0.23
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.78
Consensus pattern (27 bp):
CTCTCTTTTTTCTTTTTCTTTTTATTT
Found at i:41029278 original size:12 final size:12
Alignment explanation
Indices: 41029261--41029285 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41029251 TATGGTGAAC
41029261 TCTTCTTCTTTT
1 TCTTCTTCTTTT
41029273 TCTTCTTCTTTT
1 TCTTCTTCTTTT
41029285 T
1 T
41029286 GTGAGCTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTCTTCTTTT
Found at i:41040720 original size:6 final size:6
Alignment explanation
Indices: 41040711--41040772 Score: 110
Period size: 6 Copynumber: 10.7 Consensus size: 6
41040701 TTCAAAAAAA
41040711 AAAATC AAAATC AAAATC AAAATC --AATC AAAATC AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
41040757 AAAATC AAAATC AAAA
1 AAAATC AAAATC AAAA
41040773 AGAAGAAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.07
6 50 0.93
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATC
Found at i:41040744 original size:28 final size:28
Alignment explanation
Indices: 41040711--41040764 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
41040701 TTCAAAAAAA
41040711 AAAATCAAAATCAAAATCAAAATCAATC
1 AAAATCAAAATCAAAATCAAAATCAATC
41040739 AAAATCAAAATCAAAATCAAAATCAA
1 AAAATCAAAATCAAAATCAAAATCAA
41040765 AATCAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (28 bp):
AAAATCAAAATCAAAATCAAAATCAATC
Found at i:41040789 original size:34 final size:33
Alignment explanation
Indices: 41040704--41040806 Score: 100
Period size: 34 Copynumber: 3.1 Consensus size: 33
41040694 GATCCAATTC
**
41040704 AAAAAA-AAAAATCAAAATCAAAATCAAAATCA
1 AAAAAAGAAAAAGAAAAATCAAAATCAAAATCA
* ** **
41040736 ATCAAAATCAAAATCAAAATCAAAATCAAAATCA
1 A-AAAAAGAAAAAGAAAAATCAAAATCAAAATCA
* *
41040770 AAAAGAAGAAAAAGAAAAATCAAAATAAAAATGA
1 AAAA-AAGAAAAAGAAAAATCAAAATCAAAATCA
41040804 AAA
1 AAA
41040807 GAGAGAAGGA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.02
33 6 0.10
34 52 0.88
ACGTcount: A:0.73, C:0.11, G:0.04, T:0.13
Consensus pattern (33 bp):
AAAAAAGAAAAAGAAAAATCAAAATCAAAATCA
Found at i:41043460 original size:99 final size:100
Alignment explanation
Indices: 41043289--41043953 Score: 750
Period size: 99 Copynumber: 6.7 Consensus size: 100
41043279 CTTGGCGGTA
* * * * * * *
41043289 CAGTGGAACAGGTTAATGCCACAACGGTGAACCTTACTTCCCCAACATTGTAGTTAAAAAGATTA
1 CAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTA
*
41043354 AAACTACAACAGCGAATCTTACTCCCCAGGCGATG
66 AAGCTACAACAGCGAATCTTACTCCCCAGGCGATG
*
41043389 TAGTGGAAC-GTATTAAAGCCACATCGGTGAATCTTGC-TCCCCGACATTGCAGTTAAAAAGATT
1 CAGTGGAACAG-ATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATT
41043452 AAAGCTACAACAGCGAATCTTACTCCCCAGGCGATG
65 AAAGCTACAACAGCGAATCTTACTCCCCAGGCGATG
* * * * **
41043488 CGGTGGAATAGATTAATGCCATATCATTGAATCTTGC-TCCCCGACATTGCAGTTAAAAAGATTA
1 CAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTA
*
41043552 AAGCTACAACGGCGAATCTTACTCCCCAGGCGATG
66 AAGCTACAACAGCGAATCTTACTCCCCAGGCGATG
* * **
41043587 CGGTGGAACAGATTAAAGCCACATCGGTGAATCTTGC-TGCTTGACATTGCAGTTAAAAAGATTA
1 CAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTA
* *
41043651 AAGCTACAACAGCGAATCTTACTCCTCAGGTGATG
66 AAGCTACAACAGCGAATCTTACTCCCCAGGCGATG
* * *
41043686 CGGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTGAAAATGATT
1 CAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTT-AAAAAGATT
* * * * * * * *
41043751 AAAGCTACAATAGTGAATTTTATTTCCCGGGTGGTG
65 AAAGCTACAACAGCGAATCTTACTCCCCAGGCGATG
* * * ** **
41043787 GAATGGAACAGATTAAAGCCACGAT-GGTGAATCTTGCTTCCCCAACATCACAGTTAAGCAGATT
