Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 23 of 193
Found at i:7814453 original size:14 final size:14
Alignment explanation
Indices: 7814434--7814460 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7814424 TTAAATTTAA
7814434 AGTAAATTTAAATG
1 AGTAAATTTAAATG
7814448 AGTAAATTTAAAT
1 AGTAAATTTAAAT
7814461 TTAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
AGTAAATTTAAATG
Found at i:7814890 original size:76 final size:76
Alignment explanation
Indices: 7814752--7815190 Score: 627
Period size: 76 Copynumber: 5.8 Consensus size: 76
7814742 GGCTTCATCC
* *
7814752 TGCTCTCACTTCAATTTCAGAGAGATAAAGACTTGCTATCC-A----ACTTCAATTTCAAGAGGA
1 TGCTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGA
*
7814812 TAGGAAGTGATCT
64 TAGGAAATGATCT
* * *
7814825 TGCTCTTATTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATA
1 TGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATA
*
7814890 GGAAATGATTT
66 GGAAATGATCT
* * * **
7814901 TGCTCTTACTTCAATTTCAGAGAGATGAGATTTAATATCCAACTTTACTTCAATTTCAAGAGGAT
1 TGCTCTTACTTCAATTTCAGAGATA-AAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGAT
*
7814966 AGGAAATGATTT
65 AGGAAATGATCT
* *
7814978 TGCTCTTACTTCAATTTCAGCGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA
1 TGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATA
*
7815043 GGAAATAATCT
66 GGAAATGATCT
* * *
7815054 TGCTTTTACTTCAATTTCGGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATA
1 TGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATA
*
7815119 GGAAATAATCT
66 GGAAATGATCT
*
7815130 TGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 TGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAG
7815191 ATAAAGACTT
Statistics
Matches: 330, Mismatches: 30, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
71 20 0.06
73 16 0.05
76 224 0.68
77 70 0.21
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (76 bp):
TGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATA
GGAAATGATCT
Found at i:7815196 original size:191 final size:191
Alignment explanation
Indices: 7814984--7815381 Score: 663
Period size: 191 Copynumber: 2.1 Consensus size: 191
7814974 ATTTTGCTCT
* *
7814984 TACTTCAATTTC-AGCGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
1 TACTTCAATTTCAAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
* * *
7815048 TAATCTTGCTTTTACTTCAATTTCGGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAG
66 TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
* *
7815113 AGGATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
131 AGGATAGGAAATAATCTTGCTCTCACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
* *
7815174 TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
1 TACTTCAATTTCAAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
7815239 TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
66 TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
* * * * *
7815304 AGGATAGGAAATGATCTTGCTCTCACTTCAATTTCAGAGATGAAGATTTGATATCCAGCTT
131 AGGATAGGAAATAATCTTGCTCTCACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
7815365 TACTTCAATTTCAAGAG
1 TACTTCAATTTCAAGAG
7815382 GATAGGAGAT
Statistics
Matches: 193, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
190 12 0.06
191 181 0.94
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (191 bp):
TACTTCAATTTCAAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA
TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
AGGATAGGAAATAATCTTGCTCTCACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
Found at i:7815218 original size:229 final size:229
Alignment explanation
Indices: 7814753--7815225 Score: 647
Period size: 229 Copynumber: 2.1 Consensus size: 229
7814743 GCTTCATCCT
* * *
7814753 GCTCTCACTTCAATTTCAGAGAGATAAAGACTTGCTATCC-A----ACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTC--AGCGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
* * *
7814813 AGGAAGTGATCTTGCTCTTATTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAAT
64 AGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAAT
* * * *
7814878 TTCAAGAGGATAGGAAATGATTTTGCTCTTACTTCAATTTCAGAGAGATGAGATTTAATATCCAA
129 TTCAAGAGGATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGAGATAAGACTTAATATCCAA
* * **
7814943 CTTTACTTCAATTTCAAGAGGATAGGAAATGATTTT
194 CTCTACTTCAATTTCAAGAGGATAAGAAATGATTCA
7814979 GCTCTTACTTCAATTTCAGCGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGCGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
* * *
7815044 GAAATAATCTTGCTTTTACTTCAATTTCGGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTT
66 GAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTT
* **
7815109 CAAGAGGATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATA-AAGACTTGTTATCCAACT
131 CAAGAGGATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGAGATAAGACTTAATATCCAACT
**
7815173 CTACTTCAATTTCAAGA-GATAAAGACTTGATATCCA
196 CTACTTCAATTTCAAGAGGAT-AAGAAATGAT-T-CA
7815209 GCT-TTACTTCAATTTCA
1 GCTCTTACTTCAATTTCA
7815226 AGAGGATAGG
Statistics
Matches: 217, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
224 19 0.09
225 1 0.00
226 16 0.07
227 3 0.01
228 37 0.17
229 138 0.64
230 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (229 bp):
GCTCTTACTTCAATTTCAGCGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
GAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTT
CAAGAGGATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGAGATAAGACTTAATATCCAACT
CTACTTCAATTTCAAGAGGATAAGAAATGATTCA
Found at i:7815272 original size:267 final size:266
Alignment explanation
Indices: 7814907--7815454 Score: 898
Period size: 267 Copynumber: 2.1 Consensus size: 266
7814897 ATTTTGCTCT
* *
7814907 TACTTCAATTTCAGAGAGATGAGATTTAATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAA
1 TACTTCAATTTCA-AGAGATAAGACTTAATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAA
* * * *
7814972 TGATTTTGCTCTTACTTCAATTTCAGCGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
65 TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAG
* * * *
7815037 AGGATAGGAAATAATCTTGCTTTTACTTCAATTTCGGAGATAAAGACTTGTTATCCAGCTTTACT
130 AGGATAGGAAATAATCTTGCTCTCACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACT
7815102 TCAATTTCAAGAGGATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTAT
195 TCAATTTCAAGAGGATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTAT
7815167 CCAACTC
260 CCAACTC
* *
7815174 TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
1 TACTTCAATTTCAAGAGAT-AAGACTTAATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAA
* *
7815239 TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
65 TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAG
* * *
7815304 AGGATAGGAAATGATCTTGCTCTCACTTCAATTTCAGAGATGAAGATTTGATATCCAGCTTTACT
130 AGGATAGGAAATAATCTTGCTCTCACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACT
* **
7815369 TCAATTTCAAGAGGATAGGAGATGGTCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTAT
195 TCAATTTCAAGAGGATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTAT
7815434 CCAACTC
260 CCAACTC
7815441 TACTTCAATTTCAA
1 TACTTCAATTTCAA
7815455 AGGATAGGAA
Statistics
Matches: 260, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
266 6 0.02
267 254 0.98
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (266 bp):
TACTTCAATTTCAAGAGATAAGACTTAATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAAT
AATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGA
GGATAGGAAATAATCTTGCTCTCACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTT
CAATTTCAAGAGGATAGGAAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATC
CAACTC
Found at i:7815289 original size:76 final size:76
Alignment explanation
Indices: 7815174--7815607 Score: 692
Period size: 76 Copynumber: 5.7 Consensus size: 76
7815164 TATCCAACTC
7815174 TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
1 TACTTCAATTTC-AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
7815239 TAATCTTGCTCT
65 TAATCTTGCTCT
7815251 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
1 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
*
7815316 GATCTTGCTCT
66 AATCTTGCTCT
* * * *
7815327 CACTTCAATTTCAGAGATGAAGATTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAGAT
1 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
**
7815392 GGTCTTGCTCT
66 AATCTTGCTCT
* * *
7815403 TACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAA-AGGATAGGAAAT
1 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
*
7815467 AATCTTACTCT
66 AATCTTGCTCT
* *
7815478 TACTTCAATTTCGGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
1 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
7815543 AATCTTGCTCT
66 AATCTTGCTCT
* * * *
7815554 TACTTCAATTTCGGAGAT-AAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
7815608 ATAAAGACTT
Statistics
Matches: 334, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
75 102 0.31
76 220 0.66
77 12 0.04
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (76 bp):
TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
AATCTTGCTCT
Found at i:7815633 original size:76 final size:77
Alignment explanation
Indices: 7814834--7815646 Score: 503
Period size: 76 Copynumber: 10.7 Consensus size: 77
7814824 TTGCTCTTAT
* **
7814834 TTCAATTTC-AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT-AGGAAATG
1 TTCAATTTCAAGAGAT-AAGACTTGATATCCAGCTTTACTTCAATTTCAAGA-GATAAAGACTTG
*
7814897 ATT-T--TGCTCTTAC
64 -TTATCCAGCT-TTAC
* * * * * **
7814910 TTCAATTTCAGAGAGATGAGATTTAATATCCAACTTTACTTCAATTTCAAGAGGAT-AGGAAATG
1 TTCAATTTCA-AGAGATAAGACTTGATATCCAGCTTTACTTCAATTTCAAGA-GATAAAGACTTG
*
7814974 ATT-T--TGCTCTTAC
64 -TTATCCAGCT-TTAC
* * * * * **
7814987 TTCAATTTC-AGCGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT-AGGA--AA
1 TTCAATTTCAAGAGAT-AAGACTTGATATCCAGCTTTACTTCAATTTCAAGA-GATAAAGACTTG
* **
7815048 TAATCTTGCTTTTAC
64 TTATCCAGC-TTTAC
* * * **
7815063 TTCAATTTC-GGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT-AGGA--AA
1 TTCAATTTCAAGAGAT-AAGACTTGATATCCAGCTTTACTTCAATTTCAAGA-GATAAAGACTTG
* **
7815124 TAATCTTGCTCTTAC
64 TTATCCAGCT-TTAC
* * * *
7815139 TTCAATTTC-AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGATAAAGACTTGA
1 TTCAATTTCAAGAGAT-AAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGATAAAGACTTGT
7815203 TATCCAGCTTTAC
65 TATCCAGCTTTAC
* ** **
7815216 TTCAATTTCAAGAGGATAGGAAAT-A-ATCTTGCTCTTACTTCAATTTC-AGAGATAAAGACTTG
1 TTCAATTTCAAGA-GATAAGACTTGATATCCAGCT-TTACTTCAATTTCAAGAGATAAAGACTTG
*
7815278 ATATCCAGCTTTAC
64 TTATCCAGCTTTAC
* ** ** * * *
7815292 TTCAATTTCAAGAGGATAGGAAATG--ATCTTGCTCTCACTTCAATTTC-AGAGATGAAGATTTG
1 TTCAATTTCAAGA-GATAAGACTTGATATCCAGCT-TTACTTCAATTTCAAGAGATAAAGACTTG
*
7815354 ATATCCAGCTTTAC
64 TTATCCAGCTTTAC
* * **
7815368 TTCAATTTCAAGAGGATAGGA---GATGGTCTTGCTCTTACTTCAATTTC-AGAGATAAAGACTT
1 TTCAATTTCAAGA-GATAAGACTTGAT-ATCCAGCT-TTACTTCAATTTCAAGAGATAAAGACTT
* *
7815429 GTTATCCAACTCTAC
63 GTTATCCAGCTTTAC
* ** * *
7815444 TTCAATTTCAA-AGGATAGGAAAT-A-ATCTTA-CTCTTACTTCAATTTC-GGAGATAAAGACTT
1 TTCAATTTCAAGA-GATAAGACTTGATATC-CAGCT-TTACTTCAATTTCAAGAGATAAAGACTT
7815504 GTTATCCAGCTTTAC
63 GTTATCCAGCTTTAC
* ** ** *
7815519 TTCAATTTCAAGAGGATAGGAAAT-A-ATCTTGCTCTTACTTCAATTTC-GGAGAT-AAGACTTG
1 TTCAATTTCAAGA-GATAAGACTTGATATCCAGCT-TTACTTCAATTTCAAGAGATAAAGACTTG
* *
7815580 TTATCCAACTCTAC
64 TTATCCAGCTTTAC
7815594 TTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 TTCAATTTCAAGAGAT-AAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
7815647 GATAGGAAAT
Statistics
Matches: 650, Mismatches: 59, Indels: 55
0.85 0.08 0.07
Matches are distributed among these distances:
73 2 0.00
74 4 0.01
75 111 0.17
76 410 0.63
77 101 0.16
78 19 0.03
79 3 0.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (77 bp):
TTCAATTTCAAGAGATAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGATAAAGACTTGTT
ATCCAGCTTTAC
Found at i:7815635 original size:227 final size:229
Alignment explanation
Indices: 7815136--7815642 Score: 749
Period size: 227 Copynumber: 2.2 Consensus size: 229
7815126 ATCTTGCTCT
* * *
7815136 TACTTCAATTTC-AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGATAAAGACT
1 TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTC-AGAGATAAAGACT
* * *
7815200 TGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATAATCTTGCTCTTACTTCAATTTCAG
65 TGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATAATCTTACTCTTACTTCAATTTCAG
*
7815265 AGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTCAC
130 AGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATAATCTTGCTCTCAC
* * *
7815330 TTCAATTTCAGAGATGAAGATTTGATATCCAGCTT
195 TTCAATTTCAGAGATGAAGACTTGATATCCAACTC
* * **
7815365 TACTTCAATTTCAAGAGGAT-AGGA---GATGGTCTTGCTCTTACTTCAATTTCAGAGATAAAGA
1 TACTTCAATTTCAAGA-GATAAAGACTTGAT-ATCCAGCT-TTACTTCAATTTCAGAGATAAAGA
*
7815426 CTTGTTATCCAACTCTACTTCAATTTCAA-AGGATAGGAAATAATCTTACTCTTACTTCAATTTC
63 CTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATAATCTTACTCTTACTTCAATTTC
* * *
7815490 GGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATAATCTTGCTCTT
128 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATAATCTTGCTCTC
* *
7815555 ACTTCAATTTCGGAGAT-AAGACTTGTTATCCAACTC
193 ACTTCAATTTCAGAGATGAAGACTTGATATCCAACTC
7815591 TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCA
7815643 AGAGGATAGG
Statistics
Matches: 246, Mismatches: 24, Indels: 18
0.85 0.08 0.06
Matches are distributed among these distances:
225 3 0.01
226 34 0.14
227 127 0.52
228 46 0.19
229 27 0.11
230 6 0.02
231 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (229 bp):
TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAGAGATAAAGACTT
GATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATAATCTTACTCTTACTTCAATTTCAGA
GATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATAATCTTGCTCTCACT
TCAATTTCAGAGATGAAGACTTGATATCCAACTC
Found at i:7827834 original size:29 final size:29
Alignment explanation
Indices: 7827791--7828010 Score: 117
Period size: 29 Copynumber: 7.5 Consensus size: 29
7827781 CGCGCGGGGC
*
7827791 AAAATGGTAATTTTTGGTGAAACCGGGGTTA
1 AAAATGG-AA-TTTTGGTGAAATCGGGGTTA
7827822 AAAATGGAATTTT-G-GAAAGTTCGAGGG-T-
1 AAAATGGAATTTTGGTGAAA--TCG-GGGTTA
*
7827850 AAAATGATAATTTTGGTGAAATCGGGGTTA
1 AAAATG-GAATTTTGGTGAAATCGGGGTTA
* *
7827880 AAAATGGAATTTT-G-AAAAGTTCAAGGG-T-
1 AAAATGGAATTTTGGTGAAA--TC-GGGGTTA
* **
7827908 AAAATGATAATTTTGGTGAAATTAGGGTTA
1 AAAATG-GAATTTTGGTGAAATCGGGGTTA
*
7827938 AAAATGGAATTTT--AGAAAGTTCGAGGG-T-
1 AAAATGGAATTTTGGTGAAA--TCG-GGGTTA
*
7827966 AAAATGGTAATTTTTGATGAAA-CTGGGGTT-
1 AAAATGG-AA-TTTTGGTGAAATC-GGGGTTA
7827996 AAAATGGAATTTTGG
1 AAAATGGAATTTTGG
7828011 AAAGTTTAGG
Statistics
Matches: 150, Mismatches: 14, Indels: 53
0.69 0.06 0.24
Matches are distributed among these distances:
27 11 0.07
28 33 0.22
29 50 0.33
30 38 0.25
31 14 0.09
32 4 0.03
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.32
Consensus pattern (29 bp):
AAAATGGAATTTTGGTGAAATCGGGGTTA
Found at i:7827864 original size:58 final size:58
Alignment explanation
Indices: 7827791--7828037 Score: 345
Period size: 58 Copynumber: 4.2 Consensus size: 58
7827781 CGCGCGGGGC
*
7827791 AAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGATAA-TTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
* * *
7827850 AAAATGATAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTCAAGGGT
1 AAAATGATAATTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
*** *
7827908 AAAATGATAATTTTGGTGAAATTAGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGT
1 AAAATGATAATTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
* * * *
7827966 AAAATGGTAATTTTTGATGAAACTGGGGTT-AAAATGGAATTTTGGAAAGTT-TAGGGGT
1 AAAATGATAA-TTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTCGA-GGGT
7828024 AAAATGATAATTTT
1 AAAATGATAATTTT
7828038 TGGACAGTTT
Statistics
Matches: 170, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
57 5 0.03
58 140 0.82
59 25 0.15
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.33
Consensus pattern (58 bp):
AAAATGATAATTTTGGTGAAACCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
Found at i:7828022 original size:29 final size:27
Alignment explanation
Indices: 7827822--7828029 Score: 129
Period size: 29 Copynumber: 7.2 Consensus size: 27
7827812 ACCGGGGTTA
*
7827822 AAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGAATTTTGGAAAGTTAG-GGGT
* *
7827850 AAAATGATAATTTTGGTGAAA--TCGGGGTT
1 AAAATG-GAATTTT-G-GAAAGTTAGGGG-T
* *
7827879 AAAAATGGAATTTTGAAAAGTTCAAGGGT
1 -AAAATGGAATTTTGGAAAGTT-AGGGGT
* *
7827908 AAAATGATAATTTTGGTGAAA-TTAGGGTT
1 AAAATG-GAATTTT-G-GAAAGTTAGGGGT
* *
7827937 AAAAATGGAATTTTAGAAAGTTCGAGGGT
1 -AAAATGGAATTTTGGAAAGTTAG-GGGT
*
7827966 AAAATGGTAATTTTTGATGAAA-CT-GGGGTT
1 AAAATGG-AA-TTTTG--GAAAGTTAGGGG-T
7827996 AAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGAATTTTGGAAAG-TTAGGGGT
7828024 AAAATG
1 AAAATG
7828030 ATAATTTTTG
Statistics
Matches: 142, Mismatches: 16, Indels: 44
0.70 0.08 0.22
Matches are distributed among these distances:
26 4 0.03
27 7 0.05
28 39 0.27
29 48 0.34
30 32 0.23
31 8 0.06
32 4 0.03
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.32
Consensus pattern (27 bp):
AAAATGGAATTTTGGAAAGTTAGGGGT
Found at i:7828324 original size:161 final size:162
Alignment explanation
Indices: 7828157--7828455 Score: 510
Period size: 161 Copynumber: 1.9 Consensus size: 162
7828147 TGGGCTAATG
* **
7828157 TTGTAATTAAGCAAAAGTTGATTTGAGGATTAAATTAAAATAAATTAAGAATGATGGGGACTAAA
1 TTGTAATTAAGCAAAAGTTGATTTGAGGATTAAATTAAAACAAATTAAGAATGACAGGGACTAAA
*
7828222 TACATAAATAAACCAAAAA-TGACACATGGCAGCCTCTGGTGCAGTCAAACAGTCAAAAGACTAA
66 TACATAAATAAACCAAAAAGTGACACATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAAGACTAA
7828286 TTTAAAAATCTCAAAATATTCCTGGGTCAATT
131 TTTAAAAATCTCAAAATATTCCTGGGTCAATT
*
7828318 TTGTAATTAAGCAGAAGTTGATTTGAGGATTAAATTAAAACAAATTAAGAATGACAGGGACTAAA
1 TTGTAATTAAGCAAAAGTTGATTTGAGGATTAAATTAAAACAAATTAAGAATGACAGGGACTAAA
* * * *
7828383 TGCATAAATAAACCAAAAAGTGACACGTGGCAGTCTCTAGTGCAGTCAAACAGTCAAAGGACTAA
66 TACATAAATAAACCAAAAAGTGACACATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAAGACTAA
7828448 TTTAAAAA
131 TTTAAAAA
7828456 CCAATTAAAA
Statistics
Matches: 128, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
161 79 0.62
162 49 0.38
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.25
Consensus pattern (162 bp):
TTGTAATTAAGCAAAAGTTGATTTGAGGATTAAATTAAAACAAATTAAGAATGACAGGGACTAAA
TACATAAATAAACCAAAAAGTGACACATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAAGACTAA
TTTAAAAATCTCAAAATATTCCTGGGTCAATT
Found at i:7828523 original size:162 final size:161
Alignment explanation
Indices: 7828182--7828524 Score: 383
Period size: 162 Copynumber: 2.1 Consensus size: 161
7828172 AGTTGATTTG
* **
