Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 13 of 335
Found at i:4617047 original size:21 final size:18
Alignment explanation
Indices: 4616987--4617069 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
4616977 GAGCTTTGTT
*
4616987 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
4617007 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
4617025 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
4617046 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
4617064 -TATTAT
1 TTATTAT
4617070 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.11
18 18 0.33
19 9 0.16
20 10 0.18
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:4617072 original size:27 final size:26
Alignment explanation
Indices: 4616986--4617073 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
4616976 AGAGCTTTGT
* * *
4616986 TTTATTATTTTATTATTTTTACTATTA
1 TTTA-TATATTATTATTTATATTATTA
* *
4617013 TTTATATTATTATTA-TTAT-TTCTCA
1 TTTATA-TATTATTATTTATATTATTA
*
4617038 TGTATATATTATTATTTATATTATTA
1 TTTATATATTATTATTTATATTATTA
4617064 TATTATATAT
1 T-TTATATAT
4617074 GCCCTCTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
24 8 0.17
25 12 0.25
26 10 0.21
27 18 0.38
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTATATATTATTATTTATATTATTA
Found at i:4617436 original size:2 final size:2
Alignment explanation
Indices: 4617431--4617460 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4617421 GTATTTCTAT
4617431 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4617461 GTATTATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4619914 original size:19 final size:19
Alignment explanation
Indices: 4619892--4619938 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
4619882 CTTCCTTTCT
4619892 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
* *
4619911 TTTGTATTACATTGCAACA
1 TTTGCATTACATTCCAACA
4619930 TTTGCATTA
1 TTTGCATTA
4619939 AACTTTCACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:4622734 original size:6 final size:6
Alignment explanation
Indices: 4622723--4622754 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
4622713 GGCGTTATAT
4622723 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GG
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GG
4622755 AAAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.16, G:0.38, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:4622781 original size:19 final size:20
Alignment explanation
Indices: 4622757--4622803 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
4622747 GGCAAAGGAA
*
4622757 AAAAAAAACACAAAAACAC-
1 AAAAAAAACAAAAAAACACT
*
4622776 AAAAAAAACAAAAAAACTCT
1 AAAAAAAACAAAAAAACACT
4622796 AAAAAAAA
1 AAAAAAAA
4622804 GAGAAGCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.81, C:0.15, G:0.00, T:0.04
Consensus pattern (20 bp):
AAAAAAAACAAAAAAACACT
Found at i:4624043 original size:66 final size:65
Alignment explanation
Indices: 4623921--4624046 Score: 225
Period size: 66 Copynumber: 1.9 Consensus size: 65
4623911 CATTCATATA
*
4623921 ATAACACATCTAGTTAGGAGCATTTGTTCATTTCAATCATAGCATCCTAATTATTTGACACATTC
1 ATAACACATCTAGTTAGGAGCATTTGTTCATTTCAATCATAGCATCCTAATCATTTGACACATTC
*
4623986 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAGTTAGGAGCATTTG-TTCATTTCAATCATAGCATCCTAATCATTTGACA
4624047 TAAGCATAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 26 0.45
66 32 0.55
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (65 bp):
ATAACACATCTAGTTAGGAGCATTTGTTCATTTCAATCATAGCATCCTAATCATTTGACACATTC
Found at i:4624172 original size:43 final size:44
Alignment explanation
Indices: 4624108--4624602 Score: 319
Period size: 43 Copynumber: 11.4 Consensus size: 44
4624098 AATTCACAAG
* *
4624108 CTTAAGCCCCTAAGCAATAGGGTAACAGGTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTGAAGATTTACAGAT
* * ** *
4624152 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGA-CGA-AGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGT-GAAGATTTACA-GAT
* * * * * *
4624195 CTTAAACCCCTAATCGGTAGGGTAACA---GACCGAATTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTGA-AGATTTACAGAT
* * ** ** * *
4624237 CTTATCTCCCTAAGCAACAGGAAAACAGATCGAAGA-TGA-AGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGT-GAAGATTTACAGAT
* * * * **
4624280 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGT-GAAGATTTACAGAT
* ** *
4624323 CTTTAACCCCCTAAGCAGTAGGGTAACAAG-CCA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGGTGAAGATTTACAGA-T
4624366 CTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGG-TGAAGATTTACAGAT
* * * * **
4624410 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-TGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGT-GAAGATTTACAGAT
** * *
4624453 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCCG-A-ATTTACAAAC
1 C-TTAACCCCCTAAGCAGTAGGGTAAC-AGGTGAAGATTTACAGAT
* * *
4624497 CTTAAACCCCTAAGCAGTAGGGTAATAGGCTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGG-TGAAGATTTACAGAT
*
4624542 CTTAACCCCCTAACCAGTAGGGTAACAGGTTG-A-ATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGG-TGAAGATTTACAGAT
*
4624585 CTTAACCCCTTAAGCAGT
1 CTTAACCCCCTAAGCAGT
4624603 TGGGAAATAG
Statistics
Matches: 351, Mismatches: 73, Indels: 55
0.73 0.15 0.11
Matches are distributed among these distances:
40 2 0.01
41 25 0.07
42 31 0.09
43 126 0.36
44 97 0.28
45 68 0.19
46 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (44 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGTGAAGATTTACAGAT
Found at i:4624290 original size:85 final size:85
Alignment explanation
Indices: 4624147--4624313 Score: 219
Period size: 85 Copynumber: 2.0 Consensus size: 85
4624137 TGAAGATTTA
** * * * *
4624147 CAGATCTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGG
1 CAGATCTTAACCCCTAAGCAACAGGAAAACAGATCGAAGACGAAGGATCTTAAACCCCTAAGCAG
*
4624212 TAGGGTAACAGACCGAATTG
66 TAGGGAAACAGACCGAATTG
* * *
4624232 CAGATCTTATCTCCCTAAGCAACAGGAAAACAGATCGAAGATGAA-GATCTTAACCCCCTAAGCA
1 CAGATCTTAAC-CCCTAAGCAACAGGAAAACAGATCGAAGACGAAGGATCTTAAACCCCTAAGCA
*
4624296 GTAGGGAAACAGATCGAA
65 GTAGGGAAACAGACCGAA
4624314 GATGATGGGC
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
85 41 0.59
86 29 0.41
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (85 bp):
CAGATCTTAACCCCTAAGCAACAGGAAAACAGATCGAAGACGAAGGATCTTAAACCCCTAAGCAG
TAGGGAAACAGACCGAATTG
Found at i:4624444 original size:130 final size:131
Alignment explanation
Indices: 4624098--4624569 Score: 615
Period size: 129 Copynumber: 3.6 Consensus size: 131
4624088 TGAATCAGTA
*
4624098 AATTCACAAG-CTTAAGCCCCTAAGCAATAGGGTAACAGG-TGAAGATTTACAGATCTTAA-CCC
1 AATTTACAAGCCTTAA-CCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* * * * *
4624160 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-AG
65 CTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAAG
4624223 ACCG
129 -CCG
* * * * ** * *
4624227 AA-TTGC-AGATCTTATCTCCCTAAGCAACAGGAAAACA-GATCGAAGA-TGA-AGATCTTAACC
1 AATTTACAAG-CCTTAAC-CCCTAAGCAATAGGGTAACAGGCT-GAAGATTTACAGATCTTAACC
4624287 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAA
63 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAA
4624352 GCC-
128 GCCG
*
4624355 AATTTACAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCC
1 AATTTACAAGCCTTAACCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCC
4624420 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
66 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
4624485 G
131 G
* * * *
4624486 AATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAATAGGCTGAAGATTTACAAATCTTAACCCC
1 AATTTACAAGCCTT-AACCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* *
4624551 CTAACCAGTAGGGTAACAG
65 CTAAGCAGTAGGGAAACAG
4624570 GTTGAATTTA
Statistics
Matches: 302, Mismatches: 26, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
127 2 0.01
128 36 0.12
129 97 0.32
130 89 0.29
131 13 0.04
132 65 0.22
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (131 bp):
AATTTACAAGCCTTAACCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCC
TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
G
Found at i:4624619 original size:175 final size:173
Alignment explanation
Indices: 4624325--4624655 Score: 486
Period size: 175 Copynumber: 1.9 Consensus size: 173
4624315 ATGATGGGCT
* * * *
4624325 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAATTTACAAGCCTTAACCCCTAAGCAGTAGGGTAA
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCAAATTTACAAACCTTAACCCCTAACCAGTAGGGTAA
*
4624390 CAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT
66 CAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCC
*
4624455 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACC
131 TTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACC
* * *
4624498 TTAAACCCCTAAGCAGTAGGGTAATAGGCTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGG
1 TTAAACCCCTAAGCAGTAGGGTAACAAGC--AA-ATTTACAAACCTTAA-CCCCTAACCAGTAGG
* * * *
4624563 GTAACAGGTTG-A-ATTTACAGATCTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATG
62 GTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATG
*
4624626 GGCCTTAAACCCCTAAGTAGTAGGGTAACA
127 GGCCTTAAACCCCTAAGCAGTAGGGTAACA
4624656 GGGTAGAAAT
Statistics
Matches: 140, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
173 26 0.19
175 76 0.54
176 14 0.10
177 24 0.17
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (173 bp):
TTAAACCCCTAAGCAGTAGGGTAACAAGCAAATTTACAAACCTTAACCCCTAACCAGTAGGGTAA
CAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCC
TTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACC
Found at i:4624632 original size:132 final size:132
Alignment explanation
