Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 129 of 205
Found at i:39018392 original size:79 final size:81
Alignment explanation
Indices: 39018256--39018440 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
39018246 TTGAATGATG
* *
39018256 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
39018320 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
39018335 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
39018397 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
39018415 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39018441 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:39018454 original size:40 final size:40
Alignment explanation
Indices: 39018257--39018440 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
39018247 TGAATGATGT
* * * *
39018257 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
39018297 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
39018337 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
39018375 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
39018416 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
39018441 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:39018462 original size:79 final size:79
Alignment explanation
Indices: 39018309--39018473 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
39018299 GGACTAAGAT
* * **
39018309 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
39018374 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
39018388 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
39018451 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
39018467 CCGAAGG
1 CCGAAGG
39018474 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:39025859 original size:28 final size:28
Alignment explanation
Indices: 39025796--39025949 Score: 211
Period size: 28 Copynumber: 5.5 Consensus size: 28
39025786 ATATTAAGTC
*
39025796 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
39025823 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
39025851 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
39025879 CGCACACTTAGTGCTATATAATAAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
39025907 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
39025936 CGTACACTTAGTGC
1 CGCACACTTAGTGC
39025950 CAATCTCATG
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 21 0.18
28 75 0.66
29 18 0.16
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:39028445 original size:14 final size:14
Alignment explanation
Indices: 39028426--39028454 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39028416 GCTAAAATGC
39028426 AGCTTGGTACCCAA
1 AGCTTGGTACCCAA
39028440 AGCTTGGTACCCAA
1 AGCTTGGTACCCAA
39028454 A
1 A
39028455 CTCTTCAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (14 bp):
AGCTTGGTACCCAA
Found at i:39032230 original size:13 final size:13
Alignment explanation
Indices: 39032212--39032236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39032202 CCGAACATAG
39032212 ATAGCCAAACATC
1 ATAGCCAAACATC
39032225 ATAGCCAAACAT
1 ATAGCCAAACAT
39032237 TTGGTCATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.28, G:0.08, T:0.16
Consensus pattern (13 bp):
ATAGCCAAACATC
Found at i:39035508 original size:16 final size:16
Alignment explanation
Indices: 39035489--39035521 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
39035479 ACCATCAATG
39035489 TTATATTAAATTGATT
1 TTATATTAAATTGATT
*
39035505 TTATGTTAAATTGATT
1 TTATATTAAATTGATT
39035521 T
1 T
39035522 GAAAACGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (16 bp):
TTATATTAAATTGATT
Found at i:39037813 original size:25 final size:25
Alignment explanation
Indices: 39037778--39037829 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
39037768 GGAAAAGGCT
*
39037778 AATTTTAAGGGTTCTTAGGCGTTCC
1 AATTTTAAGGGTTCTTAGGCATTCC
*
39037803 AATTTTGAGGGTTCTTAGGCATTCC
1 AATTTTAAGGGTTCTTAGGCATTCC
39037828 AA
1 AA
39037830 AGCCTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (25 bp):
AATTTTAAGGGTTCTTAGGCATTCC
Found at i:39056538 original size:24 final size:24
Alignment explanation
Indices: 39056493--39056538 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
39056483 CCTAAAATCC
*
39056493 CTCCATGATTTCCTCCCCAATCTG
1 CTCCATGATTTCCTCCACAATCTG
* * *
39056517 CTCCTTGATTTTCTCCATAATC
1 CTCCATGATTTCCTCCACAATC
39056539 CATTCCTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.17, C:0.37, G:0.07, T:0.39
Consensus pattern (24 bp):
CTCCATGATTTCCTCCACAATCTG
Found at i:39057606 original size:22 final size:22
Alignment explanation
Indices: 39057581--39057630 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
39057571 AAAACATGTT
*
39057581 TGTTGCGGAAGCATTTCAACAA
1 TGTTGCGAAAGCATTTCAACAA
39057603 TGTTGCGAAAGCATTTCAACAA
1 TGTTGCGAAAGCATTTCAACAA
39057625 TGTTGC
1 TGTTGC
39057631 AAAAACGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (22 bp):
TGTTGCGAAAGCATTTCAACAA
Found at i:39059051 original size:26 final size:26
Alignment explanation
Indices: 39059009--39059144 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
39058999 TGATACAAAT
39059009 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
39059035 TGATAATAAGTTGGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
39059061 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
39059087 TGATAATGGGTTTGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
39059113 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
39059139 TGATAA
1 TGATAA
39059145 GAATTTCATG
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:39060667 original size:11 final size:11
Alignment explanation
Indices: 39060651--39060676 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
39060641 TTGACATTAA
39060651 TTAAAAGTTTT
1 TTAAAAGTTTT
39060662 TTAAAAGTTTT
1 TTAAAAGTTTT
39060673 TTAA
1 TTAA
39060677 CTTCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (11 bp):
TTAAAAGTTTT
Found at i:39066529 original size:42 final size:43
Alignment explanation
Indices: 39066429--39066582 Score: 120
Period size: 43 Copynumber: 3.6 Consensus size: 43
39066419 CAAGTACAAC
* * *
39066429 GCCGATGTCTCGGAC-GTGGTCTTACATGTAATTCAATATCGAT
1 GCCGATGTCCCAGACAG-GGTCTTACATGTAAATCAATATCGAT
* **
39066472 ACCTTTGTCCCAGACAGGGTCTTACATG-AAATCAGATA-CGAT
1 GCCGATGTCCCAGACAGGGTCTTACATGTAAATCA-ATATCGAT
* * * * *
39066514 GCCGATGTCCCAGACACGGCCTTATATGTAAATCTCA-ATCGAG
1 GCCGATGTCCCAGACAGGGTCTTACATGTAAATC-AATATCGAT
* *
39066557 GCTTG-TGTCCCAGACATGGTCTTACA
1 GC-CGATGTCCCAGACAGGGTCTTACA
39066583 CGATATCTCA
Statistics
Matches: 87, Mismatches: 18, Indels: 12
0.74 0.15 0.10
Matches are distributed among these distances:
42 32 0.37
43 53 0.61
44 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (43 bp):
GCCGATGTCCCAGACAGGGTCTTACATGTAAATCAATATCGAT
Found at i:39085869 original size:41 final size:41
Alignment explanation
Indices: 39085741--39085856 Score: 187
Period size: 41 Copynumber: 2.8 Consensus size: 41
39085731 CCCGAATCAG
* * *
39085741 TGAAAAGGGTGAAAAGGACGTTATCCAGAAAGGATATTGAA
1 TGAAAAGGTTGAAAAGGATGTTATCCAGAAAGGATATTAAA
39085782 TGAAAAGGTTGAAAAGGATGTTATCCAGAAAGGATATTAAA
1 TGAAAAGGTTGAAAAGGATGTTATCCAGAAAGGATATTAAA
* *
39085823 TGAAAAGGTTGGAAAGGATGTTATCCAAAAAGGA
1 TGAAAAGGTTGAAAAGGATGTTATCCAGAAAGGA
39085857 CAACAAATGA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.45, C:0.06, G:0.28, T:0.22
Consensus pattern (41 bp):
TGAAAAGGTTGAAAAGGATGTTATCCAGAAAGGATATTAAA
Found at i:39093579 original size:243 final size:242
Alignment explanation
Indices: 39093132--39093609 Score: 796
Period size: 243 Copynumber: 2.0 Consensus size: 242
39093122 CAATGTCACA
* *
39093132 ACACACCAAGTCTTGTGTCTGACATTGAGGGCAATATGTTAAGTTTCTTGATGTCTTCAGGGGTA
1 ACACACCAAGTCCTGTGTCTGACATTGAGGGCAATATGCTAAGTTTCTTGATGTCTTCAGGGGTA
*
39093197 TTTCACGACATCTTTAGGCTGTGTCATGACATTAAAGGTAGTCTTGGATTTTTCAAATTCTTCTC
66 TTTCACGACATCCTTAGGCTGTGTCATGACATTAAAGGTAGTCTTGGATTTTTCAAATTCTTCTC
* *
39093262 CTTAAGTTGCGAAATCCCATGCTCTGTGTTGCAACCTAGCAACCATTATTGAGTTAATATGCCTT
131 CTTAAGTTGCGAAATCCCATGCTCCGTGTTGCAACCTAGCAACCATTATCGAGTTAATATGCCTT
39093327 CTAATGGTCTCCTGCACACTCATAAAGTATATTAGCTCAATGTCGTG
196 CTAATGGTCTCCTGCACACTCATAAAGTATATTAGCTCAATGTCGTG
*
39093374 ACACACCAAGTCCTGTGTCGTGACATTGAGGGCAATATGCTAAGTTTCTTGTTGTCTTCAGGGGT
1 ACACACCAAGTCCTGTGTC-TGACATTGAGGGCAATATGCTAAGTTTCTTGATGTCTTCAGGGGT
* * * **
39093439 ATTTCATGACATCCTTAGGCTGTGTCATGATATTGAAGGTAGTCTTGGATTTTTCTGATTCTTCT
65 ATTTCACGACATCCTTAGGCTGTGTCATGACATTAAAGGTAGTCTTGGATTTTTCAAATTCTTC-
* * * *
39093504 TCC-TATGTTGTGACATCCCATGCTCCGTGTTGCAATCTAGCAACCATTATCGAGTTAATATGCC
129 TCCTTAAGTTGCGAAATCCCATGCTCCGTGTTGCAACCTAGCAACCATTATCGAGTTAATATGCC
39093568 TTCTAATGGTCTCCTGCACACTCATAAAGTATATTAGCTCAA
194 TTCTAATGGTCTCCTGCACACTCATAAAGTATATTAGCTCAA
39093610 CCTTAGGCCT
Statistics
Matches: 219, Mismatches: 15, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
242 18 0.08
243 198 0.90
244 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (242 bp):
ACACACCAAGTCCTGTGTCTGACATTGAGGGCAATATGCTAAGTTTCTTGATGTCTTCAGGGGTA
TTTCACGACATCCTTAGGCTGTGTCATGACATTAAAGGTAGTCTTGGATTTTTCAAATTCTTCTC
CTTAAGTTGCGAAATCCCATGCTCCGTGTTGCAACCTAGCAACCATTATCGAGTTAATATGCCTT
CTAATGGTCTCCTGCACACTCATAAAGTATATTAGCTCAATGTCGTG
Found at i:39097306 original size:49 final size:49
Alignment explanation
Indices: 39097229--39097464 Score: 287
Period size: 49 Copynumber: 4.8 Consensus size: 49
39097219 TAGCCAAAGC
* *
39097229 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * *
39097278 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAACTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCG-ACCAAT
* * * * *
39097328 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACTATCGA--AGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA-T-GCGACCAAT
* *
39097377 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
39097426 TATCTGGTACACATAGTAGCCTACACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
39097465 CATGACCTTA
Statistics
Matches: 156, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
47 3 0.02
48 1 0.01
49 110 0.71
50 40 0.26
51 1 0.01
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:39097401 original size:99 final size:98
Alignment explanation
Indices: 39097230--39097465 Score: 296