7828182 AGGATTAAATTAAAATAAATTAAGAATGATGGGGACTAAATACATAAATAAACCAAAAATGACAC
1 AGGATTAAATTAAAACAAATTAAGAATGACAGGGACTAAATACATAAATAAACCAAAAATGACAC
* *
7828247 ATGGCAGCCTCTGGTGCAGTCAAACAGTCAAAAGACTAATTTAAAAATCTCAAAATATTCCTGGG
66 ATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAAGACTAATTTAAAAACCTCAAAATATTCCTGGG
** * * * * * ***
7828312 TCAATTTTGTAATTAAGCAGAAGTTGATTTG
131 TCAAAATTGCAAATAAGAAAAAGGTGATAAA
*
7828343 AGGATTAAATTAAAACAAATTAAGAATGACAGGGACTAAATGCATAAATAAACCAAAAAGTGACA
1 AGGATTAAATTAAAACAAATTAAGAATGACAGGGACTAAATACATAAATAAACCAAAAA-TGACA
* * * *
7828408 CGTGGCAGTCTCTAGTGCAGTCAAACAGTCAAAGGACTAATTTAAAAACCAATTAAAATCA-T-C
65 CATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAAGACTAATTTAAAAACC--TCAAAAT-ATTCC
7828471 -GGG-CAAAATTGCAAATAATTGAAAAAAGGT-A-AAA
127 TGGGTCAAAATTGCAAATAA--G-AAAAAGGTGATAAA
* *
7828505 AGGACTAAATTGAAACAAAT
1 AGGATTAAATTAAAACAAAT
7828525 AAAAAATGCG
Statistics
Matches: 153, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
161 66 0.43
162 71 0.46
163 3 0.02
164 12 0.08
165 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (161 bp):
AGGATTAAATTAAAACAAATTAAGAATGACAGGGACTAAATACATAAATAAACCAAAAATGACAC
ATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAAGACTAATTTAAAAACCTCAAAATATTCCTGGG
TCAAAATTGCAAATAAGAAAAAGGTGATAAA
Found at i:7829212 original size:14 final size:14
Alignment explanation
Indices: 7829193--7829235 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
7829183 GTCTTTTTAC
7829193 TATTTTATTATTAA
1 TATTTTATTATTAA
* *
7829207 TATTTTATTAATAT
1 TATTTTATTATTAA
*
7829221 TA-TTTAATATTAA
1 TATTTTATTATTAA
7829234 TA
1 TA
7829236 AATATTATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTTTATTATTAA
Found at i:7829239 original size:20 final size:21
Alignment explanation
Indices: 7829198--7829243 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
7829188 TTTACTATTT
* *
7829198 TATTA-TTAATATTTTATTAA
1 TATTATTTAATATTTAATAAA
7829218 TATTATTTAATA-TTAATAAA
1 TATTATTTAATATTTAATAAA
7829238 TATTAT
1 TATTAT
7829244 AATTGCTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTATTTAATATTTAATAAA
Found at i:7829282 original size:25 final size:24
Alignment explanation
Indices: 7829238--7829285 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
7829228 TATTAATAAA
7829238 TATTATAATTGCTATCAATATTAC
1 TATTATAATTGCTATCAATATTAC
*
7829262 TATTATTAATTTGTTAT-AATATTA
1 TATTA-TAA-TTGCTATCAATATTA
7829286 AATATTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 10 0.48
26 6 0.29
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TATTATAATTGCTATCAATATTAC
Found at i:7829984 original size:6 final size:6
Alignment explanation
Indices: 7829969--7830027 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
7829959 TTAAATTTGA
* * *
7829969 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT GAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
7830017 ATAAAT TTAAA
1 TTAAAT TTAAA
7830028 ACCCTCTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:7830004 original size:14 final size:14
Alignment explanation
Indices: 7829985--7830011 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7829975 TTAAATTTAA
7829985 AGTAAATTTAAATG
1 AGTAAATTTAAATG
7829999 AGTAAATTTAAAT
1 AGTAAATTTAAAT
7830012 TTAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
AGTAAATTTAAATG
Found at i:7831956 original size:29 final size:29
Alignment explanation
Indices: 7831916--7832081 Score: 114
Period size: 29 Copynumber: 5.7 Consensus size: 29
7831906 CGAGGGGGAC
7831916 AAAATGGTAATTTTGATGAAATCGGGGTTA
1 AAAATGGTAATTTTG-TGAAATCGGGGTTA
7831946 AAAATGG-AATTTTG-GAAGATTCGGGAG-T-
1 AAAATGGTAATTTTGTGAA-A-TCGGG-GTTA
* *
7831974 AAAATGGTAATTTTAGGTAAAATCGAGGTTA
1 AAAATGGTAATTTT--GTGAAATCGGGGTTA
* * * * * *
7832005 AAAATGG-GATTTAGGGAAGTTTGGGGGT-
1 AAAATGGTAATTTTGTGAA-ATCGGGGTTA
*
7832033 AAAATGGTAATTTTGGGTGAAATCGAGGTTA
1 AAAATGGTAATTTT--GTGAAATCGGGGTTA
7832064 AAAATGG-AATTTTG-GAAA
1 AAAATGGTAATTTTGTGAAA
7832082 GTTTAGGGTC
Statistics
Matches: 105, Mismatches: 17, Indels: 31
0.69 0.11 0.20
Matches are distributed among these distances:
27 7 0.07
28 19 0.18
29 29 0.28
30 28 0.27
31 20 0.19
32 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.30, T:0.31
Consensus pattern (29 bp):
AAAATGGTAATTTTGTGAAATCGGGGTTA
Found at i:7832084 original size:59 final size:57
Alignment explanation
Indices: 7831916--7832085 Score: 232
Period size: 59 Copynumber: 2.9 Consensus size: 57
7831906 CGAGGGGGAC
* * *
7831916 AAAATGGTAATTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAGATTCGGGAGT
1 AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAG-TTTGGGAGT
* * * *
7831974 AAAATGGTAATTTTAGGTAAAATCGAGGTTAAAAATGGGATTTAGGGAAGTTTGGGGGT
1 AAAATGGTAATTTT-GGTGAAATCGAGGTTAAAAATGGAATTT-TGGAAGTTTGGGAGT
7832033 AAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
1 AAAATGGTAATTTT-GGTGAAATCGAGGTTAAAAATGGAATTTTGG-AAGTTT
7832086 AGGGTCAAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
58 16 0.16
59 77 0.79
60 5 0.05
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.32
Consensus pattern (57 bp):
AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAGTTTGGGAGT
Found at i:7832096 original size:59 final size:56
Alignment explanation
Indices: 7831916--7832104 Score: 227
Period size: 59 Copynumber: 3.2 Consensus size: 56
7831906 CGAGGGGGAC
* * *
7831916 AAAATGGTAATTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAGATTCGGGAGT
1 AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAG-TTTGGG-GT
* * *
7831974 AAAATGGTAATTTTAGGTAAAATCGAGGTTAAAAATGGGATTTAGGGAAGTTTGGGGGT
1 AAAATGGTAATTTT-GGTGAAATCGAGGTTAAAAATGGAATTT-TGGAAGTTT-GGGGT
*
7832033 AAAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGT
1 AAAATGGTAATTTT-GGTGAAATCGAGGTTAAAAATGGAATTTTGG-AAGTTTGGGGT
*
7832091 CAAAAT-ATAATTTT
1 -AAAATGGTAATTTT
7832105 TTAGAAAGTT
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
58 27 0.24
59 79 0.69
60 8 0.07
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (56 bp):
AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAGTTTGGGGT
Found at i:7832114 original size:30 final size:29
Alignment explanation
Indices: 7832073--7832185 Score: 129
Period size: 30 Copynumber: 3.8 Consensus size: 29
7832063 AAAAATGGAA
* *