Indices: 4624103--4624657 Score: 505
Period size: 132 Copynumber: 4.3 Consensus size: 132
4624093 CAGTAAATTC
* * * *
4624103 ACAAG-CTTAAGCCCCTAAGCAATAGGGTAACAGG-TGAAGATTTACAGATCTTAA-CCCCTAAG
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAC
* * * * *
4624165 CAGTAGGGAAACAGATCGAAGACGAAG-GGTCTTAAACCCCTAATCGGTAGGGTAAC-AGACCGA
66 CAGTAGGGAAACAGATCGAAGATGAAGAGCT-TTAACCCCCTAAGCAGTAGGGTAACAAG-CCGA
*
4624228 ATTG
129 AATG
* * ** ** * * *
4624232 -C-AGATCTT-ATCTCCCTAAGCAACAGGAAAACA-GATCGAAGA-TGA-AGATCTTAACCCCCT
1 ACAAG-CCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAAATCTTAACCCCCT
* * *
4624291 AAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC-
63 AACCAGTAGGGAAACAGATCGAAGATGAAGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCG
* *
4624355 AATTT
128 AAATG
* *
4624360 ACAAGCCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAC
* * *
4624424 CAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAAT
66 CAGTAGGGAAACAGATCGAAGATGAAGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAAA
*
4624489 TT
131 TG
* *
4624491 ACAAACCTTAAACCCCTAAGCAGTAGGGTAATAGGCTGAAGATTTACAAATCTTAACCCCCTAAC
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAC
* * * * * * * * *
4624556 CAGTAGGGTAACAGGTTGAA-TTTACAGATC-TTAACCCCTTAAGCAGTTGGG-AA-ATAGATCG
66 CAGTAGGGAAACAGATCGAAGATGA-AGAGCTTTAACCCCCTAAGCAGTAGGGTAACA-AG-CCG
4624617 AAGATG
128 AA-ATG
*** *
4624623 ATGGGCCTTAAACCCCTAAGTAGTAGGGTAACAGG
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGG
4624658 GTAGAAATTA
Statistics
Matches: 364, Mismatches: 43, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
127 2 0.01
128 38 0.10
129 91 0.25
130 94 0.26
131 38 0.10
132 101 0.28
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (132 bp):
ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAC
CAGTAGGGAAACAGATCGAAGATGAAGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAAA
TG
Found at i:4624656 original size:87 final size:86
Alignment explanation
Indices: 4624108--4624657 Score: 425
Period size: 87 Copynumber: 6.3 Consensus size: 86
4624098 AATTCACAAG
* * *
4624108 CTTAAGCCCCTAAGCAATAGGGTAACAGG-TGAAGATTTACAGATCTTAACCCCTAAGCAGTAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCCG-A-ATTTACAGATCTTAACCCCTAAGCAGTAGG
* *
4624172 GAAACAGATCGAAGACGA-AGGGT
64 GAAACAGATCGAAGATGACA-GGC
* * * * * ** *
4624195 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGATCTTATCTCCCTAAGCAACAGGA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCCGAATTTACAGATCTTAAC-CCCTAAGCAGTAGGG
**
4624259 AAACAGATCGAAGATGA-AGAT
65 AAACAGATCGAAGATGACAGGC
* * ** * * * **
4624280 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-TGGGCTTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCCGAA-TTTACAGATC-TTAA-CCCCTAAGCAGTAG
* * * * * *
4624344 GGTAACA-AGCCAA-TTTACAAGC
63 GGAAACAGATCGAAGATGACAGGC
*
4624366 CTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCCG-A-ATTTACAGATCTTAA-CCCCTAAGCAGTAG
**
4624430 GGAAACAGATCGAAGATGATGGGC
63 GGAAACAGATCGAAGATGACAGGC
* * * * *
4624454 TTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCCGAATTTACAGATCTT-AACCCCTAAGCAGTAGGG
* * * * ***
4624519 TAATAG-GCTGAAGATTTACAAAT
65 AAACAGATC-GAAGA-TGACAGGC
* * ** *
4624542 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAATTTACAGATCTTAACCCCTTAAGCAGTTGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCCGAATTTACAGATCTTAACCCC-TAAGCAGTAGGG
* **
4624607 AAATAGATCGAAGATGATGGGC
65 AAACAGATCGAAGATGACAGGC
*
4624629 CTTAAACCCCTAAGTAGTAGGGTAACAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGG
4624658 GTAGAAATTA
Statistics
Matches: 358, Mismatches: 87, Indels: 36
0.74 0.18 0.07
Matches are distributed among these distances:
85 68 0.19
86 69 0.19
87 122 0.34
88 73 0.20
89 26 0.07
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (86 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGCCGAATTTACAGATCTTAACCCCTAAGCAGTAGGGA
AACAGATCGAAGATGACAGGC
Found at i:4624791 original size:68 final size:68
Alignment explanation
Indices: 4624674--4624869 Score: 279
Period size: 68 Copynumber: 2.9 Consensus size: 68
4624664 ATTACAAATT
* *
4624674 TCTTTT-TCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAAATCTCCTTGAAGTTTTAG-
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTTAGC
*
4624737 AGGA
66 A-AA
* *
4624741 TCTTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTTAGC
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTTAGC
4624806 AAA
66 AAA
* * * * *
4624809 CCTCTTCTTCCAGAAATGGCATTGGAGAGGCTAAAAGCCACAGCAGATCTCCTTAAAGTTT
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTT
4624870 CAGTGGAAGA
Statistics
Matches: 115, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
67 6 0.05
68 108 0.94
69 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (68 bp):
TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTTAGC
AAA
Found at i:4625035 original size:44 final size:44
Alignment explanation
Indices: 4624987--4625792 Score: 624
Period size: 44 Copynumber: 18.3 Consensus size: 44
4624977 TTCAGCATGA
*
4624987 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * *
4625031 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * * **
4625075 CATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--TGG
1 CATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATAGCAG-ATTTGG
*
4625119 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * *
4625163 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * * **
4625207 CATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--TGG
1 CATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATAGCAG-ATTTGG
*
4625251 CATTCCTGTGCTTATAGGGAACAAGTTGAAAACT-GCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAA-TAGCAGATTTGG
* * * * *
4625295 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * * **
4625339 CATTCCTGTGCTTACAGTGAA-ACAGATCAAAGATTTCAGCA--TGG
1 CATCCCTGTGCTTATAGGGAACA-AGTTGAAA-ATAGCAG-ATTTGG
4625383 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACT-GCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAA-TAGCAGATTTGG
* * * * * *
4625427 CATACCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * * **
4625471 CATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--TGG
1 CATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATAGCAG-ATTTGG
* *
4625515 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * *
4625559 CATCCCTGTGCTTATAGGGAACAA-ATCAAAGATAACAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAA-ATAGCAGATTTGG
* * * * * **
4625603 CATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--TGG
1 CATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATAGCAG-ATTTGG
* *
4625647 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* *
4625691 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
* * * * *
4625735 CATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAAATCTGA
1 CATCCCTGTGCTTATAGGGAACAAG-TTGAAAATAGCAGATTTGG
*
4625779 CATTCCTGTGCTTA
1 CATCCCTGTGCTTA
4625793 CAGTGAAGCA
Statistics
Matches: 605, Mismatches: 121, Indels: 72
0.76 0.15 0.09
Matches are distributed among these distances:
42 5 0.01
43 35 0.06
44 523 0.86
45 37 0.06
46 5 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
Found at i:4625162 original size:132 final size:132
Alignment explanation
Indices: 4624925--4625767 Score: 1472
Period size: 132 Copynumber: 6.4 Consensus size: 132
4624915 AGGAGCAGAC
* * *
4624925 CGAAGATAGCAGATCTGACATTCCTGCGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGACAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
4624990 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
4625055 AT
131 AT
4625057 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
4625122 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
4625187 AT
131 AT
4625189 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
* *
4625254 TCCTGTGCTTATAGGGAACAAGTTGAAAACTGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
4625319 AT
131 AT
*
4625321 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAACAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
* *
4625386 CCCTGTGCTTATAGGGAACAAGTTGAAAACTGCAGATTTGGCATACCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
4625451 AT
131 AT
4625453 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
*
4625518 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
4625583 AT
131 AT
* *
4625585 CAAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
*
4625650 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
*
4625715 GT
131 AT
* * * * * * * * * *
4625717 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
4625768 AGCAAATCTG
Statistics
Matches: 685, Mismatches: 26, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
131 11 0.02
132 674 0.98
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (132 bp):
CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
AT
Found at i:4625831 original size:45 final size:45
Alignment explanation
Indices: 4624909--4625815 Score: 289
Period size: 44 Copynumber: 20.6 Consensus size: 45
4624899 CTCCCTGAAG
* * * * * *
4624909 TTACAGAGGAGCAGACCGAAGATAGCAGATCTGACATTCCTGCGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATCTGACATTCCTGTGC
* ** * *
4624954 TTACAGTGAAGCAGATCGAAGATTTC--AGCATGACATCCCTGTGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATC-TGACATTCCTGTGC
* * * * * * * * *
4624998 TTATAGGGAA-CAAGTTGAAA-ACAGCAGATTTGGCATCCCTGTGC
1 TTACAGTGAAGC-AGATCAAAGATAGCAAATCTGACATTCCTGTGC
* * * * *
4625042 TTATAGGGAA-CAAATCGAAGATAGCAGATCTGACATTCCTGTGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATCTGACATTCCTGTGC
** * * *
4625086 TTACAGTGAAGCAGATCAAAGATTTC--AGCATGGCATCCCTGTGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATC-TGACATTCCTGTGC
* * * * * * * * *
4625130 TTATAGGGAA-CAAGTTGAAA-ACAGCAGATTTGGCATCCCTGTGC
1 TTACAGTGAAGC-AGATCAAAGATAGCAAATCTGACATTCCTGTGC
* * * * *
4625174 TTATAGGGAA-CAAATCGAAGATAGCAGATCTGACATTCCTGTGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATCTGACATTCCTGTGC
** * *
4625218 TTACAGTGAAGCAGATCAAAGATTTC--AGCATGGCATTCCTGTGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATC-TGACATTCCTGTGC
* * * * * * * *
4625262 TTATAGGGAA-CAAGTTGAAA-ACT-GCAGATTTGGCATCCCTGTGC
1 TTACAGTGAAGC-AGATCAAAGA-TAGCAAATCTGACATTCCTGTGC
* * * * *
4625306 TTATAGGGAA-CAAATCGAAGATAGCAGATCTGACATTCCTGTGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATCTGACATTCCTGTGC
* ** * * *
4625350 TTACAGTGAAACAGATCAAAGATTTC--AGCATGGCATCCCTGTGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATC-TGACATTCCTGTGC
* * * * * * * *
4625394 TTATAGGGAA-CAAGTTGAAA-ACT-GCAGATTTGGCATACCTGTGC
1 TTACAGTGAAGC-AGATCAAAGA-TAGCAAATCTGACATTCCTGTGC
* * * * *
4625438 TTATAGGGAA-CAAATCGAAGATAGCAGATCTGACATTCCTGTGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATCTGACATTCCTGTGC
** * * *
4625482 TTACAGTGAAGCAGATCAAAGATTTC--AGCATGGCATCCCTGTGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATC-TGACATTCCTGTGC
* * * * * * * * * *
4625526 TTATAGGGAA-CAAGTTGAAA-ACATCAGATTTGGCATCCCTGTGC
1 TTACAGTGAAGC-AGATCAAAGATAGCAAATCTGACATTCCTGTGC
* * * * *
4625570 TTATAGGGAA-CAAATCAAAGATAACAGATCTGACATTCCTGTGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATCTGACATTCCTGTGC
** * * *
4625614 TTACAGTGAAGCAGATCAAAGATTTC--AGCATGGCATCCCTGTGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATC-TGACATTCCTGTGC
* * * * * * * * * *
4625658 TTATAGGGAA-CAAGTTGAAA-ACATCAGATTTGGCATCCCTGTGC
1 TTACAGTGAAGC-AGATCAAAGATAGCAAATCTGACATTCCTGTGC
* * * * * * * * * *
4625702 TTATAGGGAA-CAAGTTGAAA-ACATCAGATTTGGCATCCCTGTGC
1 TTACAGTGAAGC-AGATCAAAGATAGCAAATCTGACATTCCTGTGC
* * *
4625746 TTATAGGGAA-CAGATCGAAGATAGCAAATCTGACATTCCTGTGC
1 TTACAGTGAAGCAGATCAAAGATAGCAAATCTGACATTCCTGTGC
4625790 TTACAGTGAAGCAGATCAAAGATAGC
1 TTACAGTGAAGCAGATCAAAGATAGC
4625816 GGATATCGCC
Statistics
Matches: 669, Mismatches: 153, Indels: 80
0.74 0.17 0.09
Matches are distributed among these distances:
43 60 0.09
44 512 0.77
45 97 0.14
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (45 bp):
TTACAGTGAAGCAGATCAAAGATAGCAAATCTGACATTCCTGTGC
Found at i:4626282 original size:21 final size:21
Alignment explanation
Indices: 4626213--4626281 Score: 88
Period size: 20 Copynumber: 3.2 Consensus size: 21
4626203 GGGTTTTGGT
4626213 TTTTTGGAGGAGGATTGTTCTTTG
1 TTTTTGGAGGAGG-TT-TT-TTTG
4626237 -TTTTGGAGGAGGTTTTTTTG
1 TTTTTGGAGGAGGTTTTTTTG
*
4626257 TTTTTGGAGG-TGTTTTTTTG
1 TTTTTGGAGGAGGTTTTTTTG
4626277 TTTTT
1 TTTTT
4626282 TTGGAAAGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
20 18 0.42
21 11 0.26
22 2 0.05
23 12 0.28
ACGTcount: A:0.09, C:0.01, G:0.30, T:0.59
Consensus pattern (21 bp):
TTTTTGGAGGAGGTTTTTTTG
Found at i:4626630 original size:3 final size:3
Alignment explanation
Indices: 4626616--4626698 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
4626606 GAGCTTTGTT
* *
4626616 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
4626660 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
4626699 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4626676 original size:21 final size:18
Alignment explanation
Indices: 4626616--4626698 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
4626606 GAGCTTTGTT
*
4626616 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
4626636 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
4626654 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
4626675 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
4626693 -TATTAT
1 TTATTAT
4626699 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.11
18 18 0.33
19 9 0.16
20 10 0.18
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:4626701 original size:27 final size:26
Alignment explanation
Indices: 4626615--4626702 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
4626605 AGAGCTTTGT
* * *
4626615 TTTATTATTTTATTATTTTTACTATTA
1 TTTA-TATATTATTATTTATATTATTA
* *
4626642 TTTATATTATTATTA-TTAT-TTCTCA
1 TTTATA-TATTATTATTTATATTATTA
*
4626667 TGTATATATTATTATTTATATTATTA
1 TTTATATATTATTATTTATATTATTA
4626693 TATTATATAT
1 T-TTATATAT
4626703 GCCCTCTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
24 8 0.17
25 12 0.25
26 10 0.21
27 18 0.38
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTATATATTATTATTTATATTATTA
Found at i:4626818 original size:91 final size:90
Alignment explanation
Indices: 4626723--4626928 Score: 203
Period size: 91 Copynumber: 2.3 Consensus size: 90
4626713 TATTTATTTA
*
4626723 TATTATTACTATCATTATTGTTACTT-CTATTA-TTTTTTATTTCTAACTACTATTATT-ATATA
1 TATTATTA-TATCATTATTGTTA-TTACT-TTACTTTTGTA-TTCTAA-TA-TATTATTAATAT-
*
4626785 TA-T-ATATGT-ATTATTGTTTG-TATTATTAT
59 TACTCATATGTCATTATT-TTTGCTATTACTAT
* **
4626814 TATTATTATCACCCCTATTGTTATTACTTTACTTTTGTATTCTAATATATTATTAATATTACTCA
1 TATTATTAT-ATCATTATTGTTATTACTTTACTTTTGTATTCTAATATATTATTAATATTACTCA
*
4626879 TATTTCATTATTTTTGCTATTACTAT
65 TATGTCATTATTTTTGCTATTACTAT
*
4626905 TATTATTATAT-ATTAGTGTATATT
1 TATTATTATATCATTATTGT-TATT
4626929 TTTATGTATA
Statistics
Matches: 96, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
88 9 0.09
89 12 0.12
90 26 0.27
91 49 0.51
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.57
Consensus pattern (90 bp):
TATTATTATATCATTATTGTTATTACTTTACTTTTGTATTCTAATATATTATTAATATTACTCAT
ATGTCATTATTTTTGCTATTACTAT
Found at i:4634825 original size:21 final size:21
Alignment explanation
Indices: 4634799--4634839 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4634789 AGACAAGCGA
* *
4634799 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4634820 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4634840 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4638200 original size:3 final size:3
Alignment explanation
Indices: 4638192--4638228 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4638182 AAATTACATC
4638192 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4638229 ACTCTCTCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4641967 original size:46 final size:44
Alignment explanation
Indices: 4641863--4641970 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
4641853 TGTCTTTGAC
** * * *
4641863 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
4641907 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
4641953 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
4641971 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:4647986 original size:46 final size:44
Alignment explanation
Indices: 4647882--4647989 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
4647872 TGTCTTTGAC
** * * *
4647882 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
4647926 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
4647972 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
4647990 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:4651565 original size:23 final size:23
Alignment explanation
Indices: 4651483--4651569 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
4651473 CCTGATCAGT
*
4651483 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
4651505 A-ACGACACACGAGGTGACTG--
1 ATACGACACACAAAGTGCCTGAA
* *
4651525 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
4651548 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
4651570 TCGATAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 32 0.60
22 1 0.02
23 19 0.36
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:4651965 original size:15 final size:15
Alignment explanation
Indices: 4651940--4651997 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
4651930 TCATATATAT
4651940 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
4651956 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
4651971 AATAATTTCAATCAA
1 TATAAATTCAATCAA
4651986 TATAAATTCAAT
1 TATAAATTCAAT
4651998 AAATCCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:4653219 original size:18 final size:18
Alignment explanation
Indices: 4653180--4653219 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4653170 AATTTTCCCT
* * *
4653180 TTTCTCCCCTTCTTTCTT
1 TTTCTCCCCTGCTCTCTG
4653198 TTTCTCCCCTGCTCTCTG
1 TTTCTCCCCTGCTCTCTG
4653216 TTTC
1 TTTC
4653220 GTTTCATTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.40, G:0.05, T:0.55
Consensus pattern (18 bp):
TTTCTCCCCTGCTCTCTG
Found at i:4653275 original size:5 final size:5
Alignment explanation
Indices: 4653262--4653293 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
4653252 TTCTTTAGTT
4653262 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
4653294 TAAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:4654966 original size:43 final size:43
Alignment explanation
Indices: 4654905--4655145 Score: 392
Period size: 43 Copynumber: 5.6 Consensus size: 43
4654895 TTGGCATTAC
* *
4654905 GCCTGCTAGGCACGAAGGCCCGAATACACGTCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
4654948 GCCTGCTAGGTACGAAGGCCCAAATACACGTCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
4654991 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
4655034 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
4655077 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGTACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
4655120 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
4655146 TAATACCAGC