1 CAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATT
* * * * *
41043851 AAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTG
65 AAAGCTACAACAGCGAATCTTACTCCCCAGGCGATG
* * * ** ** **
41043887 TAGTGGAACGGATTAAAGCTGCA-AT-GGCGAGCCTTGCTTCCCCGACATCACAGTTAAGCAGAT
1 CAGTGGAACAGATTAAAGC--CACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
41043950 TAAA
64 TAAA
41043954 ATTGCGAGTT
Statistics
Matches: 492, Mismatches: 66, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
99 274 0.56
100 133 0.27
101 81 0.16
102 4 0.01
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (100 bp):
CAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTA
AAGCTACAACAGCGAATCTTACTCCCCAGGCGATG
Found at i:41043703 original size:50 final size:50
Alignment explanation
Indices: 41043345--41043704 Score: 239
Period size: 50 Copynumber: 7.3 Consensus size: 50
41043335 ATTGTAGTTA
* * *
41043345 AAAAGATTAAAACTACAACAGCGAATCTTACTCCCCAGGCGATGTAGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGAGATGCAGTGG
* * * * * * * **
41043395 -AACGTATTAAAGCCACATCGGTGAATCTTGCTCCCC--GACATTGCAGTTA
1 AAAAG-ATTAAAGCTACAACAGCGAATCTTACTCCCCAGGAGA-TGCAGTGG
* *
41043444 AAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGATGCGGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGAGATGCAGTGG
* * * * * ** * * **
41043494 AATAGATTAATGCCATATCATTGAATCTTGCTCCCC--GACATTGCAGTTA
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGAGA-TGCAGTGG
* * *
41043543 AAAAGATTAAAGCTACAACGGCGAATCTTACTCCCCAGGCGATGCGGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGAGATGCAGTGG
* * * * * * * ** * **
41043593 AACAGATTAAAGCCACATCGGTGAATCTTGCT--GCTTGACATTGCAGTTA
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGAGA-TGCAGTGG
* * *
41043642 AAAAGATTAAAGCTACAACAGCGAATCTTACTCCTCAGGTGATGCGGTGG
1 AAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGAGATGCAGTGG
*
41043692 AACAGATTAAAGC
1 AAAAGATTAAAGC
41043705 CACATCGGTG
Statistics
Matches: 221, Mismatches: 78, Indels: 22
0.69 0.24 0.07
Matches are distributed among these distances:
48 7 0.03
49 97 0.44
50 110 0.50
51 7 0.03
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (50 bp):
AAAAGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGAGATGCAGTGG
Found at i:41043828 original size:50 final size:49
Alignment explanation
Indices: 41043689--41043829 Score: 120
Period size: 51 Copynumber: 2.8 Consensus size: 49
41043679 GGTGATGCGG
* * *
41043689 TGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAG
1 TGGAACAGATTAAAGCCACAT-GGTGAATCTTGCTTCCCCGACAGTGGAA
* * * * * ** * ***
41043739 TTGAAAATGATTAAAGCTACAATAGTGAATTTTATTTCCCGGGTGGTGGAA
1 TGGAACA-GATTAAAGCCAC-ATGGTGAATCTTGCTTCCCCGACAGTGGAA
41043790 TGGAACAGATTAAAGCCACGATGGTGAATCTTGCTTCCCC
1 TGGAACAGATTAAAGCCAC-ATGGTGAATCTTGCTTCCCC
41043830 AACATCACAG
Statistics
Matches: 66, Mismatches: 23, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
50 31 0.47
51 33 0.50
52 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (49 bp):
TGGAACAGATTAAAGCCACATGGTGAATCTTGCTTCCCCGACAGTGGAA
Found at i:41052054 original size:3 final size:3
Alignment explanation
Indices: 41052046--41052121 Score: 143
Period size: 3 Copynumber: 25.0 Consensus size: 3
41052036 TTTACTTCAC
41052046 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
41052092 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
41052122 CATGGTTTTT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 69 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:41052234 original size:22 final size:23