7832073 TTTTGGAAAGTTTAGGGTCAAAATATAATT
1 TTTTAGAAAGTTTTGGGTCAAAATATAA-T
* *
7832103 TTTTAGAAAGTTTTGGGGTCAAAGTGTAA-
1 TTTTAGAAAGTTTT-GGGTCAAAATATAAT
7832132 TTTTAGAAAAGTTTTGAGGTCAAAATATAAT
1 TTTTAG-AAAGTTTTG-GGTCAAAATATAAT
* *
7832163 TTTAAAAAAGTTTTGGGTCAAAA
1 TTTTAGAAAGTTTTGGGTCAAAA
7832186 CATGTTCAGG
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
29 15 0.21
30 40 0.56
31 16 0.23
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (29 bp):
TTTTAGAAAGTTTTGGGTCAAAATATAAT
Found at i:7834032 original size:14 final size:14
Alignment explanation
Indices: 7834002--7834039 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
7833992 CCAATTGGCC
7834002 TTTGTAATTTAGACA
1 TTTGTAA-TTAGACA
*
7834017 TTTGTAATTGGACA
1 TTTGTAATTAGACA
7834031 TTT-TAATTA
1 TTTGTAATTA
7834040 AATTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 5 0.24
14 9 0.43
15 7 0.33
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.50
Consensus pattern (14 bp):
TTTGTAATTAGACA
Found at i:7834059 original size:17 final size:17
Alignment explanation
Indices: 7834037--7834161 Score: 162
Period size: 17 Copynumber: 7.3 Consensus size: 17
7834027 GACATTTTAA
* *
7834037 TTAAATTTATAATAATT
1 TTAAATTTAAAATAAAT
7834054 TTAAATTTGAAAATAAAT
1 TTAAATTT-AAAATAAAT
* * *
7834072 TTAAACTCAAATTAAAT
1 TTAAATTTAAAATAAAT
7834089 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
7834106 TTAAATTTAAAATAAAC
1 TTAAATTTAAAATAAAT
*
7834123 TTAAATTTAAAACAAAT
1 TTAAATTTAAAATAAAT
7834140 TT-AATCTTAAAATAAAT
1 TTAAAT-TTAAAATAAAT
7834157 TTAAA
1 TTAAA
7834162 ATGGGTTTGG
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
16 3 0.03
17 75 0.81
18 15 0.16
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:7834092 original size:6 final size:6
Alignment explanation
Indices: 7834053--7834133 Score: 71
Period size: 6 Copynumber: 14.0 Consensus size: 6
7834043 TTATAATAAT
* * *
7834053 TTTAAA TTTGAAA -ATAAA TTTAAA CTCAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
7834100 -ATAAA TTTAAA TTTAAA -ATAAA CTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
7834134 ACAAATTTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
5 15 0.25
6 42 0.70
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:7834094 original size:11 final size:12
Alignment explanation
Indices: 7834054--7834150 Score: 71
Period size: 11 Copynumber: 8.4 Consensus size: 12
7834044 TATAATAATT
7834054 TTAAATTTGAAA-
1 TTAAATTT-AAAC
*
7834066 ATAAATTTAAAC
1 TTAAATTTAAAC
* *
7834078 TCAAA-TTAAAT
1 TTAAATTTAAAC
7834089 TTAAATTTAAA-
1 TTAAATTTAAAC
* *
7834100 ATAAATTTAAAT
1 TTAAATTTAAAC
*
7834112 TTAAA-ATAAAC
1 TTAAATTTAAAC
7834123 TTAAATTTAAAAC
1 TTAAATTT-AAAC
*
7834136 --AAATTTAATC
1 TTAAATTTAAAC
7834146 TTAAA
1 TTAAA
7834151 ATAAATTTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
10 3 0.04
11 37 0.55
12 23 0.34
13 4 0.06
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (12 bp):
TTAAATTTAAAC
Found at i:7834094 original size:23 final size:24
Alignment explanation
Indices: 7834054--7834161 Score: 93
Period size: 23 Copynumber: 4.7 Consensus size: 24
7834044 TATAATAATT
*
7834054 TTAAATTTGAAA-ATAAATTTAAAC
1 TTAAATTT-AAATTTAAATTTAAAC
*
7834078 TCAAA-TTAAATTTAAATTTAAA-
1 TTAAATTTAAATTTAAATTTAAAC
* *
7834100 ATAAATTTAAATTTAAA-ATAAAC
1 TTAAATTTAAATTTAAATTTAAAC
** *
7834123 TTAAATTTAAA-ACAAATTTAATC
1 TTAAATTTAAATTTAAATTTAAAC
*
7834146 TTAAA-ATAAATTTAAA
1 TTAAATTTAAATTTAAA
7834162 ATGGGTTTGG
Statistics
Matches: 66, Mismatches: 13, Indels: 11
0.73 0.14 0.12
Matches are distributed among these distances:
22 17 0.26
23 45 0.68
24 4 0.06
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (24 bp):
TTAAATTTAAATTTAAATTTAAAC
Found at i:7834894 original size:92 final size:92
Alignment explanation
Indices: 7834765--7835793 Score: 1595
Period size: 92 Copynumber: 11.2 Consensus size: 92
7834755 CTTGCTCTTA
* *
7834765 TTCAATTTC-AGAGGATAGGAAAA-GATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAG
1 TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAG
* *
7834828 GGACAAAGGCTTGATATCCAGGTCTAC
66 AGACAAAGGCTTGATATCCAGCTCTAC
* *
7834855 CTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTTAATTTCAGAG
1 TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAG
7834920 AGACAAAGGCTTGATATCCAGCTCTAC
66 AGACAAAGGCTTGATATCCAGCTCTAC
7834947 TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAG
1 TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAG
* *
7835012 AGACGAAGTCTTGATATCCAGCTCTAC
66 AGACAAAGGCTTGATATCCAGCTCTAC
7835039 TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAG
1 TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAG
*
7835104 AGACAAAGGCTTGTTATCCAGCTCTAC
66 AGACAAAGGCTTGATATCCAGCTCTAC
* * * * *
7835131 TTCAATTTCAAGAGGATAAGAAAA-GATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTTACAG
1 TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAG
* * * * *
7835195 GGACGAAGACTTGTTATCCAGCTTTAC
66 AGACAAAGGCTTGATATCCAGCTCTAC
* * *
7835222 TTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTTTATC-TAGCTCTTACTTCAATTCCAG
1 TTCAATTTCAAGAGGATAGGAAAATGATG-TTGGTGCTTCATCTTA-CTCTTACTTCAATTTCAG
*
7835286 AGGGACAAAGGCTTGATATCCAGCTCTAC
64 AGAGACAAAGGCTTGATATCCAGCTCTAC
* * *
7835315 TTTAATTTCAAGAGGATAAGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAA
1 TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAG
7835380 AGACAAAGGCTTGATATCCAGCTCTAC
66 AGACAAAGGCTTGATATCCAGCTCTAC
* ** *
7835407 TTCAATTTCAAGAGGATAGAAAAATGATGTTTTATGCTTTATC-TAGCTCTTACTTCAATTTCAG
1 TTCAATTTCAAGAGGATAGGAAAATGATG-TTGGTGCTTCATCTTA-CTCTTACTTCAATTTCAG
* *
7835471 AGGGACAAAGTCTTGATATCCAGCTCTAC
64 AGAGACAAAGGCTTGATATCCAGCTCTAC
7835500 TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATC-TACTCTTACTTCAATTTCAGAG
1 TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAG
7835564 AGACAAAGGCTTGATATCCAGCTCTAC
66 AGACAAAGGCTTGATATCCAGCTCTAC
*
7835591 TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTTAGAG
1 TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAG
* *
7835656 AGACAAAAGCTTGATATCCAACTCTAC
66 AGACAAAGGCTTGATATCCAGCTCTAC
* *
7835683 TTCAATTTCAAGAGGATAGGAAAATGATGTTTGATGCTTTATC-TAGCTCTTACTTCAATTTCAG
1 TTCAATTTCAAGAGGATAGGAAAATGATG-TTGGTGCTTCATCTTA-CTCTTACTTCAATTTCAG
* * *