Statistics
Matches: 187, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 187 1.00
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:4655185 original size:38 final size:38
Alignment explanation
Indices: 4655138--4655221 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
4655128 GGCACGAAGG
* * *
4655138 CCCGAATATAATACCAGCACTAGGCCTGTGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGTGGGATTTAA
*
4655176 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGTGGGATTTAA
4655214 CCCGAATA
1 CCCGAATA
4655222 CACATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGTGGGATTTAA
Found at i:4658512 original size:17 final size:16
Alignment explanation
Indices: 4658490--4658583 Score: 59
Period size: 16 Copynumber: 5.8 Consensus size: 16
4658480 AAACCCTTTA
*
4658490 AATGAAATGGAAATGGG
1 AATGAAAT-GAAATGAG
*
4658507 AATGAAAATGAAATTAG
1 AATG-AAATGAAATGAG
4658524 AATGAAAT-AAAGTTGA-
1 AATGAAATGAAA--TGAG
* * *
4658540 AATGAAATAAAATTAA
1 AATGAAATGAAATGAG
*
4658556 AATAAAATGAAAATGA-
1 AATGAAATG-AAATGAG
*
4658572 AAAGAAATGAAA
1 AATGAAATGAAA
4658584 AAAAAAGGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
15 8 0.13
16 26 0.42
17 24 0.39
18 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (16 bp):
AATGAAATGAAATGAG
Found at i:4658558 original size:16 final size:16
Alignment explanation
Indices: 4658507--4658584 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
4658497 TGGAAATGGG
* *
4658507 AATGAAAATGAAATTAG
1 AATG-AAATAAAATTAA
* *
4658524 AATGAAATAAAGTTGA
1 AATGAAATAAAATTAA
4658540 AATGAAATAAAATTAA
1 AATGAAATAAAATTAA
* *
4658556 AATAAAATGAAAATGAA
1 AATGAAAT-AAAATTAA
4658573 AA-GAAATGAAAA
1 AATGAAAT-AAAA
4658585 AAAAAGGTTG
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
16 38 0.75
17 13 0.25
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.21
Consensus pattern (16 bp):
AATGAAATAAAATTAA
Found at i:4658923 original size:24 final size:24
Alignment explanation
Indices: 4658896--4658943 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4658886 AATGAATTGA
*
4658896 AAAAAAGAAAATGAAATATAATAT
1 AAAAAAGAAAATGAAAAATAATAT
** *
4658920 AAAAACTAAATTGAAAAATAATAT
1 AAAAAAGAAAATGAAAAATAATAT
4658944 GAAATTTAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (24 bp):
AAAAAAGAAAATGAAAAATAATAT
Found at i:4659011 original size:24 final size:24
Alignment explanation
Indices: 4658965--4659011 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4658955 AATAATATGA
*
4658965 AAAAAAATAATATGAAATGAATTG
1 AAAAAAATAATATGAAATAAATTG
4658989 AAAAAAATAAT-TGAAATTAAATT
1 AAAAAAATAATATGAAA-TAAATT
4659012 AAATTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (24 bp):
AAAAAAATAATATGAAATAAATTG
Found at i:4659284 original size:16 final size:17
Alignment explanation
Indices: 4659263--4659294 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4659253 ATTTAATTTG
4659263 AAAAAA-TTAAAATATA
1 AAAAAATTTAAAATATA
4659279 AAAAAATTTAAAATAT
1 AAAAAATTTAAAATAT
4659295 TGATGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAATTTAAAATATA
Found at i:4659409 original size:24 final size:25
Alignment explanation
Indices: 4659352--4659437 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 25
4659342 AATTTGATAA
* *
4659352 AATATAAAATGAATT-AAAAAAATT
1 AATATGAATTGAATTGAAAAAAATT
*
4659376 AATGAGGAA-T-AATATGAAAAAAATT
1 AAT-ATGAATTGAAT-TGAAAAAAATT
*
4659401 AATATGAATTGAATTGAAAAAAAAT
1 AATATGAATTGAATTGAAAAAAATT
*
4659426 AAT-TGAAATGAA
1 AATATGAATTGAA
4659438 ATAATTTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
23 3 0.06
24 17 0.33
25 29 0.56
26 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (25 bp):
AATATGAATTGAATTGAAAAAAATT
Found at i:4659454 original size:10 final size:10
Alignment explanation
Indices: 4659439--4659472 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
4659429 TGAAATGAAA
4659439 TAATTTAAAT
1 TAATTTAAAT
4659449 TAATTTAAAT
1 TAATTTAAAT
*
4659459 TAAATTAAAAT
1 T-AATTTAAAT
4659470 TAA
1 TAA
4659473 AAAAAAGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TAATTTAAAT
Found at i:4661884 original size:109 final size:109
Alignment explanation
Indices: 4661554--4661914 Score: 435
Period size: 116 Copynumber: 3.3 Consensus size: 109
4661544 TTGAAAAAAA
* *
4661554 AGGCCAGCACCCAAATTTTTTTTGAAAAAAACTCGTATTTTTA-AAAGCAAAAAAAAAATTTGAA
1 AGGCCAGCACCCAAATTTTTTTTAAAAAAAACTCGTATTTTTAGAGAGCAAAAAAAAAATTTGAA
* *
4661618 AAAAAATTAAATTTTTTTTT-TGGTACTGAGTGCCGGCCATTGAC
66 AAAAAATTGAATTTTTTTTTGT-GTACTGGGTGCCGGCCATTGAC
* * *
4661662 AGGCCAGCATCCCAAAATTTTTTTTAAAAAAAAATCGTGTGTTTAGAGAGCAAAAAAAAAAAAAA
1 AGGCCAGCA-CCC-AAATTTTTTTTAAAAAAAACTCGTATTTTTAGAGAGC-----AAAAAAAAA
* * *
4661727 ATTTGAAAAAAAATTGAATTTTTTTTCTG-GTATTGGGTGTCGACCATTGAC
59 ATTTGAAAAAAAATTGAATTTTTTTT-TGTGTACTGGGTGCCGGCCATTGAC
* *** *
4661778 AAGCCAGCACCCAAATTTTTTTT-TTTAAAACTCGTATTTTTAGAGAGC-AAAAAAAATTTTGAA
1 AGGCCAGCACCCAAATTTTTTTTAAAAAAAACTCGTATTTTTAGAGAGCAAAAAAAAAATTTGAA
4661841 AAAAAAGTTGAATTTTTTTTTGTTGTACTGGGTGCCGGCCATTGAC
66 AAAAAA-TTGAATTTTTTTTTG-TGTACTGGGTGCCGGCCATTGAC
* *
4661887 AGGCCAGCACCCAATTTTTTTTTTAAAA
1 AGGCCAGCACCCAAATTTTTTTTAAAAA
4661915 CTCGTATTTT
Statistics
Matches: 213, Mismatches: 26, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
107 22 0.10
108 22 0.10
109 43 0.20
110 28 0.13
111 4 0.02
113 19 0.09
114 11 0.05
115 3 0.01
116 60 0.28
117 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (109 bp):
AGGCCAGCACCCAAATTTTTTTTAAAAAAAACTCGTATTTTTAGAGAGCAAAAAAAAAATTTGAA
AAAAAATTGAATTTTTTTTTGTGTACTGGGTGCCGGCCATTGAC
Found at i:4667177 original size:14 final size:14
Alignment explanation
Indices: 4667158--4667206 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 14
4667148 TAAATTTTTT
4667158 TAAAATATTTATAA
1 TAAAATATTTATAA
4667172 TAAAAT-TTTATAA
1 TAAAATATTTATAA
*
4667185 T-TAA-ATTTA-AA
1 TAAAATATTTATAA
4667196 TAAAAATATTT
1 T-AAAATATTT
4667207 TTTTTTTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 3 0.10
12 6 0.21
13 10 0.34
14 10 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAAATATTTATAA
Found at i:4667181 original size:13 final size:13
Alignment explanation
Indices: 4667158--4667200 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
4667148 TAAATTTTTT
4667158 TAAAATATTTATAA
1 TAAAAT-TTTATAA
4667172 TAAAATTTTATAA
1 TAAAATTTTATAA
*
4667185 TTAAA-TTTA-AA
1 TAAAATTTTATAA
4667196 TAAAA
1 TAAAA
4667201 ATATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 6 0.22
12 4 0.15
13 11 0.41
14 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAAAATTTTATAA
Found at i:4668722 original size:11 final size:11
Alignment explanation
Indices: 4668706--4668739 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4668696 CGGGCCTGCC
4668706 TATATTAATTT
1 TATATTAATTT
*
4668717 TATATTATTTT
1 TATATTAATTT
4668728 TATA-TAATTT
1 TATATTAATTT
4668738 TA
1 TA
4668740 AAATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTAATTT
Found at i:4668978 original size:11 final size:11
Alignment explanation
Indices: 4668960--4669000 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
4668950 ACAATAACAA
4668960 CAAAATAGTAG
1 CAAAATAGTAG
*
4668971 CAACATAGTAG
1 CAAAATAGTAG
*
4668982 TAAAATAGTAG
1 CAAAATAGTAG
*
4668993 CAGAATAG
1 CAAAATAG
4669001 GTAGAAAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:4669000 original size:22 final size:22
Alignment explanation
Indices: 4668961--4669008 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
4668951 CAATAACAAC
4668961 AAAATAGTAGCAACATA-GTAG
1 AAAATAGTAGCAACATAGGTAG
4668982 TAAAATAGTAGCAGA-ATAGGTAG
1 -AAAATAGTAGCA-ACATAGGTAG
4669005 AAAA
1 AAAA
4669009 CAATAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.54, C:0.06, G:0.21, T:0.19
Consensus pattern (22 bp):
AAAATAGTAGCAACATAGGTAG
Found at i:4676644 original size:2 final size:2
Alignment explanation
Indices: 4676637--4676664 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4676627 ATTATGTTGA
4676637 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4676665 CATTAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4681632 original size:60 final size:60
Alignment explanation
Indices: 4681534--4681694 Score: 243
Period size: 60 Copynumber: 2.7 Consensus size: 60
4681524 AGGAAAAGGG
* *
4681534 AAGCCAGCGGGTGGCACTCATGTGAACGTTGG-GCGCAAAGGAGTTGGAGTGAACACGGGT
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAG-GCAAAGGAGTTGGAGTGAACACGGGA
* * *
4681594 AAGCCAGGGGGTGGCACTCATGTGAATGTTGGAGGCAAAGGAGTTGGGGTGAACACTGGA
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGGAGTTGGAGTGAACACGGGA
* *
4681654 AAGCCAGGAGGTGGCACCCATGTGAACGTTGGAGGCAAAGG
1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGG
4681695 TGGAGGAGTA
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
60 91 0.99
61 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.40, T:0.16
Consensus pattern (60 bp):
AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGGAGTTGGAGTGAACACGGGA
Found at i:4683730 original size:17 final size:17
Alignment explanation
Indices: 4683708--4683742 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4683698 TTACGATGAA
* *
4683708 TCCTTTCACATTTTATT
1 TCCTTTCAAATGTTATT
4683725 TCCTTTCAAATGTTATT
1 TCCTTTCAAATGTTATT
4683742 T
1 T
4683743 TTAAAGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (17 bp):
TCCTTTCAAATGTTATT
Found at i:4686266 original size:18 final size:18
Alignment explanation
Indices: 4686229--4686266 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4686219 TAGTAATATA
* *
4686229 TTTATCTCAAAAGTATTT
1 TTTATCTCAAAAATAATT
4686247 TTTATCTCAAAAATAATT
1 TTTATCTCAAAAATAATT
4686265 TT
1 TT