Period size: 99 Copynumber: 2.4 Consensus size: 98
39097220 AGCCAAAGCT
* * *
39097230 ATCTGGTACGCATAGTAGCCTACACTTAGTACTACACA-TGCGACCAATTATCCGGTACACGTAG
1 ATCTGATACACATAGTAGCCTACACTTAGTACTACACACTGCGA-CAATTATCCGGTACACATAG
* *
39097294 TAGCCTGCACTTAGTACTACACACGTGAACTAACC
65 TAGCCTGCACTTAGTACTACACACGCG-ACCAACC
* * * * * *
39097329 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACTATCGA-AGTTATCGGGTACGCATAG
1 ATCTGATACACATAGTAGCCTACACTTAGTACTACACACT-GCGACAATTATCCGGTACACATAG
* **
39097393 TAGCCTGCACTTAGTACTACACATGCGACCAATT
65 TAGCCTGCACTTAGTACTACACACGCGACCAACC
*
39097427 ATCTGGTACACATAGTAGCCTACACTTAGTACTACACAC
1 ATCTGATACACATAGTAGCCTACACTTAGTACTACACAC
39097466 ATGACCTTAC
Statistics
Matches: 118, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
98 40 0.34
99 74 0.63
100 1 0.01
101 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (98 bp):
ATCTGATACACATAGTAGCCTACACTTAGTACTACACACTGCGACAATTATCCGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCAACC
Found at i:39102980 original size:49 final size:49
Alignment explanation
Indices: 39102903--39103030 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 49
39102893 TGTTGTGTGT
*
39102903 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAAGC
* * ** * *
39102952 CAGTGTAAGACCTGGT-TGGGACACGGCATCGATATTGATATATGAAAGT
1 CAGTGTAAGACCT-GTCTGGGACATGGCATCGACACCGATAGATGAAAGC
*
39103001 CAGTGTAAGACCTATCTGGGACATGGCATC
1 CAGTGTAAGACCTGTCTGGGACATGGCATC
39103031 AACTTTGATG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 65 0.96
50 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAAGC
Found at i:39104966 original size:20 final size:19
Alignment explanation
Indices: 39104918--39104957 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
39104908 AGTTACACGG
* *
39104918 CCTGGGGACACGGGCTTGT
1 CCTGGGCACACGGGCATGT
39104937 CCTGGGCACACGGGCATGT
1 CCTGGGCACACGGGCATGT
39104956 CC
1 CC
39104958 CTGTGCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.12, C:0.33, G:0.38, T:0.17
Consensus pattern (19 bp):
CCTGGGCACACGGGCATGT
Found at i:39119931 original size:66 final size:66
Alignment explanation
Indices: 39119859--39119983 Score: 160
Period size: 66 Copynumber: 1.9 Consensus size: 66
39119849 TATCAGACAA
* * * * *
39119859 CTGTCAACTGCGGTAACAATTCTGAATGCCATCTGGAATTAACTCATGCAGTGACATTACAGATA
1 CTGTCAACTGCAGCAACAATTCCGAACGCAATCTGGAATTAACTCATGCAGTGACATTACAGATA
39119924 T
66 T
* * * * *
39119925 CTGTCAACTGCAGCGATAATTCCGGACGCAATTTGGAATTAACTCATGTAGTGACATTA
1 CTGTCAACTGCAGCAACAATTCCGAACGCAATCTGGAATTAACTCATGCAGTGACATTA
39119984 GTACAGAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 49 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (66 bp):
CTGTCAACTGCAGCAACAATTCCGAACGCAATCTGGAATTAACTCATGCAGTGACATTACAGATA
T
Found at i:39121000 original size:17 final size:17
Alignment explanation
Indices: 39120957--39121004 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
39120947 GCAATTCCCC
*
39120957 AATGCATTGACAA-GAA
1 AATGCAATGACAATGAA
* *
39120973 TATGTAATGACAATGAA
1 AATGCAATGACAATGAA
39120990 AATGCAATGACAATG
1 AATGCAATGACAATG
39121005 TATACTTATC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:39131132 original size:19 final size:19
Alignment explanation
Indices: 39131105--39131148 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
39131095 AATGTATGTT
*
39131105 TTTACTTAGTTTTAATATG
1 TTTATTTAGTTTTAATATG
39131124 TTTATTTAGTTTTAATATG
1 TTTATTTAGTTTTAATATG
39131143 TTTATT
1 TTTATT
39131149 GCTATGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.64
Consensus pattern (19 bp):
TTTATTTAGTTTTAATATG
Found at i:39133705 original size:18 final size:18
Alignment explanation
Indices: 39133682--39133716 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
39133672 GGGTTTGGTG
39133682 AACAAAATCTTCAGACCT
1 AACAAAATCTTCAGACCT
39133700 AACAAAATCTTCAGACC
1 AACAAAATCTTCAGACC
39133717 GTATTTAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.29, G:0.06, T:0.20
Consensus pattern (18 bp):
AACAAAATCTTCAGACCT
Found at i:39138949 original size:25 final size:25
Alignment explanation
Indices: 39138915--39139029 Score: 115
Period size: 25 Copynumber: 4.6 Consensus size: 25
39138905 TGCTCCACAT
*
39138915 CTCGTGAGAGCATATTGATTTATAG
1 CTCGTGAGAGCATACTGATTTATAG
* * *
39138940 CTCGTGAGAGTATACCGAATTATAG
1 CTCGTGAGAGCATACTGATTTATAG
* * *
39138965 CTCGTAAGAGCATACTAATCTATAG
1 CTCGTGAGAGCATACTGATTTATAG
* * * *
39138990 CTCGAGTGAGCATACTGATTCACAG
1 CTCGTGAGAGCATACTGATTTATAG
39139015 CTCGT-ATGAGCATAC
1 CTCGTGA-GAGCATAC
39139030 ATGTACATGA
Statistics
Matches: 70, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
25 70 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (25 bp):
CTCGTGAGAGCATACTGATTTATAG
Found at i:39144483 original size:11 final size:11
Alignment explanation
Indices: 39144469--39144497 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
39144459 AAATATTTGA
39144469 AAAAAAAATTC
1 AAAAAAAATTC
39144480 AAAAAAAATTC
1 AAAAAAAATTC
39144491 AAAAAAA
1 AAAAAAA
39144498 GGGGTCCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:39144953 original size:24 final size:24
Alignment explanation
Indices: 39144902--39144982 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
39144892 AAGCCCTATT
* * *
39144902 TATTTTTA-ATTTTTTGAATTTATA
1 TATTTATATATTTTTT-ATTTTCTA
39144926 TATTTATATATTTTTTATTTTC--
1 TATTTATATATTTTTTATTTTCTA
*
39144948 --TTTATTTATTTTTTATTTTCTA
1 TATTTATATATTTTTTATTTTCTA
*
39144970 GATTTATATATTT
1 TATTTATATATTT
39144983 CATTTCATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
20 19 0.40
24 21 0.45
25 7 0.15
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TATTTATATATTTTTTATTTTCTA
Found at i:39144957 original size:20 final size:20
Alignment explanation
Indices: 39144928--39144968 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
39144918 AATTTATATA
39144928 TTTATATATTTTTTATTTTC
1 TTTATATATTTTTTATTTTC
*
39144948 TTTATTTATTTTTTATTTTC
1 TTTATATATTTTTTATTTTC
39144968 T
1 T
39144969 AGATTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTATATATTTTTTATTTTC
Found at i:39144974 original size:20 final size:20
Alignment explanation
Indices: 39144934--39144976 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
39144924 TATATTTATA
**
39144934 TATTTTTTATTTTCTTTATT
1 TATTTTTTATTTTCTAGATT
39144954 TATTTTTTATTTTCTAGATT
1 TATTTTTTATTTTCTAGATT
39144974 TAT
1 TAT
39144977 ATATTTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (20 bp):
TATTTTTTATTTTCTAGATT
Found at i:39144994 original size:52 final size:52
Alignment explanation
Indices: 39144898--39144998 Score: 127
Period size: 52 Copynumber: 1.9 Consensus size: 52
39144888 GCCCAAGCCC
* *
39144898 TATTTATTTTTAATTTTTTGAATTTATATATTTATATATTTTTTATTTTCTT
1 TATTTATTTTTAATTTTTAGAATTTATATATTTATATATATTTTATTTTCTT
*
39144950 TATTTATTTTTTATTTTCTAG-ATTTATATATTTCAT-T-TCATTTTATTTT
1 TATTTATTTTTAATTTT-TAGAATTTATATATTT-ATATAT-ATTTTATTTT
39144999 ATTATGCATT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
51 1 0.02
52 38 0.88
53 4 0.09
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (52 bp):
TATTTATTTTTAATTTTTAGAATTTATATATTTATATATATTTTATTTTCTT
Found at i:39146823 original size:171 final size:171
Alignment explanation
Indices: 39146538--39146845 Score: 535
Period size: 171 Copynumber: 1.8 Consensus size: 171
39146528 TAGACACGCT
*
39146538 CGTGTGGACATTCGAAATAGGAGCACATGGTCGTGTCCCAGCCCATGTCCTACCCCGTGTAACTC
1 CGTGTGGACATTCGAAATAAGAGCACATGGTCGTGTCCCAGCCCATGTCCTACCCCGTGTAACTC
* * * * *
39146603 TCTGACTTGGGTCACACGACCAACACACACACCTGTTTGGCTGGCCCGTGTGCCCTAAAAATGTC
66 TCTGACTTGGGTCACACAACCAACACACACACCCGTGTGGCTAGCCCGTGTGCCCTAAAAATGGC
39146668 CATAAACGCGCGTGTGCCAGGAACACGCCCGTGTCATAGGC
131 CATAAACGCGCGTGTGCCAGGAACACGCCCGTGTCATAGGC
*
39146709 CGTGTGGACATTCGAAATAAGAGCACATGGTCGTGTCCTAGCCCATGTCCTACCCCGTGTAACTC
1 CGTGTGGACATTCGAAATAAGAGCACATGGTCGTGTCCCAGCCCATGTCCTACCCCGTGTAACTC
* *
39146774 TTTGACTTGGGTCACACAACCAATACACACACCCGTGTGGCTAGCCCGTGTGCCCTAAAAATGGC
66 TCTGACTTGGGTCACACAACCAACACACACACCCGTGTGGCTAGCCCGTGTGCCCTAAAAATGGC
39146839 CATAAAC
131 CATAAAC
39146846 ACTCATGTGT
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
171 128 1.00
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (171 bp):
CGTGTGGACATTCGAAATAAGAGCACATGGTCGTGTCCCAGCCCATGTCCTACCCCGTGTAACTC
TCTGACTTGGGTCACACAACCAACACACACACCCGTGTGGCTAGCCCGTGTGCCCTAAAAATGGC
CATAAACGCGCGTGTGCCAGGAACACGCCCGTGTCATAGGC
Found at i:39148175 original size:24 final size:24
Alignment explanation
Indices: 39148119--39148211 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
39148109 GAGCTGATGG
***
39148119 ACAGTAAGCTCTATTGAGCT-AAA
1 ACAGTAAGCTCTAACAAGCTGAAA
* *
39148142 ACGGTTAGCTCTAACAAGCTGAAA
1 ACAGTAAGCTCTAACAAGCTGAAA
* **
39148166 ACAGTAAGCTCTTACAAGCTGGTA
1 ACAGTAAGCTCTAACAAGCTGAAA
* * *
39148190 ACAGAAAGCTCTTACGAGCTGA
1 ACAGTAAGCTCTAACAAGCTGA
39148212 TATATCGGTA
Statistics
Matches: 56, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
23 15 0.27
24 41 0.73
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (24 bp):
ACAGTAAGCTCTAACAAGCTGAAA
Found at i:39148429 original size:19 final size:19
Alignment explanation
Indices: 39148379--39148417 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
39148369 TTTCAGGTAG
39148379 ATCAATTACTCAATTATAT
1 ATCAATTACTCAATTATAT
39148398 ATCAATTACTCAATTATAT
1 ATCAATTACTCAATTATAT
39148417 A
1 A
39148418 CATTTATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (19 bp):
ATCAATTACTCAATTATAT
Found at i:39150312 original size:36 final size:36
Alignment explanation
Indices: 39150272--39150392 Score: 154
Period size: 36 Copynumber: 3.4 Consensus size: 36
39150262 GCTGGTACAC
*
39150272 CTGAAACACACCAGATGCACATAAAAGCTAATCTAT
1 CTGAAACACACCAGATGCACATAAAAGCTAATCCAT
*
39150308 CTGAAACACACCAAATG-ATCATAAAAGCTAATCCAT
1 CTGAAACACACCAGATGCA-CATAAAAGCTAATCCAT
* * * * *
39150344 CTGAAACACACCAGATGCTCATAAGAGTTAATACAA
1 CTGAAACACACCAGATGCACATAAAAGCTAATCCAT
*
39150380 CTAAAACACACCA
1 CTGAAACACACCA
39150393 AAAACTGGGA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
35 1 0.01
36 73 0.99
ACGTcount: A:0.46, C:0.26, G:0.10, T:0.18
Consensus pattern (36 bp):
CTGAAACACACCAGATGCACATAAAAGCTAATCCAT
Found at i:39151210 original size:16 final size:17
Alignment explanation