7835747 AGGGACAAAGTCTTGATATCCAACTCTAC
64 AGAGACAAAGGCTTGATATCCAGCTCTAC
7835776 TTCAATTTCAAGAGGATA
1 TTCAATTTCAAGAGGATA
7835794 AAAATTGACA
Statistics
Matches: 863, Mismatches: 65, Indels: 19
0.91 0.07 0.02
Matches are distributed among these distances:
90 8 0.01
91 183 0.21
92 439 0.51
93 233 0.27
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (92 bp):
TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTACTCTTACTTCAATTTCAGAG
AGACAAAGGCTTGATATCCAGCTCTAC
Found at i:7835886 original size:40 final size:41
Alignment explanation
Indices: 7835824--7835979 Score: 140
Period size: 40 Copynumber: 3.6 Consensus size: 41
7835814 CATCTTGCTC
*
7835824 TTACTATAACTTCAA-AGAGATAAAGACTCATTATCCATCT
1 TTACTATAACTTCAAGAGAGATAAAGATTCATTATCCATCT
* *
7835864 TTACTATAACTTCAAGAG-GATAAAAATTGACATTTGAAAATTCATCTTGCT
1 TTACTATAACTTCAAGAGAGATAAAGATT--CA-TT----A-TC--CAT-CT
*
7835915 CTTACTATAACTTC-AGAGAGATGAAGATTCATTATCCATCT
1 -TTACTATAACTTCAAGAGAGATAAAGATTCATTATCCATCT
7835956 TTACTATAACTTCAAGAG-GATAAA
1 TTACTATAACTTCAAGAGAGATAAA
7835980 AAAATTGACA
Statistics
Matches: 94, Mismatches: 7, Indels: 30
0.72 0.05 0.23
Matches are distributed among these distances:
40 41 0.44
41 8 0.09
42 4 0.04
43 2 0.02
44 2 0.02
45 1 0.01
47 1 0.01
48 2 0.02
49 2 0.02
50 4 0.04
51 6 0.06
52 21 0.22
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (41 bp):
TTACTATAACTTCAAGAGAGATAAAGATTCATTATCCATCT
Found at i:7836030 original size:94 final size:92
Alignment explanation
Indices: 7835782--7836037 Score: 433
Period size: 92 Copynumber: 2.8 Consensus size: 92
7835772 CTACTTCAAT
*
7835782 TTCAAGAGGATAAAAATTGACATTTGAAAATTCATCTTGCTCTTACTATAACTTCAAAGAGATAA
1 TTCAAGAGGATAAAAATTGACATTTGAAAATTCATCTTGCTCTTACTATAACTTCAGAGAGATAA
7835847 AGACTCATTATCCATCTTTACTATAAC
66 AGACTCATTATCCATCTTTACTATAAC
*
7835874 TTCAAGAGGATAAAAATTGACATTTGAAAATTCATCTTGCTCTTACTATAACTTCAGAGAGATGA
1 TTCAAGAGGATAAAAATTGACATTTGAAAATTCATCTTGCTCTTACTATAACTTCAGAGAGATAA
*
7835939 AGATTCATTATCCATCTTTACTATAAC
66 AGACTCATTATCCATCTTTACTATAAC
* *
7835966 TTCAAGAGGATAAAAAAATTGACATTT-AAAGCTTTATCTTGCTCTTACTATAACTTCAGAGAGA
1 TTCAAGAGGAT--AAAAATTGACATTTGAAA-ATTCATCTTGCTCTTACTATAACTTCAGAGAGA
7836030 TAAAGACT
63 TAAAGACT
7836038 TTTCCCTTTT
Statistics
Matches: 154, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
92 100 0.65
93 3 0.02
94 51 0.33
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.34
Consensus pattern (92 bp):
TTCAAGAGGATAAAAATTGACATTTGAAAATTCATCTTGCTCTTACTATAACTTCAGAGAGATAA
AGACTCATTATCCATCTTTACTATAAC
Found at i:7836197 original size:50 final size:50
Alignment explanation
Indices: 7836042--7836197 Score: 147
Period size: 50 Copynumber: 3.1 Consensus size: 50
7836032 AAGACTTTTC
* *
7836042 CCTTTTGTCTTTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTT
1 CCTTTTCTGTTTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTT
** * * * * * *
7836092 -CTCGTCGTGTCTTTTGAGGTACACGG-TCCGTCGTTGC-GACTTAAATCTTT
1 CCTTTTC-TGT-TTTTGCGGTAC-TGGATCTGCCGTTGCGGTCTTAGATCTTT
* *
7836142 CCCTTTTCTGTTTTTGCGATACTGGATCTGCCATTGCGGTCTTAGATCTTT
1 -CCTTTTCTGTTTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTT
7836193 CCTTT
1 CCTTT
7836198 CCATGCTTTT
Statistics
Matches: 79, Mismatches: 20, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
49 5 0.06
50 35 0.44
51 33 0.42
52 6 0.08
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.44
Consensus pattern (50 bp):
CCTTTTCTGTTTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTT
Found at i:7836208 original size:51 final size:49
Alignment explanation
Indices: 7836052--7836213 Score: 132
Period size: 51 Copynumber: 3.2 Consensus size: 49
7836042 CCTTTTGTCT
*
7836052 TTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTT-CTCGTCGTGTC
1 TTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTTCCT-TTC-TG-C
* * * * * * *
7836103 TTTTGAGGTACACGG-TCCGTCGTTGC-GACTTAAATCTTTCCCTTTTCTGT
1 TTTTGCGGTAC-TGGATCTGCCGTTGCGGTCTTAGATCTTT-CC-TTTCTGC
* *
7836153 TTTTGCGATACTGGATCTGCCATTGCGGTCTTAGATCTTTCCTTTCCATGC
1 TTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTTCCTTT-C-TGC
*
7836204 TTTTGAGGTA
1 TTTTGCGGTA
7836214 TACGGTCTGC
Statistics
Matches: 84, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
49 5 0.06
50 31 0.37
51 42 0.50
52 5 0.06
53 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (49 bp):
TTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTTCCTTTCTGC
Found at i:7836213 original size:101 final size:101
Alignment explanation
Indices: 7836038--7836220 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 101
7836028 GATAAAGACT
* * * *
7836038 TTTCCCTTTTGTCTTTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTTCTCGTCGTGTC
1 TTTCCCTTTTCTCTTTTTGCGATACTGGATCTGCCATTGCGGTCTTAGATCTTTCTCGTCATGTC
7836103 TTTTGAGGTACACGGTCCGTCGTTGCGACTTAAATC
66 TTTTGAGGTACACGGTCCGTCGTTGCGACTTAAATC
* *
7836139 TTTCCCTTTTCTGTTTTTGCGATACTGGATCTGCCATTGCGGTCTTAGATCTTTC-CTTTCCATG
1 TTTCCCTTTTCTCTTTTTGCGATACTGGATCTGCCATTGCGGTCTTAGATCTTTCTC-GT-CATG
*
7836203 -CTTTTGAGGTATACGGTC
64 TCTTTTGAGGTACACGGTC
7836221 TGCCATTGTG
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
100 1 0.01
101 69 0.95
102 3 0.04
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.43
Consensus pattern (101 bp):
TTTCCCTTTTCTCTTTTTGCGATACTGGATCTGCCATTGCGGTCTTAGATCTTTCTCGTCATGTC
TTTTGAGGTACACGGTCCGTCGTTGCGACTTAAATC
Found at i:7836255 original size:101 final size:101
Alignment explanation
Indices: 7836038--7836256 Score: 255
Period size: 101 Copynumber: 2.2 Consensus size: 101
7836028 GATAAAGACT
* * * * *
7836038 TTTCCCTTTTGTCTTTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTTCTCGTCGTGTC
1 TTTCCATTTTGTGTTTTTGCGATACTGGATCTGCCATTGCGGTCTTAGATCTTTCTCGTCATGTC
* * *
7836103 TTTTGAGGTACACGGTCCGTCGTTGCGACTTAAATC
66 TTTTGAGGTACACGGTCCGCCATTGCGACTTAAACC
* * *
7836139 TTTCCCTTTTCTGTTTTTGCGATACTGGATCTGCCATTGCGGTCTTAGATCTTTC-CTTTCCATG
1 TTTCCATTTTGTGTTTTTGCGATACTGGATCTGCCATTGCGGTCTTAGATCTTTCTC-GT-CATG
* * * *
7836203 -CTTTTGAGGTATACGGTCTGCCATTGTGACTTAGACC
64 TCTTTTGAGGTACACGGTCCGCCATTGCGACTTAAACC
7836240 TTT-CATTGTTGTGTTTT
1 TTTCCATT-TTGTGTTTT
7836257 GTGGTGCTGA
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
100 4 0.04
101 93 0.93
102 3 0.03
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.44