4686267 AAAAAGCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTATCTCAAAAATAATT
Found at i:4691119 original size:25 final size:25
Alignment explanation
Indices: 4691085--4691149 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 25
4691075 AGGCGCGACC
4691085 TATTTTTTTAATAATATAATT-TATT
1 TATTTTTTTAATAATATAATTAT-TT
*
4691110 TATTTTTTT-A-AATATTATTATTT
1 TATTTTTTTAATAATATAATTATTT
4691133 TATTATATTTTAATAAT
1 TATT-T-TTTTAATAAT
4691150 TTTTAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 14 0.41
24 3 0.09
25 13 0.38
26 1 0.03
27 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TATTTTTTTAATAATATAATTATTT
Found at i:4691123 original size:26 final size:27
Alignment explanation
Indices: 4691085--4691143 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 27
4691075 AGGCGCGACC
4691085 TATTTTTTTAATAATA-TAATTTATT-
1 TATTTTTTTAATAATATTAATTTATTA
* *
4691110 TATTTTTTTAAATATTATTATTTTATTA
1 TATTTTTTT-AATAATATTAATTTATTA
4691138 TATTTT
1 TATTTT
4691144 AATAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 9 0.31
26 6 0.21
27 8 0.28
28 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TATTTTTTTAATAATATTAATTTATTA
Found at i:4691231 original size:27 final size:27
Alignment explanation
Indices: 4691201--4691264 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
4691191 GCCAGACCCG
*
4691201 GAGGCGTGACCAGTCGCTCCTACTGCA
1 GAGGCGCGACCAGTCGCTCCTACTGCA
*
4691228 GAGGCGCGACCAGTCGCTCCTGCTGCA
1 GAGGCGCGACCAGTCGCTCCTACTGCA
4691255 GAGGCGCGAC
1 GAGGCGCGAC
4691265 TCCCCTGCAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.17, C:0.34, G:0.34, T:0.14
Consensus pattern (27 bp):
GAGGCGCGACCAGTCGCTCCTACTGCA
Found at i:4695458 original size:12 final size:12
Alignment explanation
Indices: 4695417--4695483 Score: 73
Period size: 12 Copynumber: 5.6 Consensus size: 12
4695407 CCTGAGTGTA
4695417 GCTCCGGCTCTG
1 GCTCCGGCTCTG
*
4695429 GC-CGCCGCTCTG
1 GCTC-CGGCTCTG
* *
4695441 GGTCCGGCACTG
1 GCTCCGGCTCTG
*
4695453 CCTCCGGCTCTG
1 GCTCCGGCTCTG
*
4695465 GCTCTGGCTCTG
1 GCTCCGGCTCTG
4695477 GCTCCGG
1 GCTCCGG
4695484 AGCTAGTGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 1 0.02
12 41 0.95
13 1 0.02
ACGTcount: A:0.01, C:0.42, G:0.34, T:0.22
Consensus pattern (12 bp):
GCTCCGGCTCTG
Found at i:4697109 original size:11 final size:11
Alignment explanation
Indices: 4697095--4697122 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
4697085 ACATTATATC
4697095 AAAATTACATT
1 AAAATTACATT
4697106 AAAATTACATT
1 AAAATTACATT
4697117 AAAATT
1 AAAATT
4697123 TCTTACTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATTACATT
Found at i:4698185 original size:3 final size:3
Alignment explanation
Indices: 4698179--4698253 Score: 80
Period size: 3 Copynumber: 24.7 Consensus size: 3
4698169 ACTAACATTT
* * * * *
4698179 TTC TTC TTTC TCC TCC TTC TCC TTC TCC TTC TTC TTC TTC TTC TTT
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
4698225 TTC TTC TTC TTC TTC TTC TT- TTC TCTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC T-TC TT
4698254 TGCTGCTGCA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.03
3 53 0.87
4 6 0.10
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:4698425 original size:27 final size:27
Alignment explanation
Indices: 4698387--4698446 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
4698377 CAGGGAGTCA
*
4698387 CGCCTTTGCAGCAGGAGCGACTGGTCG
1 CGCCTCTGCAGCAGGAGCGACTGGTCG
4698414 CGCCTCTGCAGCAGGAGCGACTGGTCG
1 CGCCTCTGCAGCAGGAGCGACTGGTCG
4698441 CGCCTC
1 CGCCTC
4698447 CGGGTCTGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.13, C:0.35, G:0.35, T:0.17
Consensus pattern (27 bp):
CGCCTCTGCAGCAGGAGCGACTGGTCG
Found at i:4698544 original size:26 final size:27
Alignment explanation
Indices: 4698504--4698561 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
4698494 AAAAATTATT
4698504 AAAATATAATAAAATAATAATATTTAAA
1 AAAATATAATAAAATAATAATA-TTAAA
* *
4698532 AAAATA-AAT-AAATTATATTATTAAA
1 AAAATATAATAAAATAATAATATTAAA
4698557 AAAAT
1 AAAAT
4698562 GGGTCGCGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 10 0.36
26 9 0.32
27 3 0.11
28 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAATATAATAAAATAATAATATTAAA
Found at i:4700366 original size:30 final size:30
Alignment explanation
Indices: 4700308--4700367 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
4700298 TTCCTGAGTC
*
4700308 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATACAAAAGTT
* *
4700338 TAGGGGCAAAA-TGGTAATTTTACCAAAGTT
1 TAGGGGCAAAAGT-GTAATTATACAAAAGTT
4700368 CGTATTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATACAAAAGTT
Found at i:4700844 original size:47 final size:46
Alignment explanation
Indices: 4700788--4700922 Score: 216
Period size: 47 Copynumber: 2.9 Consensus size: 46
4700778 TAGGATGGTT
* *
4700788 GAACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT
1 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
*
4700834 GAAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 G-AACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* *
4700881 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4700923 GCGGGTTACA
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
46 39 0.48
47 43 0.52
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:4706552 original size:30 final size:30
Alignment explanation
Indices: 4706494--4706553 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
4706484 TTCCCGAGTC
*
4706494 TAGGGGCAAAAGTGTAGTTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* *
4706524 TAGGGGCAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGT-GTAATTATGCAAAAGTT
4706554 CGTATTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:4707092 original size:46 final size:46
Alignment explanation
Indices: 4706974--4707108 Score: 225
Period size: 47 Copynumber: 2.9 Consensus size: 46
4706964 TAGGATGGTT
* *
4706974 GAACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT
1 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
*
4707020 GAAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 G-AACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
*
4707067 GAACGTCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4707109 GCGGGTTACA
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 40 0.48
47 43 0.52
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:4708647 original size:35 final size:35
Alignment explanation
Indices: 4708620--4708785 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
4708610 CATGGCAAAG
*
4708620 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
4708655 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
4708690 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
4708730 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
4708765 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
4708786 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:4708739 original size:75 final size:75
Alignment explanation
Indices: 4708620--4708790 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
4708610 CATGGCAAAG
** *
4708620 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
4708679 CCATACTGAGC
65 CCATACCGAGC
4708690 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
4708755 CATACCGAGT
66 CATACCGAGC
**
4708765 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
4708791 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:4716230 original size:75 final size:74
Alignment explanation
Indices: 4716109--4716278 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 74
4716099 TCCATGGCAA
** *
4716109 AGTGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTA
1 AGTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-
*
4716169 T-CCATACTG
65 TCCCATACCG
4716178 AGCTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT
1 AG-TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT
4716243 TCCCATACCG
65 TCCCATACCG
**
4716253 AGT-TGAAA-AAAGGTATGGTATT-TCAA
1 AGTGTGAAATGTAGGTATGGTATTATCAA
4716279 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
69 2 0.02
70 18 0.20
71 4 0.05
72 12 0.14
73 9 0.10
74 2 0.02
75 41 0.47
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.32
Consensus pattern (74 bp):
AGTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTT
CCCATACCG
Found at i:4716249 original size:35 final size:35
Alignment explanation
Indices: 4716111--4716257 Score: 179
Period size: 35 Copynumber: 4.1 Consensus size: 35
4716101 CATGGCAAAG
*
4716111 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
*
4716146 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
4716181 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTGAGT
** * *
4716221 TAAGAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACTGAGT
4716256 TG
1 TG
4716258 AAAAAAGGTA
Statistics
Matches: 98, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
34 1 0.01
35 64 0.65
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 29 0.30
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
Found at i:4719195 original size:18 final size:19
Alignment explanation
Indices: 4719172--4719210 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4719162 TACAAATACA
*
4719172 AACATT-ACATAATTATTT
1 AACATTCACATAATAATTT
*
4719190 AACATTCACATCATAATTT
1 AACATTCACATAATAATTT
4719209 AA
1 AA
4719211 TCATATTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATAATTT
Found at i:4719758 original size:31 final size:31
Alignment explanation
Indices: 4719720--4719782 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
4719710 GTATTTACAA
* *
4719720 CATATTTCACTTTATATTTTCAATTCATTAT
1 CATATTTCACATTATATTTTCAATTCACTAT
*