Indices: 39151189--39151221 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
39151179 CCTTGTTGCA
39151189 ACAATT-TTAAAAACAT
1 ACAATTATTAAAAACAT
39151205 ACAATTCATTAAAAACA
1 ACAATT-ATTAAAAACA
39151222 GGGCGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (17 bp):
ACAATTATTAAAAACAT
Found at i:39161220 original size:16 final size:16
Alignment explanation
Indices: 39161199--39161232 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
39161189 TTGTGTCGTA
*
39161199 ATTTACGAATTTCTTC
1 ATTTACGAAGTTCTTC
39161215 ATTTACGAAGTTCTTC
1 ATTTACGAAGTTCTTC
39161231 AT
1 AT
39161233 AAAAGCCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (16 bp):
ATTTACGAAGTTCTTC
Found at i:39167443 original size:39 final size:41
Alignment explanation
Indices: 39167348--39167531 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
39167338 TTGAATGATG
*
39167348 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
39167387 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
39167427 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
39167466 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
39167506 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39167532 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:39167483 original size:79 final size:81
Alignment explanation
Indices: 39167348--39167531 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
39167338 TTGAATGATG
39167348 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
39167411 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
39167426 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
39167487 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
39167506 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39167532 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:39167553 original size:79 final size:79
Alignment explanation
Indices: 39167400--39167564 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
39167390 GGACTAAGAT
* ** *
39167400 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
39167465 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
39167479 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
39167541 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
39167558 CCGAAGG
1 CCGAAGG
39167565 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:39171082 original size:47 final size:47
Alignment explanation
Indices: 39171019--39171272 Score: 384
Period size: 47 Copynumber: 5.4 Consensus size: 47
39171009 CAGCCAAGAC
*
39171019 AGTGAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39171066 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39171113 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAAGGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39171160 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
39171207 AGTGTATATATGTGA-AAGGGCCGAGTGGCCAACGAGATGGATGTGAA
1 AGTGTATATATGTGATAA-GGCCTAATGGCCGATGTGATGAATGTGAA
* *
39171254 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
39171273 TCCCGAAGGG
Statistics
Matches: 190, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 2 0.01
47 186 0.98
48 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:39171447 original size:37 final size:37
Alignment explanation
Indices: 39171395--39171469 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
39171385 GCTCTAAAGG
* *
39171395 CCCGATGACTACGTGT-GAGAATTTTGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAG-ATTATGTCCGGGTAAGA
*
39171432 CCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
39171469 C
1 C
39171470 TTCGTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 31 0.91
38 3 0.09
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
Found at i:39173388 original size:44 final size:42
Alignment explanation
Indices: 39173242--39173396 Score: 174
Period size: 43 Copynumber: 3.6 Consensus size: 42
39173232 CTCGTACAAT
* *
39173242 GCCAACGTCCCGGACGTGGTCTTACATGT-AATCAAATATCGAC
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAATC-AA-ATCGAC
*
39173285 GCC-ACTGTCCCAGACAG-GGTCTTACACG-AAATCAAATACGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAAAT-CGAC
*
39173327 GCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAAGTCGAC
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TCGAC
*
39173371 GCCAACGTCCCAAACGTGGTCTTACA
1 GCCAACGTCCCAGACGTGGTCTTACA
39173397 TGATAAAAGA
Statistics
Matches: 96, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
41 3 0.03
42 29 0.30
43 33 0.34
44 30 0.31
45 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (42 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATCGAC
Found at i:39174129 original size:17 final size:18
Alignment explanation
Indices: 39174104--39174137 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
39174094 AGGATACTGT
*
39174104 GTAACAATTA-CAAAAAC
1 GTAAAAATTATCAAAAAC
39174121 GTAAAAATTATCAAAAA
1 GTAAAAATTATCAAAAA
39174138 TTGAACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (18 bp):
GTAAAAATTATCAAAAAC
Found at i:39176736 original size:40 final size:40
Alignment explanation
Indices: 39176699--39177563 Score: 1558
Period size: 40 Copynumber: 21.6 Consensus size: 40
39176689 GCTACTCGTT
* * *
39176699 CAAACGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
39176739 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39176779 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39176819 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39176859 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39176899 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39176939 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39176979 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39177019 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39177059 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39177099 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39177139 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39177179 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39177219 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39177259 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39177299 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39177339 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39177379 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
39177419 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
39177459 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
39177498 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39177539 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39177564 CATCATTCAA
Statistics
Matches: 806, Mismatches: 14, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
38 2 0.00
39 33 0.04
40 758 0.94
41 13 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39179759 original size:18 final size:18
Alignment explanation
Indices: 39179719--39179761 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
39179709 ATGCCGAAAA
*
39179719 TACTT-AGACATATTAAT
1 TACTTAAGACACATTAAT
39179736 TAACTTAAGACACATTAAT
1 T-ACTTAAGACACATTAAT
39179755 TACTTAA
1 TACTTAA
39179762 ACTAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (18 bp):
TACTTAAGACACATTAAT
Found at i:39179770 original size:18 final size:19
Alignment explanation
Indices: 39179720--39179771 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
39179710 TGCCGAAAAT
*
39179720 ACTT-AGACATATTAATTA
1 ACTTAAGACAAATTAATTA
*
39179738 ACTTAAGACACATTAATT-
1 ACTTAAGACAAATTAATTA
39179756 ACTTAA-ACTAAATTAA
1 ACTTAAGAC-AAATTAA
39179772 CTAATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 2 0.07
18 16 0.53
19 12 0.40
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (19 bp):
ACTTAAGACAAATTAATTA
Found at i:39190938 original size:14 final size:14
Alignment explanation
Indices: 39190919--39190974 Score: 85
Period size: 14 Copynumber: 4.0 Consensus size: 14
39190909 GACCAATTCA
**
39190919 TTCATACCCCTTCG
1 TTCATACCATTTCG
*
39190933 TTCATACCATTTCA
1 TTCATACCATTTCG
39190947 TTCATACCATTTCG
1 TTCATACCATTTCG
39190961 TTCATACCATTTCG
1 TTCATACCATTTCG
39190975 ACCATTCCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.21, C:0.32, G:0.05, T:0.41
Consensus pattern (14 bp):
TTCATACCATTTCG
Found at i:39190950 original size:28 final size:28
Alignment explanation
Indices: 39190910--39190973 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
39190900 ACCTAAACCG
* *
39190910 ACCAATTCATTCATACCCCTTCGTTCAT
1 ACCATTTCATTCATACCACTTCGTTCAT
*
39190938 ACCATTTCATTCATACCATTTCGTTCAT
1 ACCATTTCATTCATACCACTTCGTTCAT
39190966 ACCATTTC
1 ACCATTTC
39190974 GACCATTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.25, C:0.33, G:0.03, T:0.39
Consensus pattern (28 bp):
ACCATTTCATTCATACCACTTCGTTCAT
Found at i:39194277 original size:42 final size:41
Alignment explanation
Indices: 39194162--39194277 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 41
39194152 TGAAAACAAA
* *
39194162 TCACCGGTA-TAAACCTGCTAGGCA-AAAGCCTGA-ATCAC
1 TCACCGGCACTAAGCCTGCTAGGCACAAAGCCTGATATCAC
* * * * * * *
39194200 ACACCGGCAC-AAGGCCTGCTAGACTCGAAGTCTGATATTTAT
1 TCACCGGCACTAA-GCCTGCTAGGCACAAAGCCTGATA-TCAC
39194242 TCACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAT
1 TCACCGGCACTAAGCCTGCTAGGCACAAAGCCTGAT
39194278 GAAAGTCACC
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
38 9 0.16
39 9 0.16
40 7 0.12
41 1 0.02
42 30 0.52
43 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (41 bp):
TCACCGGCACTAAGCCTGCTAGGCACAAAGCCTGATATCAC
Found at i:39197989 original size:14 final size:13
Alignment explanation
Indices: 39197969--39198000 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
39197959 AATATTTAAC
39197969 TTGTTCTTAATTA
1 TTGTTCTTAATTA
39197982 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
39197996 TTGTT
1 TTGTT
39198001 TTGATACCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:39199350 original size:71 final size:71
Alignment explanation
Indices: 39199197--39199381 Score: 212
Period size: 71 Copynumber: 2.6 Consensus size: 71
39199187 ACCTGCATTT
* * * *
39199197 GAGCTACTCACGGGTCTGTACACAAAGTTAGCACCCGGACCCCAAAGCATTATCATGTAATGCCC
1 GAGCTACTCAC-GGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTAACATGTAATGCCC
**
39199262 GCTCATT
65 GCTCAGC