Alignment explanation
Indices: 41052191--41052235 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
41052181 ACCCACCTAT
41052191 TTTTATTAATGTACATTATTTTA
1 TTTTATTAATGTACATTATTTTA
41052214 TTTTATT-ATGTACTATT-TTTTA
1 TTTTATTAATGTAC-ATTATTTTA
41052236 ATTCTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTTATTAATGTACATTATTTTA
Found at i:41058645 original size:44 final size:44
Alignment explanation
Indices: 41058561--41059205 Score: 533
Period size: 44 Copynumber: 14.7 Consensus size: 44
41058551 GGTGAAACTA
* ** *
41058561 TAAGTTCTATCTCCCT-AGACAACAGTGAAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGA-ACAGTAGTGGAATAGGTTGAAGATTG
* * * * *
41058605 CATGTCCTATCTCCCTGAACAATAGTGGAATAAGTGGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* *
41058649 TAAGTCTTATCTCCTTGAACAGTAGTGGAATAGG-TGAAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTG-AAGATTG
* * *
41058693 TAAGTCTTATCTCCCT-AGACAGTAGTGGAATATGTTGAAGATTT
1 TAAGTCCTATCTCCCTGA-ACAGTAGTGGAATAGGTTGAAGATTG
*
41058737 TAAG-CTCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTG
1 TAAGTC-CTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * * * ** * ** **
41058781 T-AGATCTTGTCTCCCT-AAGCACTAGTAGAGCAGATCAAAGACGG
1 TAAG-TCCTATCTCCCTGAA-CAGTAGTGGAATAGGTTGAAGATTG
* * * * * **
41058825 TGAA-TCTTATCTTCCC--AA-GGTAGTAGGGAAGCAGATTTAAG-CCG
1 T-AAGTCCTATC-TCCCTGAACAGTAGT--GGAA-TAGGTTGAAGATTG
** * * *
41058869 CCAGTCCTATCTCCTTGAATAGCAGTGGAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * **
41058913 TAAGTCCTATCTACCTGGACAGTAGCAGAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * *
41058957 TAAGTCCTATCTCCCTGGACAGCAGCGGAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * * *
41059001 TAAGTCCTATCTCCCTGGACAGCAGCGGAATAGGTCGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * * *
41059045 TAAATCCTATCTCCCTGGACAGCAGCGGAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * *
41059089 TAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTCAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * *
41059133 TAAGTCATATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* *
41059177 T-AGATCCTGTCTCCCT-AAGCAGCAGTGGA
1 TAAG-TCCTATCTCCCTGAA-CAGTAGTGGA
41059206 GCAGATCAAA
Statistics
Matches: 504, Mismatches: 75, Indels: 44
0.81 0.12 0.07
Matches are distributed among these distances:
42 4 0.01
43 20 0.04
44 457 0.91
45 18 0.04
46 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
Found at i:41059232 original size:132 final size:133
Alignment explanation
Indices: 41058568--41059383 Score: 480
Period size: 132 Copynumber: 6.2 Consensus size: 133
41058558 CTATAAGTTC
* * * * * * **
41058568 TATC-TCCCTAGACAACAGTGAAATAGGTTGAAGATTGCATGTCCTATCTCCCTGAACAATAGTG
1 TATCTTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGTG
* * * * * ** * * *
41058632 GAATAAGTGGAAGATTGTA-AGTCTTATCTCCTTGAA-CAGTAGTGGAATAGGTGAAAGATTGTA
66 GAATAGGTTGAAGATTGTAGA-TCCTATCTCCCT-AAGCAGCAGTGGAGCAGATCAAAGA-CG-A
*
41058695 --AGTCT
127 CGAATCT
* * * * *
41058700 TATC-TCCCTAGACAGTAGTGGAATATGTTGAAGATTTTAAG-CTCTATCTCCCTGGACAGTAGT
1 TATCTTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTC-CTATCTCCCTGGACAGCAGT
* * * **
41058763 GGAATAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCA-CTAGTAGAGCAGATCAAAGACGGTG
65 GGAATAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGC-AGTGGAGCAGATCAAAGACGACG
41058827 AATCT
129 AATCT
* * * * * * ** ** * * *
41058832 TATCTTCCCAAGG-TAGTAG-GGAAGCAGATTTAAG-CCGCCAGTCCTATCTCCTTGAATAGCAG
1 TATCTTCCC-TGGACAGCAGTGGAA-TAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAG
* * ** *
41058894 TGGAATAGGTTGAAGATTGTA-AGTCCTATCTACCT--GGA-CAGT--AGCAGAAT-AGGTTGAA
64 TGGAATAGGTTGAAGATTGTAGA-TCCTATCTCCCTAAGCAGCAGTGGAGCAG-ATCA--AAGAC
* *
41058952 GATTGTAAGTCC
125 GA-CG-AA-TCT
* *
41058964 TATC-TCCCTGGACAGCAGCGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGCG
1 TATCTTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGTG
* * * * ** * ** *
41059028 GAATAGGTCGAAGATTGTAAATCCTATCTCCCT-GGACAGCAGCGGAATAGGTTGAAGATTGTA-
66 GAATAGGTTGAAGATTGTAGATCCTATCTCCCTAAG-CAGCAGTGGAGCAGATCAAAGA-CG-AC
* *
41059091 -AGTCC
128 GAATCT
* *
41059096 TATC-TCCCTGGACAGCAGTGGAATAGGTTCAAGATTGTAAGTCATATCTCCCTGGACAGCAGTG
1 TATCTTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGTG
*
41059160 GAATAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGACGAA
66 GAATAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGACGAA
41059225 TCT
131 TCT
** * * * * * ** ** * * *
41059228 TATCTTCCCAAGATAGTAG-GGAAGCAGATTTAAGCCT-CCAGTCCTATCTCCTTGGGCAACAGT
1 TATCTTCCCTGGACAGCAGTGGAA-TAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGT
* * * * * *
41059291 GGAACAGGTTGAAGATTGTAGATCCTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACAACAA
65 GGAATAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGACGA
41059356 ATCT
130 ATCT
41059360 TA-CTTCCCTGG-CAGTGCAGTGGAA
1 TATCTTCCCTGGACA--GCAGTGGAA
41059384 CAGATTAAAG
Statistics
Matches: 531, Mismatches: 116, Indels: 73
0.74 0.16 0.10
Matches are distributed among these distances:
127 6 0.01
128 2 0.00
129 6 0.01
130 9 0.02
131 30 0.06
132 422 0.79
133 43 0.08
134 2 0.00
135 5 0.01
136 2 0.00
137 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (133 bp):
TATCTTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGTG
GAATAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGACGAA
TCT
Found at i:41059505 original size:50 final size:50
Alignment explanation
Indices: 41059349--41059517 Score: 169
Period size: 50 Copynumber: 3.4 Consensus size: 50
41059339 CAGATCGAAG
* * * * **
41059349 ACAACAAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTACA
1 ACAACGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACA
** * * * * *
41059399 ACAGTGAATCTTACTTCCCCAACATTACA-TTCAAATAGACTGAAGCTACA
1 ACAACGAATCTTACTTCCCCGACATTGCAGTT-AAACAGATTAAAGCTACA
* * *
41059449 ATAACGAATCTTACTTCCCCGATATTGCAGTTAAACAGATTAAAGCAACA
1 ACAACGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACA
*
41059499 ACAACGAATCTTATTTCCC
1 ACAACGAATCTTACTTCCC
41059518 TGACGTTGTA
Statistics
Matches: 92, Mismatches: 25, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
49 1 0.01
50 89 0.97
51 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (50 bp):
ACAACGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACA
Found at i:41061044 original size:12 final size:13
Alignment explanation
Indices: 41060999--41061047 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
41060989 TATTTGTTTT
41060999 TTATTAATTATT-
1 TTATTAATTATTA
41061011 TTATTAATTAATTCA
1 TTATTAATT-ATT-A
*
41061026 CTATT-ATTATTA
1 TTATTAATTATTA
41061038 TTATT-ATTAT
1 TTATTAATTAT
41061048 CATCATGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 19 0.59
13 6 0.19
14 3 0.09
15 4 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTAATTATTA
Found at i:41061244 original size:39 final size:39
Alignment explanation
Indices: 41061136--41061253 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 39
41061126 GGCATTTGGA
*
41061136 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTT
1 TAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