4719751 CATATTTCACATTCTATTTTCAATTCACTAT
1 CATATTTCACATTATATTTTCAATTCACTAT
4719782 C
1 C
4719783 TCATATTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.51
Consensus pattern (31 bp):
CATATTTCACATTATATTTTCAATTCACTAT
Found at i:4719973 original size:27 final size:25
Alignment explanation
Indices: 4719909--4719966 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
4719899 ATGTACTAAA
* *
4719909 CAGATAGCAATAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAAT
4719934 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAAT
*
4719959 CAAAGAGC
1 CAGAGAGC
4719967 GCGCTAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAATAAT
Found at i:4720912 original size:7 final size:7
Alignment explanation
Indices: 4720890--4720922 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
4720880 TTATTATATA
4720890 ATATAAT
1 ATATAAT
4720897 ATA-ACAT
1 ATATA-AT
4720904 ATATAAT
1 ATATAAT
4720911 ATATAAT
1 ATATAAT
4720918 ATATA
1 ATATA
4720923 CTTAACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 22 0.92
8 1 0.04
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (7 bp):
ATATAAT
Found at i:4722351 original size:24 final size:25
Alignment explanation
Indices: 4722312--4722377 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
4722302 TTCACACTAA
*
4722312 TAAAATATTAATTTTACAAAAAAT-T
1 TAAAAT-TTTATTTTACAAAAAATAT
* *
4722337 TAAAATTTTATTTTA-ATATAATAT
1 TAAAATTTTATTTTACAAAAAATAT
*
4722361 TAACATTTTAATTTTAC
1 TAAAATTTT-ATTTTAC
4722378 TATGCAGACT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 5 0.15
24 17 0.50
25 12 0.35
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (25 bp):
TAAAATTTTATTTTACAAAAAATAT
Found at i:4731588 original size:18 final size:18
Alignment explanation
Indices: 4731548--4731590 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4731538 CCCTCGCTAT
* *
4731548 TGAAGAAGAAGAGGAGGA
1 TGAAGAAGAAGAAGAAGA
*
4731566 GGAAGAAGAAGAAGAAGA
1 TGAAGAAGAAGAAGAAGA
4731584 TGAAGAA
1 TGAAGAA
4731591 CATCACGAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.40, T:0.05
Consensus pattern (18 bp):
TGAAGAAGAAGAAGAAGA
Found at i:4737104 original size:41 final size:41
Alignment explanation
Indices: 4737059--4737142 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
4737049 AATTTAATCC
4737059 TTAAAACATGTTTTTCCCTGATCTTGAGCTAAATTAATAAT
1 TTAAAACATGTTTTTCCCTGATCTTGAGCTAAATTAATAAT
*
4737100 TTAAAACATGTTTTTTCCTGATCTTGAGCTAAATTAATAAT
1 TTAAAACATGTTTTTCCCTGATCTTGAGCTAAATTAATAAT
4737141 TT
1 TT
4737143 CATTCAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (41 bp):
TTAAAACATGTTTTTCCCTGATCTTGAGCTAAATTAATAAT
Found at i:4738053 original size:16 final size:18
Alignment explanation
Indices: 4738021--4738055 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
4738011 TAATTAACCC
4738021 CTCAATTAAACTAATTTT
1 CTCAATTAAACTAATTTT
4738039 CTCAATT-AA-TAATTTT
1 CTCAATTAAACTAATTTT
4738055 C
1 C
4738056 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (18 bp):
CTCAATTAAACTAATTTT
Found at i:4742060 original size:33 final size:32
Alignment explanation
Indices: 4742023--4742099 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
4742013 TGTATTAATT
4742023 TTTTAAATGTATACA-ATTGAATCAAAATTAAAA
1 TTTT-AATGTATACATA-TGAATCAAAATTAAAA
* * *
4742056 TTTT-ATATATACATATGAATCACAATTCAAA
1 TTTTAATGTATACATATGAATCAAAATTAAAA
4742087 TTTTATATGTATA
1 TTTTA-ATGTATA
4742100 ATTACACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
31 26 0.70
32 1 0.03
33 10 0.27
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (32 bp):
TTTTAATGTATACATATGAATCAAAATTAAAA
Found at i:4742075 original size:31 final size:31
Alignment explanation
Indices: 4742032--4742094 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
4742022 TTTTTAAATG
4742032 TATACAATTGAATCAAAATTAAAATTTTATA
1 TATACAATTGAATCAAAATTAAAATTTTATA
* *
4742063 TATAC-ATATGAATCACAATTCAAATTTTATA
1 TATACAAT-TGAATCAAAATTAAAATTTTATA
4742094 T
1 T
4742095 GTATAATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.40
Consensus pattern (31 bp):
TATACAATTGAATCAAAATTAAAATTTTATA
Found at i:4742242 original size:19 final size:20
Alignment explanation
Indices: 4742208--4742250 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
4742198 AACTTCCCTT
*
4742208 TTTCCATTTTTACAATTAAC
1 TTTCCATTTTTACAATAAAC
*
4742228 TTTCC-TTTTTCCAATAAAC
1 TTTCCATTTTTACAATAAAC
4742247 TTTC
1 TTTC
4742251 TTAAATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTCCATTTTTACAATAAAC
Found at i:4742381 original size:15 final size:15
Alignment explanation
Indices: 4742361--4742391 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4742351 AAAAAAATTA
4742361 TGAAAATGACTCAAT
1 TGAAAATGACTCAAT
4742376 TGAAAATGACTCAAT
1 TGAAAATGACTCAAT
4742391 T
1 T
4742392 TTAAGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (15 bp):
TGAAAATGACTCAAT
Found at i:4744953 original size:29 final size:29
Alignment explanation
Indices: 4744911--4744969 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
4744901 GTGAAGTTAG
4744911 TCAATACATCACTGGTCTTATACTCTTTA
1 TCAATACATCACTGGTCTTATACTCTTTA
*
4744940 TCAATACATCACTGGTCTTATACTTTTTA
1 TCAATACATCACTGGTCTTATACTCTTTA
4744969 T
1 T
4744970 AATCTCATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (29 bp):
TCAATACATCACTGGTCTTATACTCTTTA
Found at i:4747819 original size:35 final size:35
Alignment explanation
Indices: 4747780--4748116 Score: 404
Period size: 35 Copynumber: 9.6 Consensus size: 35
4747770 CATGGCAAAG
* * ** *
4747780 TGTGAAATGTAGGTACGACATTAACCATGCTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* * * *
4747815 TGTGAAACGTATGTATGGTATCATCTATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* *
4747850 TGTGAAACGTAGGTATAGTATTAACCATATTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* *
4747885 TGTGAAACTTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
*
4747920 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
*
4747955 TGTGAAACGTAGGTATAGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
4747990 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* * * * *
4748025 TGTGAAATGGAGGGATGGTATTATCCATATTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
** ** ** *
4748060 TAAGAAACGTAGGTATGACATTTCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
***
4748095 TGTGAAATACAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
4748117 TCAATAAGGA
Statistics
Matches: 256, Mismatches: 46, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 256 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
Found at i:4749236 original size:3 final size:3
Alignment explanation
Indices: 4749228--4749258 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4749218 ATATATTTAC
4749228 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4749259 AAGTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4752267 original size:47 final size:47
Alignment explanation
Indices: 4752137--4752307 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 47
4752127 ATAGTAAAAC
* * * *
4752137 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * * *
4752186 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCATA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* *
4752232 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
4752279 TATGGTCTTATACGGAAGCACATATCACA
1 TATGGTCTTACACAGTAGCACATATCACA
4752308 TTTCTCCGAA
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 25 0.25
47 55 0.54
48 10 0.10
49 12 0.12
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:4755055 original size:30 final size:30
Alignment explanation
Indices: 4755005--4755061 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
4754995 AAATAGATTT
* * *
4755005 GCCCACGGGCTGGCCTCACGGCCATGTTGA
1 GCCCAAGGGCAGGCCACACGGCCATGTTGA
*
4755035 GCCCAAGGGCAGGCCACACGGGCATGT
1 GCCCAAGGGCAGGCCACACGGCCATGT
4755062 CCAGGTCACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.18, C:0.35, G:0.35, T:0.12
Consensus pattern (30 bp):
GCCCAAGGGCAGGCCACACGGCCATGTTGA
Found at i:4755802 original size:19 final size:20
Alignment explanation
Indices: 4755770--4755809 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4755760 AATGTAAAAT
* *
4755770 AATATTATTTAAAT-TATTA
1 AATATAATTAAAATATATTA
4755789 AATATAATTAAAATATATTA
1 AATATAATTAAAATATATTA
4755809 A
1 A
4755810 CTTACAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATAATTAAAATATATTA
Found at i:4762382 original size:38 final size:38
Alignment explanation
Indices: 4762340--4762415 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
4762330 GAAGATGAAG
4762340 ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
1 ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
4762378 ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
1 ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
4762416 TTGTTAATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (38 bp):
ATAAACAACAAATGTAAATAGATTAAACAAGTCTTACT
Found at i:4762406 original size:19 final size:19
Alignment explanation
Indices: 4762346--4762407 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
4762336 GAAGATAAAC
4762346 AACAAATGTAAATAGATTA
1 AACAAATGTAAATAGATTA
* * * * * *
4762365 AACAAGTCTTACTATA-AA
1 AACAAATGTAAATAGATTA
4762383 CAACAAATGTAAATAGATTA
1 -AACAAATGTAAATAGATTA
4762403 AACAA
1 AACAA
4762408 GTCTTACTTT
Statistics
Matches: 29, Mismatches: 12, Indels: 4
0.64 0.27 0.09
Matches are distributed among these distances:
18 1 0.03
19 27 0.93
20 1 0.03
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.24
Consensus pattern (19 bp):
AACAAATGTAAATAGATTA
Found at i:4762601 original size:122 final size:123
Alignment explanation