* * *
39199269 GAGCTACTCACAGGTTTATACACAAAGTCAG-ACCCAGACCCCAAAGTATTAACATG-ATATGCT
1 GAGCTACTCAC-GGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTAACATGTA-ATGCC
39199332 CGCTCAGC
64 CGCTCAGC
* * *
39199340 GAGTTACTCACGAGTTTATACAAAAAGTCAGTACCCGGACCC
1 GAGCTACTCACG-GTTTATACACAAAGTCAGCACCCGGACCC
39199382 ACATTACATA
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
70 2 0.02
71 59 0.61
72 36 0.37
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (71 bp):
GAGCTACTCACGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTAACATGTAATGCCCG
CTCAGC
Found at i:39205696 original size:28 final size:28
Alignment explanation
Indices: 39205656--39205721 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
39205646 GCTCAATAAG
39205656 AGTTAATTTCTATTTTATTCAGCCTCAA
1 AGTTAATTTCTATTTTATTCAGCCTCAA
39205684 AGTTAATTTCTATTTTATTCAGCCTCAA
1 AGTTAATTTCTATTTTATTCAGCCTCAA
39205712 A-TTCAATTTC
1 AGTT-AATTTC
39205722 CACAATTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 2 0.05
28 35 0.95
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (28 bp):
AGTTAATTTCTATTTTATTCAGCCTCAA
Found at i:39213592 original size:30 final size:30
Alignment explanation
Indices: 39213528--39213600 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
39213518 CATGGCCATG
* * *
39213528 TGGCCATCCCGTGGGGATCCCATTGCTGTG
1 TGGCCAGCCCGTGGGGATCCCATGGCTGTA
*
39213558 TGGCCAGCTCGTGGGGATCCCATGG-TCGTA
1 TGGCCAGCCCGTGGGGATCCCATGGCT-GTA
39213588 TGGCCAGCCCGTG
1 TGGCCAGCCCGTG
39213601 TAGAATTCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.11, C:0.30, G:0.36, T:0.23
Consensus pattern (30 bp):
TGGCCAGCCCGTGGGGATCCCATGGCTGTA
Found at i:39213935 original size:33 final size:33
Alignment explanation
Indices: 39213886--39214001 Score: 144
Period size: 33 Copynumber: 3.5 Consensus size: 33
39213876 ATGGACTTTT
* * * *
39213886 CCTTTTCTAGTTGTACATTCGAGGTGCACATTC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* *
39213919 CCTTTTCAAGTGGTACACACGAAGTGCACATAC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
39213952 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
39213985 CCTTTTCAAG-TGTACAC
1 CCTTTTCAAGTTGTACAC
39214002 ATATAGTGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
32 7 0.10
33 64 0.90
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
Found at i:39214021 original size:32 final size:31
Alignment explanation
Indices: 39213909--39214028 Score: 107
Period size: 33 Copynumber: 3.7 Consensus size: 31
39213899 TACATTCGAG
* *
39213909 GTGCACATTCCCTTTTCAAGTGGTACACACGAA
1 GTGCACATACCCTTTTCAAGT-GTACACA-TAA
*
39213942 GTGCACATACCCTTTTCAATTTGTACAC-TCAAA
1 GTGCACATACCCTTTTCAA-GTGTACACAT--AA
*
39213975 GTGCACATAACCTTTTCAAGTGTACACATATA
1 GTGCACATACCCTTTTCAAGTGTACACATA-A
* ** *
39214007 GTGTACATTTCCTTTACAAGTG
1 GTGCACATACCCTTTTCAAGTG
39214029 GTATACACGT
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
31 1 0.01
32 26 0.36
33 45 0.62
34 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (31 bp):
GTGCACATACCCTTTTCAAGTGTACACATAA
Found at i:39214041 original size:23 final size:23
Alignment explanation
Indices: 39214015--39214059 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
39214005 TAGTGTACAT
39214015 TTCCTTTACA-AGTGGTATACACG
1 TTCCTTTACATA-TGGTATACACG
*
39214038 TTCCTTTTCATATGGTATACAC
1 TTCCTTTACATATGGTATACAC
39214060 AAAGTATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (23 bp):
TTCCTTTACATATGGTATACACG
Found at i:39220297 original size:384 final size:384
Alignment explanation
Indices: 39219588--39220360 Score: 1546
Period size: 384 Copynumber: 2.0 Consensus size: 384
39219578 TGAGTAATTT
39219588 ATTTCTTTCAGAACTCAGATTGAATGAATTCCCAAGTAATATTTTCTTTTGGAACCACTGAACTT
1 ATTTCTTTCAGAACTCAGATTGAATGAATTCCCAAGTAATATTTTCTTTTGGAACCACTGAACTT
39219653 ACTGTTTTCCACCAGTGATAAGCCGTGTCCTTTAACTAAGATACAGCACATTTCAAGCATTCAGC
66 ACTGTTTTCCACCAGTGATAAGCCGTGTCCTTTAACTAAGATACAGCACATTTCAAGCATTCAGC
39219718 TGGAGTACATGATAATTCGTCCAACACTCGGGTAGTATTTTCCAGCCAGAATACAGCTTTTTTCG
131 TGGAGTACATGATAATTCGTCCAACACTCGGGTAGTATTTTCCAGCCAGAATACAGCTTTTTTCG
39219783 GATCATCTTCAATTGTAGCTCTAAATTCCTCAGCTCTATATTTTCTGAGTTTATCCACTGGAGCC
196 GATCATCTTCAATTGTAGCTCTAAATTCCTCAGCTCTATATTTTCTGAGTTTATCCACTGGAGCC
39219848 TTACCAATTTTAACAATTTCAATACCCAATGGTCTCTCAAGAACAATCTAAGTATTTGGTGGGGG
261 TTACCAATTTTAACAATTTCAATACCCAATGGTCTCTCAAGAACAATCTAAGTATTTGGTGGGGG
39219913 GTTGTGATTGGAAAGCAGTTAAATTTCTTCTCAAATATTCAGAAAACCATTTATCCAAC
326 GTTGTGATTGGAAAGCAGTTAAATTTCTTCTCAAATATTCAGAAAACCATTTATCCAAC
39219972 ATTTCTTTCAGAACTCAGATTGAATGAATTCCCAAGTAATATTTTCTTTTGGAACCACTGAACTT
1 ATTTCTTTCAGAACTCAGATTGAATGAATTCCCAAGTAATATTTTCTTTTGGAACCACTGAACTT
39220037 ACTGTTTTCCACCAGTGATAAGCCGTGTCCTTTAACTAAGATACAGCACATTTCAAGCATTCAGC
66 ACTGTTTTCCACCAGTGATAAGCCGTGTCCTTTAACTAAGATACAGCACATTTCAAGCATTCAGC
39220102 TGGAGTACATGATAATTCGTCCAACACTCGGGTAGTATTTTCCAGCCAGAATACAGCTTTTTTCG
131 TGGAGTACATGATAATTCGTCCAACACTCGGGTAGTATTTTCCAGCCAGAATACAGCTTTTTTCG
39220167 GATCATCTTCAATTGTAGCTCTAAATTCCTCAGCTCTATATTTTCTGAGTTTATCCACTGGAGCC
196 GATCATCTTCAATTGTAGCTCTAAATTCCTCAGCTCTATATTTTCTGAGTTTATCCACTGGAGCC
39220232 TTACCAATTTTAACAATTTCAATACCCAATGGTCTCTCAAGAACAATCTAAGTATTTGGTGGGGG
261 TTACCAATTTTAACAATTTCAATACCCAATGGTCTCTCAAGAACAATCTAAGTATTTGGTGGGGG
39220297 GTTGTGATTGGAAAGCAGTTAAATTTCTTCTCAAATATTCAGAAAACCATTTATCCAAC
326 GTTGTGATTGGAAAGCAGTTAAATTTCTTCTCAAATATTCAGAAAACCATTTATCCAAC
39220356 ATTTC
1 ATTTC
39220361 AAAGAAAGCC
Statistics
Matches: 389, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
384 389 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.34
Consensus pattern (384 bp):
ATTTCTTTCAGAACTCAGATTGAATGAATTCCCAAGTAATATTTTCTTTTGGAACCACTGAACTT
ACTGTTTTCCACCAGTGATAAGCCGTGTCCTTTAACTAAGATACAGCACATTTCAAGCATTCAGC
TGGAGTACATGATAATTCGTCCAACACTCGGGTAGTATTTTCCAGCCAGAATACAGCTTTTTTCG
GATCATCTTCAATTGTAGCTCTAAATTCCTCAGCTCTATATTTTCTGAGTTTATCCACTGGAGCC
TTACCAATTTTAACAATTTCAATACCCAATGGTCTCTCAAGAACAATCTAAGTATTTGGTGGGGG
GTTGTGATTGGAAAGCAGTTAAATTTCTTCTCAAATATTCAGAAAACCATTTATCCAAC
Found at i:39228578 original size:47 final size:47
Alignment explanation
Indices: 39228525--39228937 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
39228515 TTAGGATTCT
39228525 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
39228572 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
39228621 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
39228668 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
39228715 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
39228762 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
39228809 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
39228856 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
39228903 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
39228938 TCCCGAAGGG
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:39232972 original size:21 final size:21
Alignment explanation
Indices: 39232948--39232990 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
39232938 TTAATTAATT
39232948 ATCGAAACATTAAAATTTTTC
1 ATCGAAACATTAAAATTTTTC
*
39232969 ATCGAAACATTAACATTTTTC
1 ATCGAAACATTAAAATTTTTC
39232990 A
1 A
39232991 ACAAAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (21 bp):
ATCGAAACATTAAAATTTTTC
Found at i:39232997 original size:21 final size:21
Alignment explanation
Indices: 39232952--39233002 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
39232942 TTAATTATCG
* *
39232952 AAACATTAAAATTTTTCATCG
1 AAACATTAAAATTTTTCAACA
*
39232973 AAACATTAACATTTTTCAACA
1 AAACATTAAAATTTTTCAACA
*
39232994 AAACTTTAA
1 AAACATTAA
39233003 TACCACCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (21 bp):
AAACATTAAAATTTTTCAACA
Found at i:39235303 original size:19 final size:20
Alignment explanation
Indices: 39235270--39235307 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
39235260 CAAGCTGACT
39235270 TTAGCTCAGTTTCAGCTCCC
1 TTAGCTCAGTTTCAGCTCCC
39235290 TTAGCTCA-TTTCAGCTCC
1 TTAGCTCAGTTTCAGCTCC
39235308 AATCAGCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.16, C:0.34, G:0.13, T:0.37
Consensus pattern (20 bp):
TTAGCTCAGTTTCAGCTCCC
Found at i:39235315 original size:20 final size:20
Alignment explanation
Indices: 39235272--39235317 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
39235262 AGCTGACTTT
* *
39235272 AGCTCAGTTTCAGCTCCCTT
1 AGCTCAGTTTCAGCTCCATC
39235292 AGCTCA-TTTCAGCTCCAATC
1 AGCTCAGTTTCAGCTCC-ATC
39235312 AGCTCA
1 AGCTCA
39235318 CTTGAGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.30
Consensus pattern (20 bp):
AGCTCAGTTTCAGCTCCATC
Found at i:39242091 original size:10 final size:11
Alignment explanation
Indices: 39242076--39242104 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
39242066 TAGCTGGTTG
39242076 AGCTCAAT-TT
1 AGCTCAATCTT
39242086 AGCTCAATCTT
1 AGCTCAATCTT
39242097 AGCTCAAT
1 AGCTCAAT
39242105 GAGCTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (11 bp):
AGCTCAATCTT
Found at i:39242118 original size:20 final size:21
Alignment explanation
Indices: 39242076--39242120 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
39242066 TAGCTGGTTG
*
39242076 AGCTCAATTTAGCTCAATCTT
1 AGCTCAATTGAGCTCAATCTT
* *
39242097 AGCTCAA-TGAGCTCATTTTT
1 AGCTCAATTGAGCTCAATCTT
39242117 AGCT
1 AGCT
39242121 TACTTTAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (21 bp):
AGCTCAATTGAGCTCAATCTT
Found at i:39242267 original size:36 final size:39
Alignment explanation
Indices: 39242221--39242298 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 39
39242211 AAATCTGGAC
*
39242221 AAATAATTAATTAA-GTG-TTTTAATTATGTCT-AAATT
1 AAATAATTAATTAATGTGTTTTTAAATATGTCTGAAATT
*
39242257 AAATACTTAATTAATTGTGTTTTTTAAATATGTCTGAAATT
1 AAATAATTAATTAA-TGTG-TTTTTAAATATGTCTGAAATT
39242298 A
1 A
39242299 TTACAAGGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
38 3 0.09
40 13 0.37
41 6 0.17
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (39 bp):
AAATAATTAATTAATGTGTTTTTAAATATGTCTGAAATT
Found at i:39243656 original size:11 final size:10
Alignment explanation
Indices: 39243629--39243655 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
39243619 AAGTTCGTTA
39243629 TAAAAAATCG
1 TAAAAAATCG
39243639 TAAAAAATCG
1 TAAAAAATCG
39243649 TAAAAAA
1 TAAAAAA