*** * * *
41061175 TAAAAAAATAACACTAAAGATCGAGTATTAGCGGCGCTTCT
1 T-AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTT-T
41061216 TAAAAAACGCCGCTAAAAAT-GAGCATTAGCGGCG-TTT
1 TAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
41061253 T
1 T
41061254 CCAAATAGCG
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
37 2 0.03
38 2 0.03
39 14 0.22
40 44 0.69
41 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (39 bp):
TAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
Found at i:41061373 original size:41 final size:41
Alignment explanation
Indices: 41061313--41061595 Score: 422
Period size: 41 Copynumber: 6.9 Consensus size: 41
41061303 TTTTTAGGCA
*
41061313 TTAGCGGCGTTTTTGAAGAAACGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
* * * *
41061354 TTAGCGGCGTTTTTAAAGAAGCGCGGTTAATCCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
* * * * * *
41061395 TTAGTGGCATTTTTAAAGAAGCGTCGCTAATGCTCAAGGAT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
41061436 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
*
41061477 TTAGAGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
*
41061518 TTAGAGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
* **
41061559 TTAGCGACGTACTTGAAGAAGCGCCGCTAATGCTCAG
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAG
41061596 ATTGATCATA
Statistics
Matches: 218, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 218 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
Found at i:41064371 original size:23 final size:23
Alignment explanation
Indices: 41064345--41064396 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
41064335 TAAAATTGAA
*
41064345 CATACTCATCTCAGACATGCCTT
1 CATACTCATATCAGACATGCCTT
* * *
41064368 CATACCCATATCTGACATGTCTT
1 CATACTCATATCAGACATGCCTT
*
41064391 TATACT
1 CATACT
41064397 GACACCTAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.35
Consensus pattern (23 bp):
CATACTCATATCAGACATGCCTT
Found at i:41065246 original size:43 final size:43
Alignment explanation
Indices: 41065185--41065452 Score: 392
Period size: 43 Copynumber: 6.2 Consensus size: 43
41065175 CGCTAAAGGT
*
41065185 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCGAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCGAAAGGTCGTGGTC
*
41065228 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCGAAAAGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCGAAAGGTCGTGGTC
* *
41065271 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCGAAAAGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCGAAAGGTCGTGGTC
* * *
41065314 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCGAAAGGTCGTGGTC
* * * *
41065357 TTTAGCGGCGTTTTGTGGAAAAAGTGCCGCTAAAGGTTGTGGTC
1 TTTAGCGGCG-TTTGTGGGAAAAGCGCCGCGAAAGGTCGTGGTC
* * * *
41065401 TTTAGCGGCCTTTCTGGTAAAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCGAAAGGTCGTGGTC
41065444 TTTAGCGGC
1 TTTAGCGGC
41065453 ATTTTTTGAA
Statistics
Matches: 210, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
43 171 0.81
44 39 0.19
ACGTcount: A:0.20, C:0.18, G:0.35, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCGAAAGGTCGTGGTC
Found at i:41065633 original size:23 final size:23
Alignment explanation
Indices: 41065593--41065638 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
41065583 ACCCACCTAT
41065593 TTTTATTTATGTACATTATTTTA
1 TTTTATTTATGTACATTATTTTA
41065616 TTTTA-TTATGTACTATTATTTTA
1 TTTTATTTATGTAC-ATTATTTTA
41065639 ATTCTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTATTTATGTACATTATTTTA
Done.