Consensus pattern (101 bp):
TTTCCATTTTGTGTTTTTGCGATACTGGATCTGCCATTGCGGTCTTAGATCTTTCTCGTCATGTC
TTTTGAGGTACACGGTCCGCCATTGCGACTTAAACC
Found at i:7838419 original size:23 final size:23
Alignment explanation
Indices: 7838389--7838440 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
7838379 ATCTTGACCC
*
7838389 TTTTTTGTTTTGTTTTTCTTCTT
1 TTTTTTGTTTTGTTCTTCTTCTT
7838412 TTTTTTGTTTTGTTCTTCTTCTT
1 TTTTTTGTTTTGTTCTTCTTCTT
7838435 TTTTTT
1 TTTTTT
7838441 ATTTGGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.83
Consensus pattern (23 bp):
TTTTTTGTTTTGTTCTTCTTCTT
Found at i:7843049 original size:30 final size:29
Alignment explanation
Indices: 7843015--7843235 Score: 172
Period size: 30 Copynumber: 7.5 Consensus size: 29
7843005 CGGGGGGGAC
*
7843015 AAATGGTAATTTTGATGAAATCGGGGTTAA
1 AAATGG-AATTTTGGTGAAATCGGGGTTAA
*
7843045 AAATGGAATTTT-G-GAAGATTCGGGGGT-A
1 AAATGGAATTTTGGTGAA-A-TCGGGGTTAA
*
7843073 AAATGGTAATTTTAGGTGAAATCGAGGTTAA
1 AAATGG-AATTTT-GGTGAAATCGGGGTTAA
* * * *
7843104 AAATGGGA-TTTGGGGAAGTCTGGGGGT-A
1 AAATGGAATTTTGGTGAAATC-GGGGTTAA
*
7843132 AAATGGTAATTTTGGGTGAAATCGAGGTTAA
1 AAATGG-AATTTT-GGTGAAATCGGGGTTAA
*
7843163 AAATGGAATTTT-G-GAAAGTTTAGGGG-T-A
1 AAATGGAATTTTGGTGAAA---TCGGGGTTAA
7843191 AAATGGTAATTTTGGATGAAATCGGGGTTAA
1 AAATGG-AATTTTGG-TGAAATCGGGGTTAA
*
7843222 AAATAGAATTTTGG
1 AAATGGAATTTTGG
7843236 AAAGTTTAGG
Statistics
Matches: 152, Mismatches: 18, Indels: 42
0.72 0.08 0.20
Matches are distributed among these distances:
27 7 0.05
28 30 0.20
29 39 0.26
30 40 0.26
31 29 0.19
32 7 0.05
ACGTcount: A:0.35, C:0.03, G:0.31, T:0.31
Consensus pattern (29 bp):
AAATGGAATTTTGGTGAAATCGGGGTTAA
Found at i:7843238 original size:59 final size:59
Alignment explanation
Indices: 7843015--7843254 Score: 326
Period size: 59 Copynumber: 4.1 Consensus size: 59
7843005 CGGGGGGGAC
* **
7843015 AAATGGTAATTTT-GATGAAATCGGGGTTAAAAATGGAATTTTGG-AAGATTCGGGGGTA
1 AAATGGTAATTTTGGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAG-TTTAGGGGTA
* * * * *
7843073 AAATGGTAATTTTAGG-TGAAATCGAGGTTAAAAATGGGATTTGGGGAAGTCTGGGGGTA
1 AAATGGTAATTTT-GGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTA
*
7843132 AAATGGTAATTTTGGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTA
1 AAATGGTAATTTTGGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTA
* *
7843191 AAATGGTAATTTTGGATGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTTTA-GGGTCA
1 AAATGGTAATTTTGGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT-A
7843250 AAATG
1 AAATG
7843255 TATTTTTTAG
Statistics
Matches: 164, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
58 19 0.12
59 141 0.86
60 4 0.02
ACGTcount: A:0.35, C:0.03, G:0.31, T:0.31
Consensus pattern (59 bp):
AAATGGTAATTTTGGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTA
Found at i:7843280 original size:30 final size:31
Alignment explanation
Indices: 7843228--7843341 Score: 107
Period size: 30 Copynumber: 3.8 Consensus size: 31
7843218 TTAAAAATAG
* *
7843228 AATTTTGGAAAG-TTTAGGGTCAAAATGTAT
1 AATTTTAGAAAGTTTTGGGGTCAAAATGTAT
*
7843258 -TTTTTAGAAAGTTTTGGGGTC-AAA-GTAT
1 AATTTTAGAAAGTTTTGGGGTCAAAATGTAT
*
7843286 AATTTTAGAAAAGTTTCGGGGTCAAAA--TAT
1 AATTTTAG-AAAGTTTTGGGGTCAAAATGTAT
* *
7843316 AATTTTA-AAATTTTTTTGGGTCAAAA
1 AATTTTAGAAA-GTTTTGGGGTCAAAA
7843342 CATGTTCAGG
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
28 7 0.10
29 30 0.42
30 31 0.44
31 3 0.04
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.39
Consensus pattern (31 bp):
AATTTTAGAAAGTTTTGGGGTCAAAATGTAT
Found at i:7845181 original size:14 final size:14
Alignment explanation
Indices: 7845151--7845188 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
7845141 CCAATTGGCC
7845151 TTTGTAATTTAGACA
1 TTTGTAA-TTAGACA
*
7845166 TTTGTAATTGGACA
1 TTTGTAATTAGACA
7845180 TTT-TAATTA
1 TTTGTAATTA
7845189 AATTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 5 0.24
14 9 0.43
15 7 0.33
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.50
Consensus pattern (14 bp):
TTTGTAATTAGACA
Found at i:7845208 original size:17 final size:17
Alignment explanation
Indices: 7845186--7845310 Score: 162
Period size: 17 Copynumber: 7.3 Consensus size: 17
7845176 GACATTTTAA
* *
7845186 TTAAATTTATAATAATT
1 TTAAATTTAAAATAAAT
7845203 TTAAATTTGAAAATAAAT
1 TTAAATTT-AAAATAAAT
* * *
7845221 TTAAACTCAAATTAAAT
1 TTAAATTTAAAATAAAT
7845238 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
7845255 TTAAATTTAAAATAAAC
1 TTAAATTTAAAATAAAT
*
7845272 TTAAATTTAAAACAAAT
1 TTAAATTTAAAATAAAT
7845289 TT-AATCTTAAAATAAAT
1 TTAAAT-TTAAAATAAAT
7845306 TTAAA
1 TTAAA
7845311 ATGGGTTTGA
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
16 3 0.03
17 75 0.81
18 15 0.16
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:7845241 original size:6 final size:6
Alignment explanation
Indices: 7845202--7845282 Score: 71
Period size: 6 Copynumber: 14.0 Consensus size: 6
7845192 TTATAATAAT
* * *
7845202 TTTAAA TTTGAAA -ATAAA TTTAAA CTCAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
7845249 -ATAAA TTTAAA TTTAAA -ATAAA CTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
7845283 ACAAATTTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
5 15 0.25
6 42 0.70
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:7845243 original size:11 final size:12
Alignment explanation
Indices: 7845203--7845299 Score: 71
Period size: 11 Copynumber: 8.4 Consensus size: 12
7845193 TATAATAATT
7845203 TTAAATTTGAAA-
1 TTAAATTT-AAAC
*
7845215 ATAAATTTAAAC
1 TTAAATTTAAAC
* *
7845227 TCAAA-TTAAAT
1 TTAAATTTAAAC
7845238 TTAAATTTAAA-
1 TTAAATTTAAAC
* *
7845249 ATAAATTTAAAT
1 TTAAATTTAAAC
*
7845261 TTAAA-ATAAAC
1 TTAAATTTAAAC
7845272 TTAAATTTAAAAC
1 TTAAATTT-AAAC
*
7845285 --AAATTTAATC
1 TTAAATTTAAAC
7845295 TTAAA
1 TTAAA
7845300 ATAAATTTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
10 3 0.04
11 37 0.55
12 23 0.34
13 4 0.06
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (12 bp):
TTAAATTTAAAC
Found at i:7845243 original size:23 final size:24
Alignment explanation
Indices: 7845203--7845310 Score: 93
Period size: 23 Copynumber: 4.7 Consensus size: 24
7845193 TATAATAATT
*
7845203 TTAAATTTGAAA-ATAAATTTAAAC
1 TTAAATTT-AAATTTAAATTTAAAC