39243656 AAAAGTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (10 bp):
TAAAAAATCG
Found at i:39245563 original size:10 final size:11
Alignment explanation
Indices: 39245548--39245576 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
39245538 CAGCTGGTTG
39245548 AGCTCAAT-TT
1 AGCTCAATCTT
39245558 AGCTCAATCTT
1 AGCTCAATCTT
39245569 AGCTCAAT
1 AGCTCAAT
39245577 GAGCTCGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (11 bp):
AGCTCAATCTT
Found at i:39247471 original size:59 final size:59
Alignment explanation
Indices: 39247327--39247744 Score: 480
Period size: 59 Copynumber: 7.1 Consensus size: 59
39247317 AATCTTTAGC
* * * * * * *
39247327 TGGGAATGTTAATCCGCGAGCTATTTTATACTTCAGAAAAATCTTGCATAGATAATA-AAT
1 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAG-AAAATTTTG-AAAGATAACATAGT
* * * * * * * * * *
39247387 TGAGGATGTGAATTCGCAAGCTGTTTCATACTTAAGAAAATTTTGAAATATAACACAGC
1 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGT
* * * *
39247446 TAGGGATGTTACTCCGTGAGTTGTTTTATA-TTGAAGAAAATTTTGAAAGATAACATAGT
1 TGGGGATGTTACTCCGCGAGCTATTTTATACTT-AAGAAAATTTTGAAAGATAACATAGT
39247505 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGT
1 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGT
* * * * * **
39247564 TGGGGATGTTACTTCGCGAGCTATTTTATACTTAAGGAATTTTTAAAAGATAACACAAC
1 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGT
* ** *
39247623 TAGTAATGTTACTCCGGGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGT
1 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGT
* * *
39247682 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGGTAGCATAGC
1 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGT
39247741 TGGG
1 TGGG
39247745 ATTTTTTAAT
Statistics
Matches: 300, Mismatches: 55, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
58 9 0.03
59 261 0.87
60 30 0.10
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (59 bp):
TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGT
Found at i:39247638 original size:177 final size:177
Alignment explanation
Indices: 39247327--39247744 Score: 561
Period size: 177 Copynumber: 2.4 Consensus size: 177
39247317 AATCTTTAGC
* * * * * * * *
39247327 TGGGAATGTTAATCCGCGAGCTATTTTATACTTCAGAAAAATCTTGCATAGATAATA-AATTGAG
1 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAG-AAAATTTTG-AAAGATAACATAGTTGGG
* * * * *
39247391 GATGTGAATTCGCAAGCTGTTTCATACTTAAGAAAATTTTGAAATATAACACAGCTAGGGATGTT
64 GATGTGAATTCGCAAGCTATTTCATACTTAAGAAAATTTTAAAAGATAACACAACTAGGAATGTT
* * *
39247456 ACTCCGTGAGTTGTTTTATA-TTGAAGAAAATTTTGAAAGATAACATAGT
129 ACTCCGGGAGCTATTTTATACTT-AAGAAAATTTTGAAAGATAACATAGT
39247505 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGTTGGGGA
1 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGTTGGGGA
* * * * * * *
39247570 TGTTACTTCGCGAGCTATTTTATACTTAAGGAATTTTTAAAAGATAACACAACTAGTAATGTTAC
66 TGTGAATTCGCAAGCTATTTCATACTTAAGAAAATTTTAAAAGATAACACAACTAGGAATGTTAC
39247635 TCCGGGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGT
131 TCCGGGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGT
* * *
39247682 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGGTAGCATAGCTGGG
1 TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGTTGGG
39247745 ATTTTTTAAT
Statistics
Matches: 212, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
176 8 0.04
177 169 0.80
178 35 0.17
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (177 bp):
TGGGGATGTTACTCCGCGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGTTGGGGA
TGTGAATTCGCAAGCTATTTCATACTTAAGAAAATTTTAAAAGATAACACAACTAGGAATGTTAC
TCCGGGAGCTATTTTATACTTAAGAAAATTTTGAAAGATAACATAGT
Found at i:39248005 original size:69 final size:69
Alignment explanation
Indices: 39247815--39248017 Score: 199
Period size: 69 Copynumber: 2.9 Consensus size: 69
39247805 CTACAACTAA
* * * * * * * * *
39247815 GAGCTTCACTCTCACTAACTATGTTGGAGGTTGCGGCTCTTCTCCTACGAGCCTAAATATGACAG
1 GAGCTTTACTCTCGCTAACTAAGTTGAAGATTGCGGCTCTTCACCTGCAAGCCTTAATATGACAG
39247880 TTGG
66 TTGG
* * * * * * * * *
39247884 GAGCTTTGCTCTTGCTAACTAAGTTGAAGGTTGTGGTTTTTCGCCTGCAAGCCTTCATATAACAG
1 GAGCTTTACTCTCGCTAACTAAGTTGAAGATTGCGGCTCTTCACCTGCAAGCCTTAATATGACAG
39247949 TTGG
66 TTGG
* ** * *
39247953 GAGCTTTACTCTCGTTAACTGTGTTGAAGATTGCGGCTCTTCACTTGTAAGCCTTAATATGACAG
1 GAGCTTTACTCTCGCTAACTAAGTTGAAGATTGCGGCTCTTCACCTGCAAGCCTTAATATGACAG
39248018 CTAGGATTTG
Statistics
Matches: 105, Mismatches: 29, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
69 105 1.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (69 bp):
GAGCTTTACTCTCGCTAACTAAGTTGAAGATTGCGGCTCTTCACCTGCAAGCCTTAATATGACAG
TTGG
Found at i:39251008 original size:22 final size:22
Alignment explanation
Indices: 39250980--39251022 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
39250970 ACACCAAAAC
*
39250980 AGGCCTTTAGAGGCACTTTTTT
1 AGGCCTTTAGAGACACTTTTTT
*
39251002 AGGCCTTTAGCGACACTTTTT
1 AGGCCTTTAGAGACACTTTTT
39251023 AGCGCCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (22 bp):
AGGCCTTTAGAGACACTTTTTT
Found at i:39251155 original size:42 final size:43
Alignment explanation
Indices: 39251091--39251229 Score: 154
Period size: 43 Copynumber: 3.3 Consensus size: 43
39251081 ATAAAAAAAT
* * *
39251091 GCCGCTAAAGACCATGATCTTTAGCGGCG-TTTTTTCACAAAC
1 GCCGCTATAGACCATGACCTTTAGCGGCGATTTTCTCACAAAC
* * * *
39251133 GCCGCTATAGACCATGACCTTTAGCAGCGCTTCTCCCACAAAC
1 GCCGCTATAGACCATGACCTTTAGCGGCGATTTTCTCACAAAC
** * * *
39251176 GCCGCTATAGGTCATGACTTTTAGCGGTGATTTTCTCACAAAT
1 GCCGCTATAGACCATGACCTTTAGCGGCGATTTTCTCACAAAC
*
39251219 GCCACTATAGA
1 GCCGCTATAGA
39251230 GCAGATATTT
Statistics
Matches: 79, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 26 0.33
43 53 0.67
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
GCCGCTATAGACCATGACCTTTAGCGGCGATTTTCTCACAAAC
Found at i:39251341 original size:17 final size:18
Alignment explanation
Indices: 39251321--39251359 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
39251311 AAAACATATC
39251321 TTTTAAAAAAATATTT-T
1 TTTTAAAAAAATATTTAT
*
39251338 TTTT-AAATAATATTTAT
1 TTTTAAAAAAATATTTAT
39251355 TTTTA
1 TTTTA
39251360 TGATAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTAAAAAAATATTTAT
Found at i:39251365 original size:18 final size:18
Alignment explanation
Indices: 39251321--39251375 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
39251311 AAAACATATC
*
39251321 TTTTAAAAAAATATTT-T
1 TTTTAAATAAATATTTAT
39251338 TTTTAAAT-AATATTTAT
1 TTTTAAATAAATATTTAT
*
39251355 TTTTATGATAAATATTATAT
1 TTTTA-AATAAATATT-TAT
39251375 T
1 T
39251376 ATGTTTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 7 0.22
17 13 0.41
18 2 0.06
19 6 0.19
20 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TTTTAAATAAATATTTAT
Found at i:39251382 original size:24 final size:23
Alignment explanation
Indices: 39251341--39251408 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
39251331 ATATTTTTTT
*
39251341 TAAATAATATTTATTTTT-ATGA
1 TAAATAATATTTATTTTTAAGGA
*
39251363 TAAATATTATATTATGTTTTAAGGA
1 TAAATAATAT-TTAT-TTTTAAGGA
* *
39251388 TAAATAAAAATTATTATTTAA
1 TAAATAATATTTATT-TTTAA
39251409 ATTAAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
22 9 0.24
23 5 0.14
24 13 0.35
25 10 0.27
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (23 bp):
TAAATAATATTTATTTTTAAGGA
Found at i:39251389 original size:25 final size:22
Alignment explanation
Indices: 39251341--39251394 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 22
39251331 ATATTTTTTT
*
39251341 TAAATAATATTTATTTTTATGA
1 TAAATAATATTTATTTTTAGGA
*
39251363 TAAATATTATATTATGTTTTAAGGA
1 TAAATAATAT-TTAT-TTTT-AGGA
39251388 TAAATAA
1 TAAATAA
39251395 AAATTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 9 0.35
23 4 0.15
24 4 0.15
25 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TAAATAATATTTATTTTTAGGA
Found at i:39251487 original size:14 final size:14
Alignment explanation
Indices: 39251455--39251485 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
39251445 AATATAAATA
39251455 TAAATTTATGAATT
1 TAAATTTATGAATT
39251469 TAAATTTA-GAATT
1 TAAATTTATGAATT
39251482 TAAA
1 TAAA
39251486 ATAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (14 bp):
TAAATTTATGAATT
Found at i:39251631 original size:43 final size:43
Alignment explanation
Indices: 39251583--39251673 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
39251573 ACATATGCAA
* * * *
39251583 GGTAATAAAATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
*
39251626 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
39251669 -GTAAT
1 GGTAAT
39251674 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:39255730 original size:7 final size:7
Alignment explanation
Indices: 39255718--39255889 Score: 69
Period size: 7 Copynumber: 23.7 Consensus size: 7
39255708 CTAATTAATT
39255718 TAAACCC
1 TAAACCC
39255725 TAAACCC
1 TAAACCC
* *
39255732 TTAACCTT
1 TAAACC-C
**
39255740 TATCCCC
1 TAAACCC
39255747 TAAACCC
1 TAAACCC
* *
39255754 TAAATCA
1 TAAACCC
* *
39255761 TAAAACA
1 TAAACCC
39255768 TAAACACC
1 TAAAC-CC
*
39255776 TAACCCC
1 TAAACCC
*
39255783 TAAATCC
1 TAAACCC
39255790 TAAACCC
1 TAAACCC
39255797 TTAAACCCC
1 -TAAA-CCC
**
39255806 TAAACTT
1 TAAACCC
39255813 TAAACTCC
1 TAAAC-CC
39255821 --AACCC
1 TAAACCC
*
39255826 TTAAACCG
1 -TAAACCC
**
39255834 TAAACTA
1 TAAACCC
**
39255841 TAAACAA
1 TAAACCC
*
39255848 TAATCCC
1 TAAACCC
39255855 TAAACCC
1 TAAACCC
*
39255862 ATAATCCC
1 -TAAACCC
*
39255870 TAAAACCA
1 T-AAACCC
*
39255878 TAATCCC
1 TAAACCC
39255885 TAAAC
1 TAAAC
39255890 TATAATGATA
Statistics
Matches: 120, Mismatches: 35, Indels: 20
0.69 0.20 0.11
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 81 0.68
8 31 0.26
9 3 0.03
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:39255867 original size:15 final size:15
Alignment explanation
Indices: 39255847--39255889 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
39255837 ACTATAAACA
39255847 ATAATCCCTAAACCC
1 ATAATCCCTAAACCC
*
39255862 ATAATCCCTAAAACC
1 ATAATCCCTAAACCC
39255877 ATAATCCCTAAAC
1 ATAATCCCTAAAC
39255890 TATAATGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAATCCCTAAACCC
Found at i:39257253 original size:124 final size:123
Alignment explanation
Indices: 39257097--39257360 Score: 393
Period size: 124 Copynumber: 2.1 Consensus size: 123