Indices: 4762446--4762679 Score: 407
Period size: 122 Copynumber: 1.9 Consensus size: 123
4762436 TCAATAGCAC
4762446 GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCGATCAATGTGCATTTAAT-AAAAAA
1 GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
*
4762510 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGTAGATCAATACTATTGAT
66 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCAATACTATTGAT
* *
4762568 GATCATATTTATCTGCATGATTATAAACTCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
1 GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
* * *
4762633 CAAATGCTACAGTTTAACTAGACTACGAGCAAAAGCTGAGCAGATCA
66 CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCA
4762680 CAGCTAAGAT
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
122 56 0.53
123 49 0.47
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (123 bp):
GATCATATTCATCTGCATGATTATAAACCCATCATAAGTCGATCAATGTGCATTTAATAAAAAAA
CAAATGCTAAAGTTTAACTAGACTAAGAGCAAAAGCCGAGCAGATCAATACTATTGAT
Found at i:4765918 original size:2 final size:2
Alignment explanation
Indices: 4765913--4765939 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4765903 ACACACACAC
4765913 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4765940 GATAGATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4766762 original size:18 final size:18
Alignment explanation
Indices: 4766739--4766775 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4766729 TTGAATAAGA
4766739 ACACCAAAAATAGTTATG
1 ACACCAAAAATAGTTATG
4766757 ACACCAAAAATAGTTATG
1 ACACCAAAAATAGTTATG
4766775 A
1 A
4766776 TGTAATTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (18 bp):
ACACCAAAAATAGTTATG
Found at i:4788832 original size:13 final size:13
Alignment explanation
Indices: 4788814--4788874 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
4788804 AATTTAATAT
4788814 TTTTAAATTTTAA
1 TTTTAAATTTTAA
*
4788827 TTTT-AATCTTAA
1 TTTTAAATTTTAA
* *
4788839 TCTTAATTTTTAA
1 TTTTAAATTTTAA
* *
4788852 ATTTATATTTTTAA
1 TTTTA-AATTTTAA
*
4788866 TTTAAAATT
1 TTTTAAATT
4788875 AAAATATATA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
12 10 0.27
13 16 0.43
14 11 0.30
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:4788870 original size:26 final size:27
Alignment explanation
Indices: 4788835--4788890 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
4788825 AATTTTAATC
** * *
4788835 TTAATCTTAATTTTTAAATTTATATTT
1 TTAATCTTAAAATTAAAATATATATTT
4788862 TTAAT-TTAAAATTAAAATATATATTT
1 TTAATCTTAAAATTAAAATATATATTT
4788888 TTA
1 TTA
4788891 CTTATTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
TTAATCTTAAAATTAAAATATATATTT
Found at i:4789124 original size:20 final size:23
Alignment explanation
Indices: 4789092--4789148 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 23
4789082 GTGATTAATA
4789092 TTAAAA-AATTTAAATAA-AATT
1 TTAAAATAATTTAAATAAGAATT
* *
4789113 TT-AAAT-ATTTAATTAAGATTT
1 TTAAAATAATTTAAATAAGAATT
4789134 TTAAAATAATTTAAA
1 TTAAAATAATTTAAA
4789149 AATAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 12 0.41
21 7 0.24
22 4 0.14
23 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TTAAAATAATTTAAATAAGAATT
Found at i:4792018 original size:29 final size:30
Alignment explanation
Indices: 4791970--4792028 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
4791960 GAATTTAATT
4791970 AAATCAAAATTTCATGTATAAAATTATACA
1 AAATCAAAATTTCATGTATAAAATTATACA
*
4792000 AAATTAAAA-TTCATGTATAAAATTATACA
1 AAATCAAAATTTCATGTATAAAATTATACA
4792029 TTAGATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.34
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTATACA
Found at i:4795552 original size:39 final size:38
Alignment explanation
Indices: 4795509--4795602 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 38
4795499 ACCAATATGG
*
4795509 CACCCAGTACCTCATCGGA-TAGTTCGAAGTAATAGTTGA
1 CACCCAGTACCTCATCGGACTAG-CCGAAGTAA-AGTTGA
**
4795548 CACCCAGTGTCTCATC-GACCTAGCCGAAGTAAAGTTGA
1 CACCCAGTACCTCATCGGA-CTAGCCGAAGTAAAGTTGA
*
4795586 TACCCAGTACCTCATCG
1 CACCCAGTACCTCATCG
4795603 AATCTATCCG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
38 21 0.46
39 22 0.48
40 3 0.07
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (38 bp):
CACCCAGTACCTCATCGGACTAGCCGAAGTAAAGTTGA
Found at i:4795593 original size:38 final size:39
Alignment explanation
Indices: 4795533--4795641 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 39
4795523 TCGGATAGTT
*
4795533 CGAAGTAATAGTTGACACCCAGTGTCTCATCG-ACCTAGC
1 CGAAGTAA-AGTTGATACCCAGTGTCTCATCGAACCTAGC
** * *
4795572 CGAAGTAAAGTTGATACCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTTGATACCCAGTGTCTCATCGAACCTAGC
*
4795611 CGAAG-AAATTTAGTGATACCCAGTGTCTCAT
1 CGAAGTAAA-GT--TGATACCCAGTGTCTCAT
4795642 TGACTCGAGG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
38 23 0.40
39 19 0.33
41 16 0.28
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (39 bp):
CGAAGTAAAGTTGATACCCAGTGTCTCATCGAACCTAGC
Found at i:4795614 original size:39 final size:38
Alignment explanation
Indices: 4795509--4795615 Score: 110
Period size: 39 Copynumber: 2.7 Consensus size: 38
4795499 ACCAATATGG
*
4795509 CACCCAGTACCTCATCGGA-TAGTTCGAAGTAATAGTTGA
1 CACCCAGTACCTCATC-GACTA-TCCGAAGTAATAGTTGA
** *
4795548 CACCCAGTGTCTCATCGACCTAGCCGAAGTAA-AGTTGA
1 CACCCAGTACCTCATCGA-CTATCCGAAGTAATAGTTGA
*
4795586 TACCCAGTACCTCATCGAATCTATCCGAAG
1 CACCCAGTACCTCATCG-A-CTATCCGAAG
4795616 AAATTTAGTG
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.39
39 32 0.57
40 2 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (38 bp):
CACCCAGTACCTCATCGACTATCCGAAGTAATAGTTGA
Found at i:4795794 original size:24 final size:24
Alignment explanation
Indices: 4795732--4795794 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 24
4795722 AGGGTATTCA
*
4795732 ATTCACTTTCTCAATTCTATATCAC
1 ATTCACTTT-TCAATTCTAAATCAC
* * **
4795757 TTTCAATTCACAATTC-AAATCACC
1 ATTCACTTTTCAATTCTAAATCA-C
4795781 ATTCACTTTTCAAT
1 ATTCACTTTTCAAT
4795795 CAATACACTT
Statistics
Matches: 28, Mismatches: 9, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
23 5 0.18
24 17 0.61
25 6 0.21
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTCACTTTTCAATTCTAAATCAC
Found at i:4796560 original size:12 final size:12
Alignment explanation
Indices: 4796545--4796575 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4796535 TTCTCTTTTA
4796545 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
4796557 TTTTTCTTTCTC
1 TTTTTCTTTCCC
4796569 TTTTTCT
1 TTTTTCT
4796576 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:4801363 original size:28 final size:28
Alignment explanation
Indices: 4801331--4801385 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
4801321 ATCATACACA
4801331 TTTAAATAAATAAATAT-ATTAATTTATT
1 TTTAAATAAATAAATATAATT-ATTTATT
*
4801359 TTTAATTAAATAAATATAATTATTTAT
1 TTTAAATAAATAAATATAATTATTTAT
4801386 ATATACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTAAATAAATAAATATAATTATTTATT
Found at i:4807168 original size:19 final size:20
Alignment explanation
Indices: 4807141--4807182 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
4807131 TTTTTTTGCA
* * *
4807141 TTCATTCATTTGCATTACAT
1 TTCATTCATGTACATTAAAT
4807161 TTCA-TCATGTACATTAAAT
1 TTCATTCATGTACATTAAAT
4807180 TTC
1 TTC
4807183 GCGAAAAGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.48
Consensus pattern (20 bp):
TTCATTCATGTACATTAAAT
Found at i:4807672 original size:127 final size:127
Alignment explanation
Indices: 4807438--4807691 Score: 463
Period size: 127 Copynumber: 2.0 Consensus size: 127
4807428 GTTGGCGCAG
4807438 TTGCTGGCTAGAGAACGCGAGAAAGGGAAGAGCACCATGGGGAACGATAATGAAGACCCTATCTA
1 TTGCTGGCTAGAGAACGCGAGAAAGGGAAGAGCACCATGGGGAACGATAATGAAGACCCTATCTA
* *
4807503 TCCTCCAGGCTTTGCTCCGATAAACATCCAACCACAACCGGAGGTGCATCTACGAACGGTAT
66 TCCTCCAGGCTTTGCTCCGATAAACACCCAACCACAACCGGAGGTGCATCCACGAACGGTAT
*
4807565 TTGCTGGCTAGAGAACGCGAGAAAGGGAAGAGCACTATGGGGAACGATAATGAAGACCCTATCTA
1 TTGCTGGCTAGAGAACGCGAGAAAGGGAAGAGCACCATGGGGAACGATAATGAAGACCCTATCTA
* *
4807630 TCCTCCAGGCTTTGCTCCGATAAACACCCAACTACAATCGGAGGTGCATCCACGAACGGTAT
66 TCCTCCAGGCTTTGCTCCGATAAACACCCAACCACAACCGGAGGTGCATCCACGAACGGTAT
4807692 CCGTCACTAT
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 122 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (127 bp):
TTGCTGGCTAGAGAACGCGAGAAAGGGAAGAGCACCATGGGGAACGATAATGAAGACCCTATCTA
TCCTCCAGGCTTTGCTCCGATAAACACCCAACCACAACCGGAGGTGCATCCACGAACGGTAT
Found at i:4811488 original size:19 final size:19
Alignment explanation
Indices: 4811461--4811497 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4811451 CCGAACTCGT
*
4811461 TGAGTTGAGTCCGAGTTCG
1 TGAGATGAGTCCGAGTTCG
*
4811480 TGAGATGAGTCTGAGTTC
1 TGAGATGAGTCCGAGTTC
4811498 ACTTATGGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.14, G:0.35, T:0.32
Consensus pattern (19 bp):
TGAGATGAGTCCGAGTTCG
Found at i:4811489 original size:65 final size:65
Alignment explanation
Indices: 4811415--4811543 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 65
4811405 CCGAACTCGT
* *
4811415 TGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCG
1 TGAGATGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTCCGAGTTCG
* * *
4811480 TGAGATGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGTTGAGTCTGAGTTC
1 TGAGATGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTCCGAGTTC
4811544 ATTTATGGGC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (65 bp):
TGAGATGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTCCGAGTTCG
Found at i:4818106 original size:66 final size:66
Alignment explanation
Indices: 4818000--4818165 Score: 228