39257087 GTAGCACTTT
* * * * *
39257097 TTCAAAAACGCCACTAAAGGCCTGAGCATTAGCGGAGCTTTTTAAAAAACGCCGCTAAAGACCCG
1 TTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGAGCTTCTTAAAAAACGCCGCTAAAGACCAG
* * *
39257162 AGCATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAAGACCCGAGCATTAGCGGCGCTTC
66 AGCATTAGAGGCGCTTCTTCAAAAACGCCGCT-AAAGACCCGAGCATTAGCGGCGCTTC
* * * *
39257221 TTCAAAAACTCCGCTAAAGACCCGAGCATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGACCAG
1 TTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGAGCTTCTTAAAAAACGCCGCTAAAGACCAG
*
39257286 AGCATTAGAGGCGCTTCTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTC
66 AGCATTAGAGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTC
*
39257344 TTTAAAAACGCCGCTAA
1 TTCAAAAACGCCGCTAA
39257361 CGCCCCGAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
123 40 0.32
124 85 0.68
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (123 bp):
TTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGAGCTTCTTAAAAAACGCCGCTAAAGACCAG
AGCATTAGAGGCGCTTCTTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTC
Found at i:39257368 original size:41 final size:41
Alignment explanation
Indices: 39257097--39257360 Score: 393
Period size: 41 Copynumber: 6.4 Consensus size: 41
39257087 GTAGCACTTT
* * * * *
39257097 TTCAAAAACGCCACTAAAGGCCTGAGCATTAGCGGAGCTTT
1 TTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTC
* *
39257138 TTAAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTT
1 TTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTC
*
39257179 TTCAAAAATGCCGCTAAAAGACCCGAGCATTAGCGGCGCTTC
1 TTCAAAAACGCCGCT-AAAGACCCGAGCATTAGCGGCGCTTC
*
39257221 TTCAAAAACTCCGCTAAAGACCCGAGCATTAGCGGCGCTTC
1 TTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTC
* * *
39257262 TTCAAAAATGCCGCTAAAGACCAGAGCATTAGAGGCGCTTC
1 TTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTC
*
39257303 TTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTC
1 TTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTC
*
39257344 TTTAAAAACGCCGCTAA
1 TTCAAAAACGCCGCTAA
39257361 CGCCCCGAAA
Statistics
Matches: 203, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 165 0.81
42 38 0.19
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (41 bp):
TTCAAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTC
Found at i:39261281 original size:41 final size:41
Alignment explanation
Indices: 39261214--39261324 Score: 168
Period size: 41 Copynumber: 2.7 Consensus size: 41
39261204 TTAATTATTT
* *
39261214 CCCTAAATTTCACATACGTGCCCCTGTTTGTACTTCGGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* * *
39261255 CCTTGAATTGCACATGCGTGCCCCTGTTTGTACTTTGGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
*
39261296 CCCTGAATAGCACATACGTGCCCCTGTTT
1 CCCTGAATTGCACATACGTGCCCCTGTTT
39261325 ACATTCTGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
Found at i:39261300 original size:20 final size:20
Alignment explanation
Indices: 39261234--39261300 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
39261224 CACATACGTG
*
39261234 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTTGGTA
* * * * *
39261254 CCCTTGAATTGCAC-ATGCGTG
1 CCCCTG-TTTGTACTTTG-GTA
39261275 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
39261295 CCCCTG
1 CCCCTG
39261301 AATAGCACAT
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.12, C:0.31, G:0.21, T:0.36
Consensus pattern (20 bp):
CCCCTGTTTGTACTTTGGTA
Found at i:39262936 original size:50 final size:51
Alignment explanation
Indices: 39262857--39262998 Score: 171
Period size: 50 Copynumber: 2.8 Consensus size: 51
39262847 GTGAAGTTGC
*
39262857 TAGGTCACATGTGTAGTACTATGTACAGGCTACTACGTGTAGCAAAAT-G-A
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAAAATAGCA
* * * * * *
39262907 TAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAAAATAGCA
* * *
39262958 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA
39262999 TCGGATGAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 4 0.05
50 38 0.49
51 35 0.45
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAAAATAGCA
Found at i:39262980 original size:51 final size:51
Alignment explanation
Indices: 39262860--39263045 Score: 171
Period size: 51 Copynumber: 3.7 Consensus size: 51
39262850 AAGTTGCTAG
* * * * * * *
39262860 GTCACATGTGTAGTACTATGTACAGGCTACTACGTGTAGCAAAATG-ATA-G
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTA-CCAGATGAAAATC
* ***
39262910 GTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT-AGCTTC
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATGAAAATC
* * * * *
39262960 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATC
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATGAAAATC
* *
39263012 GTCACATGTGTAGTACTATGCGTAGGCTACTATG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTATG
39263046 TGAACCGGGT
Statistics
Matches: 109, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
49 4 0.04
50 35 0.32
51 66 0.61
52 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATGAAAATC
Found at i:39267287 original size:17 final size:17
Alignment explanation
Indices: 39267265--39267304 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
39267255 CACCAGATGA
*
39267265 CACACGACCGTGTGCCT
1 CACACGACCATGTGCCT
* *
39267282 CACACGATCATGTTCCT
1 CACACGACCATGTGCCT
39267299 CACACG
1 CACACG
39267305 GCTGAATCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.40, G:0.17, T:0.20
Consensus pattern (17 bp):
CACACGACCATGTGCCT
Found at i:39269644 original size:75 final size:75
Alignment explanation
Indices: 39269521--39269727 Score: 360
Period size: 75 Copynumber: 2.8 Consensus size: 75
39269511 TAACTGTTAT
* * * * * *
39269521 CGGTGGATTCAACACTTAGCAACTACTAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGGTTCAGCACTTAGCAACCACCAATAATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
39269586 ATTTAAGATA
66 ATTTAAGATA
39269596 CGGTGGGTTCAGCACTTAGCAACCACCAATAATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGGTTCAGCACTTAGCAACCACCAATAATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
39269661 ATTTAAGATA
66 ATTTAAGATA
39269671 CGGTGGGTTCAGCACTTAGCAACCACCAATAATTCGGGGAATCAGCACTTAGCAACC
1 CGGTGGGTTCAGCACTTAGCAACCACCAATAATTCGGGGAATCAGCACTTAGCAACC
39269728 TCTCGGGGGA
Statistics
Matches: 126, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 126 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (75 bp):
CGGTGGGTTCAGCACTTAGCAACCACCAATAATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTTAAGATA
Found at i:39269786 original size:102 final size:101
Alignment explanation
Indices: 39269631--39269963 Score: 549
Period size: 102 Copynumber: 3.3 Consensus size: 101
39269621 CCAATAATTC
* **
39269631 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
39269696 CCAATAATTCGGGGAATCAGCACTTAGCAACCTCTCG
66 CCAATAA-TCGGGGAATCAGCACTTAGCAACCCCTCG
39269733 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* * *
39269798 CCAATGAGTCGGGGAATCATCACTTAGCAACCCCTTG
66 CCAAT-AATCGGGGAATCAGCACTTAGCAACCCCTCG
*
39269835 GGGGAATCAGCACTTAGCAACTCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
39269900 CCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAAT-AATCGGGGAATCAGCACTTAGCAACCCCTCG
*
39269937 GGAGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
39269964 TTTATTCACT
Statistics
Matches: 216, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
102 215 1.00
103 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (101 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATAATCGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:39269848 original size:27 final size:28
Alignment explanation
Indices: 39269808--39269861 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
39269798 CCAATGAGTC
*
39269808 GGGGAATCATCACTTAGCAAC-CCCTTG
1 GGGGAATCAGCACTTAGCAACTCCCTTG
39269835 GGGGAATCAGCACTTAGCAACTCCCTT
1 GGGGAATCAGCACTTAGCAACTCCCTT
39269862 CACATTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (28 bp):
GGGGAATCAGCACTTAGCAACTCCCTTG
Found at i:39275648 original size:9 final size:9
Alignment explanation
Indices: 39275636--39275665 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
39275626 TTGAGGAATA
*
39275636 GGAGGGGGT
1 GGAGGAGGT
39275645 GGAGGAGGT
1 GGAGGAGGT
39275654 GGAGGAGGT
1 GGAGGAGGT
39275663 GGA
1 GGA
39275666 ACATTCAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.70, T:0.10
Consensus pattern (9 bp):
GGAGGAGGT
Found at i:39276970 original size:46 final size:45
Alignment explanation
Indices: 39276903--39276997 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 45
39276893 ATATACAACT
*
39276903 CTTTTGCTTCTTTTGTTTCTTTCATATGGAAATAGACTTACTCAG
1 CTTTTGCTTCTTTTGTTTCTTTCATATGGAAATAGACTCACTCAG
39276948 ACTTTTGCTTCTTTTGTTTCTTTCATATGGAAATAGACTCACTCAG
1 -CTTTTGCTTCTTTTGTTTCTTTCATATGGAAATAGACTCACTCAG
39276994 CTTT
1 CTTT
39276998 AATTTCATAT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 4 0.08
46 44 0.92
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (45 bp):
CTTTTGCTTCTTTTGTTTCTTTCATATGGAAATAGACTCACTCAG
Found at i:39277374 original size:75 final size:75
Alignment explanation
Indices: 39277251--39277460 Score: 357
Period size: 75 Copynumber: 2.8 Consensus size: 75
39277241 TAACTGTTAT
* * * * * * *
39277251 CGGTGGATTCAACACTTAGCAACTACTAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGGTTCAGCACTTAGCAACCACCAATAATTCGGGAAATCAGCACTTAGCAACCCCTTTCAC
39277316 ATTTAAGATA
66 ATTTAAGATA
39277326 CGGTGGGTTCAGCACTTAGCAACCACCAATAATTCGGGAAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGGTTCAGCACTTAGCAACCACCAATAATTCGGGAAATCAGCACTTAGCAACCCCTTTCAC
39277391 ATTTAAGATA
66 ATTTAAGATA
39277401 CGGTGGGTTCAGCACTTAGCAACCACCAATAATTCGGGAAATCAGCACTTAGCAACCCCT
1 CGGTGGGTTCAGCACTTAGCAACCACCAATAATTCGGGAAATCAGCACTTAGCAACCCCT
39277461 CGGGGGAATC
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 128 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (75 bp):
CGGTGGGTTCAGCACTTAGCAACCACCAATAATTCGGGAAATCAGCACTTAGCAACCCCTTTCAC
ATTTAAGATA
Found at i:39277376 original size:33 final size:33
Alignment explanation
Indices: 39277334--39277457 Score: 122
Period size: 33 Copynumber: 3.5 Consensus size: 33
39277324 TACGGTGGGT
39277334 TCAGCACTTAGCAACCACCAATAATTCGGGAAA
1 TCAGCACTTAGCAACCACCAATAATTCGGGAAA
* * ***
39277367 TCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGT
1 TCAGCACTTAGCAACCAC---CA-A--T-A-ATTCGG-GAAA
39277409 TCAGCACTTAGCAACCACCAATAATTCGGGAAA
1 TCAGCACTTAGCAACCACCAATAATTCGGGAAA
39277442 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
39277458 CCTCGGGGGA
Statistics
Matches: 72, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
33 34 0.47
34 5 0.07
35 1 0.01
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 1 0.01
41 5 0.07
42 18 0.25
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATAATTCGGGAAA
Found at i:39277516 original size:102 final size:103
Alignment explanation
Indices: 39277365--39277592 Score: 370
Period size: 102 Copynumber: 2.2 Consensus size: 103
39277355 TAATTCGGGA
* **
39277365 AATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCACCAA
1 AATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAA
*
39277430 T-AATTCGGGAAATCAGCACTTAGCAACCCCTC-GGGGG
66 TGAA-TAGGGAAATCAGCACTTAGCAACCCCTCGGGGGG
*
39277467 AATCAGCATTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAA
1 AATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAA
*
39277532 TGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGGGG
66 TGAATAGGGAAATCAGCACTTAGCAACCCCTCGGGGGG
*
39277570 AATCAACACTTAGCAACCCCCTT
1 AATCAGCACTTAGCAACCCCCTT
39277593 TTTATTCAAT
Statistics
Matches: 116, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
102 88 0.76
103 28 0.24
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (103 bp):
AATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAA
TGAATAGGGAAATCAGCACTTAGCAACCCCTCGGGGGG
Found at i:39283762 original size:19 final size:19
Alignment explanation
Indices: 39283740--39283791 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 19
39283730 TTTAATTTCA
39283740 TGAATTTTTATATATTTTT
1 TGAATTTTTATATATTTTT
39283759 TGAA-TTTT-TAT-TTTTT
1 TGAATTTTTATATATTTTT
* *
39283775 TGAGTTTATATATATTT
1 TGAATTTTTATATATTT
39283792 GTGTTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 8 0.29
17 6 0.21
18 7 0.25
19 7 0.25
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TGAATTTTTATATATTTTT
Found at i:39290062 original size:7 final size:7
Alignment explanation
Indices: 39290050--39290078 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
39290040 TGAGAGGCAA
39290050 TGAGTGG
1 TGAGTGG
39290057 TGAGTGG
1 TGAGTGG
39290064 TGAGTGG
1 TGAGTGG
39290071 TGAGTGG
1 TGAGTGG
39290078 T
1 T
39290079 AAGTTGTGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.55, T:0.31
Consensus pattern (7 bp):
TGAGTGG
Found at i:39294743 original size:22 final size:20
Alignment explanation
Indices: 39294691--39294745 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 20
39294681 ATCATTTTCC
39294691 CTTTTC-TCTTTT-CCATTA
1 CTTTTCTTCTTTTCCCATTA
* *
39294709 CTTTTCTTGTTTTCCCATTTT
1 CTTTTCTTCTTTTCCCA-TTA
39294730 CTTTGTCTTCTTTTCC
1 CTTT-TCTTCTTTTCC
39294746 TTGCCGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 6 0.20
19 5 0.17
20 3 0.10
21 6 0.20
22 10 0.33
ACGTcount: A:0.05, C:0.27, G:0.04, T:0.64
Consensus pattern (20 bp):
CTTTTCTTCTTTTCCCATTA
Found at i:39297830 original size:20 final size:20
Alignment explanation
Indices: 39297805--39297890 Score: 113
Period size: 20 Copynumber: 4.3 Consensus size: 20
39297795 GTTCATTAGG
* *
39297805 TGGAAAATGGTTATATGAAA
1 TGGAAATTGGATATATGAAA
39297825 TGGAAATTGGATATATGAAA
1 TGGAAATTGGATATATGAAA
* *
39297845 TGGGAATTTGATATATGAAA
1 TGGAAATTGGATATATGAAA
39297865 TGGAAATTGG-T-TATCGAAA
1 TGGAAATTGGATATAT-GAAA
39297884 TGGAAAT
1 TGGAAAT
39297891 GACATTTGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
18 3 0.05
19 12 0.20
20 44 0.75
ACGTcount: A:0.42, C:0.01, G:0.26, T:0.31
Consensus pattern (20 bp):
TGGAAATTGGATATATGAAA
Found at i:39299878 original size:4 final size:4
Alignment explanation
Indices: 39299869--39299913 Score: 72
Period size: 4 Copynumber: 11.2 Consensus size: 4
39299859 AACTTAAGCC
* *
39299869 AACA AACA AACA AACA AACT TACA AACA AACA AACA AACA AACA A
1 AACA AACA AACA AACA AACA AACA AACA AACA AACA AACA AACA A
39299914 CTAATCACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.71, C:0.24, G:0.00, T:0.04
Consensus pattern (4 bp):
AACA
Found at i:39304992 original size:40 final size:40
Alignment explanation
Indices: 39304908--39305091 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
39304898 TTGAATGCTG
* * * *
39304908 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
39304947 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
39304988 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
39305028 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
39305068 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39305092 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:39305045 original size:80 final size:81
Alignment explanation
Indices: 39304908--39305088 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
39304898 TTGAATGCTG
* *
39304908 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
39304972 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
39304988 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
39305049 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
39305068 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
39305089 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:39308190 original size:27 final size:27
Alignment explanation
Indices: 39307835--39308182 Score: 455
Period size: 27 Copynumber: 12.9 Consensus size: 27
39307825 GGTATTTAAA
39307835 TAATTTTACCCTTCGAGGGTATTTTGG
1 TAATTTTACCCTTCGAGGGTATTTTGG
* **
39307862 TAATTTTATCCTTCGAGGGTATTTCAG
1 TAATTTTACCCTTCGAGGGTATTTTGG
* * *
39307889 TAATTTTACCCTTTGAGGGTATTGTAG
1 TAATTTTACCCTTCGAGGGTATTTTGG
* * *
39307916 TAATTTTACCCTTC-AAGGTGTTTCGG
1 TAATTTTACCCTTCGAGGGTATTTTGG
*
39307942 TAATTTTACCCTTCGAGGGTATTTCGG
1 TAATTTTACCCTTCGAGGGTATTTTGG
* * * *
39307969 TAATTTTTCCTTTCGAGGGTATTTCGA
1 TAATTTTACCCTTCGAGGGTATTTTGG
* *
39307996 TGATTTAACCCTTCGAGGGTATTTTGG
1 TAATTTTACCCTTCGAGGGTATTTTGG
*
39308023 TAATTTTACCCTTCGAGGGTATTTTAG
1 TAATTTTACCCTTCGAGGGTATTTTGG
* *
39308050 TAATTTTACCCTTTGAGGGTATTTTGA
1 TAATTTTACCCTTCGAGGGTATTTTGG
*
39308077 TAATTTAACCCTTCGAGGGTATTTTGG
1 TAATTTTACCCTTCGAGGGTATTTTGG
* * *
39308104 TAATTTTACTCTTTGAGGGTATTTTGA
1 TAATTTTACCCTTCGAGGGTATTTTGG
*
39308131 TAATTTTACCCTTCGAGGGTATTTCGG
1 TAATTTTACCCTTCGAGGGTATTTTGG
* *
39308158 TCATTTTACCCATCGAGGGTATTTT
1 TAATTTTACCCTTCGAGGGTATTTT
39308183 AGTCATTTGC
Statistics
Matches: 276, Mismatches: 44, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 21 0.08
27 255 0.92
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (27 bp):
TAATTTTACCCTTCGAGGGTATTTTGG
Found at i:39327875 original size:48 final size:48
Alignment explanation
Indices: 39327821--39327914 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
39327811 GTTATATAAT
39327821 GATGATGCTGATTTCGGCCATATCTATAGTAATTGTGGAAATACTATA
1 GATGATGCTGATTTCGGCCATATCTATAGTAATTGTGGAAATACTATA
39327869 GATGATGCTGATTTCGGCCATATCTATAGTAATTGTGGAAATACTA
1 GATGATGCTGATTTCGGCCATATCTATAGTAATTGTGGAAATACTA
39327915 CCTTTGAGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (48 bp):
GATGATGCTGATTTCGGCCATATCTATAGTAATTGTGGAAATACTATA
Found at i:39337381 original size:371 final size:371
Alignment explanation
Indices: 39336698--39337443 Score: 1357
Period size: 371 Copynumber: 2.0 Consensus size: 371
39336688 TTTCAAAATG
*
39336698 TTTGTATATGAGTTACTTGTTAATAAAGAAGGTCTATGAGCATGAATTTATTGATGCATGATTAT
1 TTTGTATATGAGTTACTTGTTAATAAAGAAGGTCTATGAGCATGAATTTATTGACGCATGATTAT
* * *
39336763 GAGACAAATATTGATTCTACTTATACTCTTAGCATAATTTGCCTTTGCAAGACCTTGTGCTATGC
66 GAGACAAAGATTGATTCTACTTATACTCTTAGCAAAATTTGCCTTAGCAAGACCTTGTGCTATGC
* *
39336828 ATGAACATTACTCAGGACGAGCACTGATTTAAGTTTTGGGGTGTCTAAACTGAAAAATATATAAG
131 ATGAACATTACTCAGGACGAGCAATGATTTAAGTTTGGGGGTGTCTAAACTGAAAAATATATAAG
*
39336893 ATTTTTCCTACATAATTCATCACCTTTTTACTTAAATTTGTTGTTAAAATCAAGTAATTGTTTAA
196 ATTTTTCCTACATAATTCATCACCTTTTTACTTAAATTTGTTGTTAAAACCAAGTAATTGTTTAA
*
39336958 TAAATTAATGAAATATGCGAAAATATGAAATTAGGACATAGAAATTATTAAAATGTGATTTTAAA
261 TAAATTAATGAAATATGCGAAAATATGAAATTAGGACATAAAAATTATTAAAATGTGATTTTAAA
39337023 CTTTATTATATAGTTTTCATGCATAAAATGACTTATTTTATATTAA
326 CTTTATTATATAGTTTTCATGCATAAAATGACTTATTTTATATTAA
*
39337069 TTTGTATATGAGTTACTTGTTAATAAAGAAGGTCTATGAGTATGAATTTATTGACGCATGATTAT
1 TTTGTATATGAGTTACTTGTTAATAAAGAAGGTCTATGAGCATGAATTTATTGACGCATGATTAT
39337134 GAGACAAAGATTGATTCTACTTATACTCTTAGCAAAATTTGCCTTAGCAAGACCTTGTGCTATGC
66 GAGACAAAGATTGATTCTACTTATACTCTTAGCAAAATTTGCCTTAGCAAGACCTTGTGCTATGC
* *
39337199 ATGAACATTACTCAGGACGAGCAATGATTTAAGTTTGGGGGTGTGTAAACTGAAAAATATATAGG
131 ATGAACATTACTCAGGACGAGCAATGATTTAAGTTTGGGGGTGTCTAAACTGAAAAATATATAAG
* *
39337264 GTTTTTCCTATATAATTCATCACCTTTTTACTTAAATTTGTTGTTAAAACCAAGTAATTGTTTAA
196 ATTTTTCCTACATAATTCATCACCTTTTTACTTAAATTTGTTGTTAAAACCAAGTAATTGTTTAA
* *
39337329 TAATTTAATGAAATATGCGAAAATATGAAATTAGGACATAAAAATTATTAAAATGTGATTTTATA
261 TAAATTAATGAAATATGCGAAAATATGAAATTAGGACATAAAAATTATTAAAATGTGATTTTAAA
39337394 CTTTATTATATAGTTTTCATGCATAAAATGACTTATTTTATATTAA
326 CTTTATTATATAGTTTTCATGCATAAAATGACTTATTTTATATTAA
39337440 TTTG
1 TTTG
39337444 AGCGTATTAT
Statistics
Matches: 360, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
371 360 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (371 bp):
TTTGTATATGAGTTACTTGTTAATAAAGAAGGTCTATGAGCATGAATTTATTGACGCATGATTAT
GAGACAAAGATTGATTCTACTTATACTCTTAGCAAAATTTGCCTTAGCAAGACCTTGTGCTATGC
ATGAACATTACTCAGGACGAGCAATGATTTAAGTTTGGGGGTGTCTAAACTGAAAAATATATAAG
ATTTTTCCTACATAATTCATCACCTTTTTACTTAAATTTGTTGTTAAAACCAAGTAATTGTTTAA
TAAATTAATGAAATATGCGAAAATATGAAATTAGGACATAAAAATTATTAAAATGTGATTTTAAA
CTTTATTATATAGTTTTCATGCATAAAATGACTTATTTTATATTAA
Found at i:39338012 original size:19 final size:19
Alignment explanation
Indices: 39337990--39338027 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
39337980 TCAATCATCC
39337990 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
39338009 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
39338028 ACTCTTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:39345448 original size:41 final size:41
Alignment explanation
Indices: 39345385--39345469 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