Period size: 66 Copynumber: 2.5 Consensus size: 66
4817990 CATTCATACA
* * *
4818000 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAGTTATTTGA
1 TCATTCATAACACATCTAATTAAGAGCATTTGATTCATTTCGATCATACCATCCTAATTATTTGA
*
4818065 T
66 C
* *
4818066 TCATTCATAACACGTTTAATTAAGAGCATTTGATTCATTTCGATCATACCATCCTAATTATTTGA
1 TCATTCATAACACATCTAATTAAGAGCATTTGATTCATTTCGATCATACCATCCTAATTATTTGA
4818131 C
66 C
* * * *
4818132 ACATTCAT--CACATCTAGTTAGGAGCAGTTGATTC
1 TCATTCATAACACATCTAATTAAGAGCATTTGATTC
4818166 GACCATAGCA
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
64 21 0.24
66 67 0.76
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (66 bp):
TCATTCATAACACATCTAATTAAGAGCATTTGATTCATTTCGATCATACCATCCTAATTATTTGA
C
Found at i:4818617 original size:44 final size:44
Alignment explanation
Indices: 4818506--4818632 Score: 134
Period size: 43 Copynumber: 2.9 Consensus size: 44
4818496 GAGCAAATCA
* *
4818506 AAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCG
1 AAGATGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGA-TCG
* * * ** * *
4818550 TA-TTTATAGATCC-TAACCCCCTAAGTAGTAGGGAAACAGATCG
1 AAGATGAT-GGGCCTTAACCCCCTAAGCAGTAGGGTAACAGATCG
4818593 AAGATGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAG
1 AAGATGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAG
4818633 GATTGAAATC
Statistics
Matches: 63, Mismatches: 16, Indels: 8
0.72 0.18 0.09
Matches are distributed among these distances:
43 32 0.51
44 31 0.49
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (44 bp):
AAGATGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGATCG
Found at i:4818756 original size:44 final size:46
Alignment explanation
Indices: 4818699--4818799 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 46
4818689 TAGACCTCCT
* * * *
4818699 TGAAGTT-TCAGTGGAGTTGATTGAAGTCA-C-AAGTCTTATCTCTC
1 TGAAGTTGTCAGTGGAGTAGACTCAAGACAGCGAA-TCTTATCTCTC
*
4818743 TGAAGTTGT-AGTGGAGTAGACTCATGACAGCGAATCTTATCTCTC
1 TGAAGTTGTCAGTGGAGTAGACTCAAGACAGCGAATCTTATCTCTC
4818788 TGAAGTTG-CAGT
1 TGAAGTTGTCAGT
4818800 AGAGCAGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
44 22 0.46
45 24 0.50
46 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (46 bp):
TGAAGTTGTCAGTGGAGTAGACTCAAGACAGCGAATCTTATCTCTC
Found at i:4835470 original size:34 final size:34
Alignment explanation
Indices: 4835432--4835500 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
4835422 AATATTAACC
* *
4835432 ATTGTACTTTTTAAAACTTGAAATTTTAGTCTTA
1 ATTGTACTTTTTAAAACTTAAAATTTTAATCTTA
4835466 ATTGTACTTTTTAAAACTTAAAATTTTAATCTTA
1 ATTGTACTTTTTAAAACTTAAAATTTTAATCTTA
4835500 A
1 A
4835501 CCTAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (34 bp):
ATTGTACTTTTTAAAACTTAAAATTTTAATCTTA
Found at i:4847186 original size:28 final size:28
Alignment explanation
Indices: 4847136--4847219 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
4847126 TTAAATTTTA
* * *
4847136 TCCACGTGTTGTTCAACATCCTATGTTG
1 TCCACATGTCGTTCGACATCCTATGTTG
*
4847164 TTCACATGTCGTTCGACATCCTATGTTG
1 TCCACATGTCGTTCGACATCCTATGTTG
* *
4847192 TCCACGTGTCATTCGACATCCTATGTTG
1 TCCACATGTCGTTCGACATCCTATGTTG
4847220 AAAGCTTAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (28 bp):
TCCACATGTCGTTCGACATCCTATGTTG
Found at i:4851646 original size:44 final size:44
Alignment explanation
Indices: 4851583--4851713 Score: 253
Period size: 44 Copynumber: 3.0 Consensus size: 44
4851573 TCTGCTAGTG
4851583 TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTTT
1 TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTTT
4851627 TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTTT
1 TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTTT
*
4851671 TTAACATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTT
1 TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTT
4851714 GCACATCATT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 86 1.00
ACGTcount: A:0.18, C:0.28, G:0.14, T:0.40
Consensus pattern (44 bp):
TTAATATTCCTTGGTCGCCCAGCTCCTTCCAATTCGTGAATTTT
Found at i:4863880 original size:33 final size:33
Alignment explanation
Indices: 4863842--4863907 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
4863832 GACTGAGTGG
* *
4863842 GAGTGTTTGGTTGCTGGACAGAAGCTGGAATGT
1 GAGTGTTTGGTTGCTAGACAGAAGCTAGAATGT
* *
4863875 GAGTGTTTGGTTGCTAGATAGGAGCTAGAATGT
1 GAGTGTTTGGTTGCTAGACAGAAGCTAGAATGT
4863908 CAAGAAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.08, G:0.38, T:0.32
Consensus pattern (33 bp):
GAGTGTTTGGTTGCTAGACAGAAGCTAGAATGT
Found at i:4865150 original size:19 final size:19
Alignment explanation
Indices: 4865126--4865164 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4865116 GATTAAGAGT
4865126 ATGACTTCGTCAACTCACA
1 ATGACTTCGTCAACTCACA
4865145 ATGACTTCGTCAACTCACA
1 ATGACTTCGTCAACTCACA
4865164 A
1 A
4865165 AGTCAAGTCA
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:0.33, C:0.31, G:0.10, T:0.26
Consensus pattern (19 bp):
ATGACTTCGTCAACTCACA
Found at i:4872937 original size:22 final size:23
Alignment explanation
Indices: 4872911--4872955 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
4872901 ACCTGATCAG
4872911 AATACGACACAT-AAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
4872933 AATACGACACATAAAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
4872956 CAGTAAAGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (23 bp):
AATACGACACATAAAGTGCCTGA
Found at i:4873171 original size:23 final size:24
Alignment explanation
Indices: 4873145--4873239 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
4873135 AAATGTCCAA
4873145 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
4873168 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
4873196 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
4873225 CCAAAACACACCAGA
1 CCAAAACACACCAGA
4873240 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:4873241 original size:29 final size:28
Alignment explanation
Indices: 4873159--4873242 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
4873149 AACACACCAG
* *
4873159 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
4873187 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
4873215 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
4873243 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:4878910 original size:11 final size:11
Alignment explanation
Indices: 4878894--4878918 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4878884 CCAACCCCCA
4878894 TTTTTCCTTTC
1 TTTTTCCTTTC
4878905 TTTTTCCTTTC
1 TTTTTCCTTTC
4878916 TTT
1 TTT
4878919 GAAACACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTCCTTTC
Found at i:4881163 original size:27 final size:27
Alignment explanation
Indices: 4881115--4881273 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
4881105 GTGAGGCTGC
* *
4881115 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
4881142 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
4881168 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
4881195 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
4881222 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
4881249 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
4881274 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:4881274 original size:54 final size:54
Alignment explanation
Indices: 4881133--4881276 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
4881123 GTGACGAAGT
* * *
4881133 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
4881187 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
4881241 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
4881277 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:4882901 original size:26 final size:26
Alignment explanation
Indices: 4882870--4882973 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
4882860 ATGCCCATCG
*
4882870 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
*
4882896 TAGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
4882922 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
4882948 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
4882974 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:4888072 original size:18 final size:19
Alignment explanation
Indices: 4888049--4888088 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
4888039 TTCCTTTAAA
4888049 TTATTTCAT-TATTTA-TTT
1 TTATTTCATCT-TTTACTTT
4888067 TTATTTCATCTTTTACTTT
1 TTATTTCATCTTTTACTTT
4888086 TTA
1 TTA
4888089 CTTTTTACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTCATCTTTTACTTT
Found at i:4889255 original size:44 final size:45
Alignment explanation
Indices: 4889158--4889282 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 45
4889148 GAACGAAATG
* * *
4889158 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGAAAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGAAAGGAATA
* *
4889204 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGAAAGGAATA
** * *
4889248 ATTCATGTAAGTCCATATCAAAGACATGGCATTGG
1 AGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
4889283 CAGGATATTG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 36 0.54
45 1 0.01
46 30 0.45
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGAAAGGAATA
Found at i:4893560 original size:18 final size:19
Alignment explanation
Indices: 4893522--4893561 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
4893512 CCCATCTTTC
4893522 TCTTCTAATTGGAATTTTA
1 TCTTCTAATTGGAATTTTA
4893541 TCTTCTAATTGGAA-TTTA
1 TCTTCTAATTGGAATTTTA
4893559 TCT
1 TCT
4893562 GATTTTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (19 bp):
TCTTCTAATTGGAATTTTA
Done.