39345375 CGTAACAAAA
*
39345385 GCATCGAAGTGCAGATAGAGGCACC-GAAGTGCAA-ACAGAG
1 GCATCGAAGAGCAGATAGAGGCACCAG-AGTGCAATACAGAG
*
39345425 GCATCGAAGAGCAATATAGAGGCACCAGAGTGCAATACAGAG
1 GCATCGAAGAGC-AGATAGAGGCACCAGAGTGCAATACAGAG
39345467 GCA
1 GCA
39345470 CCAAAGTGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
40 11 0.28
41 19 0.47
42 10 0.25
ACGTcount: A:0.39, C:0.20, G:0.31, T:0.11
Consensus pattern (41 bp):
GCATCGAAGAGCAGATAGAGGCACCAGAGTGCAATACAGAG
Found at i:39345459 original size:21 final size:21
Alignment explanation
Indices: 39345389--39345481 Score: 104
Period size: 21 Copynumber: 4.5 Consensus size: 21
39345379 ACAAAAGCAT
39345389 CGAAGTGCAGAT--AGAGGCAC
1 CGAAGTGCA-ATACAGAGGCAC
*
39345409 CGAAGTGCAA-ACAGAGGCAT
1 CGAAGTGCAATACAGAGGCAC
* *
39345429 CGAAGAGCAATATAGAGGCAC
1 CGAAGTGCAATACAGAGGCAC
39345450 C-AGAGTGCAATACAGAGGCAC
1 CGA-AGTGCAATACAGAGGCAC
*
39345471 CAAAGTGCAAT
1 CGAAGTGCAAT
39345482 CCTGTACAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
19 1 0.02
20 26 0.42
21 34 0.55
22 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.29, T:0.11
Consensus pattern (21 bp):
CGAAGTGCAATACAGAGGCAC
Found at i:39350129 original size:46 final size:46
Alignment explanation
Indices: 39350076--39350169 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 46
39350066 CAAAGAAAAG
*
39350076 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATG-ATGATAAGAACCTTGGTATATGATGA
39350122 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
39350168 AC
1 AC
39350170 GCCACACTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 45 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
Found at i:39354995 original size:120 final size:120
Alignment explanation
Indices: 39354834--39355142 Score: 410
Period size: 120 Copynumber: 2.6 Consensus size: 120
39354824 TTTAGTAACT
*
39354834 CACACAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACC
1 CACA-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACAAATGCCTTCGGGACTTAACC
39354899 CGG-ATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
65 CGGAATTT-GTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
* * * * *
39354955 CACAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGGGGCTTAACC
1 CACAAATGCCTTCGGGACATAACCCGG-ATTTAATAACTCGCACAAATGCCTTCGGGACTTAACC
*
39355019 CGGAATTTGTATCTCGCACAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
65 CGGAATTTGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
* ** * * * * *
39355075 CACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CACAAATGCCTTCGGGA-CATAACCCGGATTTAATAAC-TCGCACAAATGCCTTCGGGACTTAAC
39355138 CCGGA
64 CCGGA
39355143 CAGCATTCAA
Statistics
Matches: 166, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
119 5 0.03
120 141 0.85
121 20 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (120 bp):
CACAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACAAATGCCTTCGGGACTTAACCC
GGAATTTGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
Found at i:39355102 original size:40 final size:40
Alignment explanation
Indices: 39354798--39355089 Score: 412
Period size: 40 Copynumber: 7.3 Consensus size: 40
39354788 GCTCCTCGTT
* * * * * *
39354798 CAAATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCACA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
* * * *
39354838 C-AATGCCTTCGGGACATAACCCGG-ATTTAATAACTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
* *
39354877 CGAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
*
39354917 CAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
39354957 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
39354997 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
39355037 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
39355077 CAAATGCCTTCGG
1 CAAATGCCTTCGG
39355090 ATCTTAGTCC
Statistics
Matches: 239, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 35 0.15
40 200 0.84
41 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
Found at i:39355151 original size:41 final size:41
Alignment explanation
Indices: 39355074--39355151 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39355064 TTTGTATCTC
* * *
39355074 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39355115 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39355152 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39362930 original size:40 final size:40
Alignment explanation
Indices: 39362830--39363094 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
39362820 GCTCCTCGTT
* * * *
39362830 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
39362870 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39362909 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39362949 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
39362989 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
39363029 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39363070 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39363095 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39363054 original size:80 final size:80
Alignment explanation
Indices: 39362797--39363094 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
39362787 AAATCACGTA
* ** * * *
39362797 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
39362859 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
39362875 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
39362938 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
39362955 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
39363019 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
39363035 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
39363095 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:39363103 original size:41 final size:41
Alignment explanation
Indices: 39363026--39363103 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39363016 TTTGTATCTC
* * *
39363026 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39363067 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39363104 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39369845 original size:50 final size:50
Alignment explanation
Indices: 39369721--39369962 Score: 152
Period size: 50 Copynumber: 4.7 Consensus size: 50
39369711 GATAATAACA
* * * *
39369721 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGCATGTT-TCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGA-GTTCTCATAT-CGG
* * * *
39369770 CGCCAATGACATATCCCAGATATGGTCTTATATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGAGTTCTCATATCGG
* * * ** *
39369820 TGCCCATGCCATGTCCCAGACATGGTC-T-TACGGGGGACCTCAAATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGAGTTCTCATATC--GG
* ** ** * **
39369870 TGCCAAAGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTTATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGAGTTCTCAT-A--TC---GG
*
39369926 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGA
39369963 TCTCATCCCT
Statistics
Matches: 148, Mismatches: 34, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
48 17 0.11
49 36 0.24
50 49 0.33
51 1 0.01
52 6 0.04
53 1 0.01
55 2 0.01
56 36 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGAGTTCTCATATCGG
Found at i:39372520 original size:53 final size:53
Alignment explanation
Indices: 39372444--39372553 Score: 175
Period size: 53 Copynumber: 2.1 Consensus size: 53
39372434 GAAATAGAGA
* *
39372444 CACACAGTCATGTCCTAGCCTGTGTCCATGCTCGTGTAGCTCTCTAACTTGGT
1 CACACAGTCATGTCCCAGCCTGTGTCCATGCTCGTGTAACTCTCTAACTTGGT
* * *
39372497 CACACGGTCGTGTCCCAGTCTGTGTCCATGCTCGTGTAACTCTCTAACTTGGT
1 CACACAGTCATGTCCCAGCCTGTGTCCATGCTCGTGTAACTCTCTAACTTGGT
39372550 CACA
1 CACA
39372554 TAGCCAAGTC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (53 bp):
CACACAGTCATGTCCCAGCCTGTGTCCATGCTCGTGTAACTCTCTAACTTGGT
Found at i:39376079 original size:47 final size:47
Alignment explanation
Indices: 39376014--39376508 Score: 738
Period size: 47 Copynumber: 10.4 Consensus size: 47
39376004 CAGCCAAGAG
* *
39376014 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39376061 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39376108 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39376157 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
39376208 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39376255 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39376302 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39376349 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39376396 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
39376443 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39376490 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
39376509 TCCCGAAAGG
Statistics
Matches: 414, Mismatches: 28, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 327 0.79
49 42 0.10
51 41 0.10
53 4 0.01
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:39376683 original size:37 final size:37
Alignment explanation
Indices: 39376627--39376705 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39376617 CCGAGCTTTA
* * *
39376627 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
39376664 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39376701 AAGAC
1 AAGAC
39376706 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39392681 original size:21 final size:21
Alignment explanation
Indices: 39392641--39392681 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
39392631 TAGAACAAAA
** *
39392641 AGTATCGATACTTTTTGTATG
1 AGTATCGATACTAGTAGTATG
39392662 AGTATCGATACTAGTAGTAT
1 AGTATCGATACTAGTAGTAT
39392682 TTAATGCCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (21 bp):
AGTATCGATACTAGTAGTATG
Found at i:39394156 original size:24 final size:27
Alignment explanation
Indices: 39394124--39394182 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
39394114 GTGGTAAAGG
39394124 GTTCGCCAG-AATTATTGCAAG-T-GT
1 GTTCGCCAGTAATTATTGCAAGCTAGT
* *
39394148 GTTCGCCAGTATTTTTTGCAAGCTAGT
1 GTTCGCCAGTAATTATTGCAAGCTAGT
39394175 GTTCGCCA
1 GTTCGCCA
39394183 ATTCAGTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 9 0.30
25 10 0.33
26 1 0.03
27 10 0.33
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (27 bp):
GTTCGCCAGTAATTATTGCAAGCTAGT
Done.