*
7845227 TCAAA-TTAAATTTAAATTTAAA-
1 TTAAATTTAAATTTAAATTTAAAC
* *
7845249 ATAAATTTAAATTTAAA-ATAAAC
1 TTAAATTTAAATTTAAATTTAAAC
** *
7845272 TTAAATTTAAA-ACAAATTTAATC
1 TTAAATTTAAATTTAAATTTAAAC
*
7845295 TTAAA-ATAAATTTAAA
1 TTAAATTTAAATTTAAA
7845311 ATGGGTTTGA
Statistics
Matches: 66, Mismatches: 13, Indels: 11
0.73 0.14 0.12
Matches are distributed among these distances:
22 17 0.26
23 45 0.68
24 4 0.06
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (24 bp):
TTAAATTTAAATTTAAATTTAAAC
Found at i:7848454 original size:20 final size:19
Alignment explanation
Indices: 7848429--7848467 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7848419 AAATAGAATT
7848429 ATAATTTAATACTTTTAAAA
1 ATAA-TTAATACTTTTAAAA
**
7848449 ATAATTAATTTTTTTAAAA
1 ATAATTAATACTTTTAAAA
7848468 TTATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAATTAATACTTTTAAAA
Found at i:7849071 original size:11 final size:11
Alignment explanation
Indices: 7849057--7849087 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
7849047 GTATAATATT
7849057 TAATTTTTTTC
1 TAATTTTTTTC
7849068 TAATTTTTTTC
1 TAATTTTTTTC
7849079 TAAGTTTTT
1 TAA-TTTTT
7849088 ATCTTAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.71
Consensus pattern (11 bp):
TAATTTTTTTC
Found at i:7849077 original size:12 final size:12
Alignment explanation
Indices: 7849060--7849097 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
7849050 TAATATTTAA
7849060 TTTTTTTCTAA-
1 TTTTTTTCTAAG
7849071 TTTTTTTCTAAG
1 TTTTTTTCTAAG
*
7849083 TTTTTATCTTAAG
1 TTTTTTTC-TAAG
7849096 TT
1 TT
7849098 CAAGAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 11 0.46
12 7 0.29
13 6 0.25
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.68
Consensus pattern (12 bp):
TTTTTTTCTAAG
Found at i:7849601 original size:230 final size:231
Alignment explanation
Indices: 7849177--7849628 Score: 574
Period size: 230 Copynumber: 2.0 Consensus size: 231
7849167 AGCAATTAAA
* *
7849177 TTCATTTTAACATCTGAATTTTTTTGTCAACTTTAGTATTTGAATTTAATAACTAGATTCATTTT
1 TTCACTTTAACATCTGAATTTTTTTGTCAACTTTAATATTTGAATTTAATAACTAGATTCATTTT
* * * * *
7849242 GGTCTATCAACTTGAATTCCTTCAAGATCTGATGATGTGATCAGTGTTACTGAAATATGATTGGA
66 GGTCTATCAACTTGAACTCCTTCAAAATCTGATGATGTGATCAGTATTACTGAAACACGATTGGA
* * * * **
7849307 TTAGTCGCTCGAACCGATTGGACCTTAATTGATTGGTACAATGGTCAAAACAAAGCGGTTGAACC
131 TTAGTCGCTCGAACCAATTGGACCTTAATTGATTGGAACAACGGTCAAAACAAAACAATTGAACC
7849372 GATTAAATAAAAAACAACTTGAAATTGTCAATCAGG
196 GATTAAATAAAAAACAACTTGAAATTGTCAATCAGG
* * * * *
7849408 TTCACTTTAATATCTGTA-TTTTTTGTCCACTTTAATACTTT-AATTTGATAATTAGA-TCTATT
1 TTCACTTTAACATCTGAATTTTTTTGTCAACTTTAATA-TTTGAATTTAATAACTAGATTC-ATT
* * * **
7849470 TTGGT-TCATGAACTTGGACTCCGTT-AAAATTTGATGATGTGATCAGTATTTTTGAAACACGAT
64 TTGGTCT-ATCAACTTGAACTCC-TTCAAAATCTGATGATGTGATCAGTATTACTGAAACACGAT
* *
7849533 TGGATTAGTCGCTC-AGACCAATTGGATCTTAATTGATTGGAACAACGGTCAAAACAAAATAATT
127 TGGATTAGTCGCTCGA-ACCAATTGGACCTTAATTGATTGGAACAACGGTCAAAACAAAACAATT
**
7849597 GAACCGATTAAATTGAAAACAACTTGAAATTG
191 GAACCGATTAAATAAAAAACAACTTGAAATTG
7849629 ATAAATATAA
Statistics
Matches: 189, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
229 4 0.02
230 165 0.87
231 20 0.11
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (231 bp):
TTCACTTTAACATCTGAATTTTTTTGTCAACTTTAATATTTGAATTTAATAACTAGATTCATTTT
GGTCTATCAACTTGAACTCCTTCAAAATCTGATGATGTGATCAGTATTACTGAAACACGATTGGA
TTAGTCGCTCGAACCAATTGGACCTTAATTGATTGGAACAACGGTCAAAACAAAACAATTGAACC
GATTAAATAAAAAACAACTTGAAATTGTCAATCAGG
Found at i:7849702 original size:9 final size:9
Alignment explanation
Indices: 7849688--7849726 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
7849678 AAAATTTTTA
7849688 TTTTTTAAT
1 TTTTTTAAT
7849697 TTTTTTAAAT
1 TTTTTT-AAT
*
7849707 TTTTTAAATT
1 TTTTTTAA-T
7849717 TTTTTTAAT
1 TTTTTTAAT
7849726 T
1 T
7849727 ATTGTTAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 10 0.38
10 16 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:7849707 original size:10 final size:10
Alignment explanation
Indices: 7849688--7849726 Score: 55
Period size: 9 Copynumber: 4.1 Consensus size: 10
7849678 AAAATTTTTA
7849688 TTTTTT-AAT
1 TTTTTTAAAT
7849697 TTTTTTAAA-
1 TTTTTTAAAT
7849706 TTTTTTAAAT
1 TTTTTTAAAT
*
7849716 TTTTTTTAAT
1 TTTTTTAAAT
7849726 T
1 T
7849727 ATTGTTAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 15 0.56
10 12 0.44
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:7849710 original size:19 final size:19
Alignment explanation
Indices: 7849687--7849726 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
7849677 TAAAATTTTT
7849687 ATTTTTT-AATTTTTTTAA
1 ATTTTTTAAATTTTTTTAA
*
7849705 ATTTTTTAAATTTTTTTTA
1 ATTTTTTAAATTTTTTTAA
7849724 ATT
1 ATT
7849727 ATTGTTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTTTAAATTTTTTTAA
Found at i:7852884 original size:90 final size:88
Alignment explanation
Indices: 7852789--7852994 Score: 234
Period size: 90 Copynumber: 2.3 Consensus size: 88
7852779 AAACTTAAAA
* * *
7852789 AAAAAATCAATTAAGCCTCTTTTTTTTTTTTAACACTCAATT-GACAACTTGAACTTTCAAAATG
1 AAAAAAGCAATTAAGCC-CTTGTTTTTTTCT-ACACTCAATTGGA-AACTTGAACTTTCAAAATG
* *
7852853 CATAAAAAAATACCCTCAAACTTCTTC
63 CAT-AAAAAAGACCCTCAAAATTCTTC
* * * * * * *
7852880 AAAAAAAGCAATTAAGTCCATGCTTTTTTCTCCACTCAATTGGATACTTTAACTTTCAAAATGTA
1 -AAAAAAGCAATTAAGCCCTTGTTTTTTTCTACACTCAATTGGAAACTTGAACTTTCAAAATGCA
* *
7852945 TCAAAAAGACCCTCAAAATTTTTC
65 TAAAAAAGACCCTCAAAATTCTTC
7852969 AAAAAAGCAATTAAGCCCTTGTTTTT
1 AAAAAAGCAATTAAGCCCTTGTTTTT
7852995 ATTAAAAATT
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
88 23 0.24
89 19 0.20
90 28 0.29
91 11 0.11
92 15 0.16
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (88 bp):
AAAAAAGCAATTAAGCCCTTGTTTTTTTCTACACTCAATTGGAAACTTGAACTTTCAAAATGCAT
AAAAAAGACCCTCAAAATTCTTC
Found at i:7853369 original size:9 final size:9
Alignment explanation
Indices: 7853355--7853491 Score: 64
Period size: 9 Copynumber: 14.4 Consensus size: 9
7853345 TTTTGGTACG
7853355 ATAATTTTT
1 ATAATTTTT
7853364 ATAATTTTT
1 ATAATTTTT
* *
7853373 TTACGAATTTT
1 ATA--ATTTTT
*
7853384 ATATTTCTTT
1 ATAATT-TTT
7853394 AT-ATTTTGT
1 ATAATTTT-T
7853403 ATAATTTTCTT
1 ATAA-TTT-TT
7853414 ATAA-TTTT
1 ATAATTTTT
*
7853422 ATAAAATTTT
1 AT-AATTTTT
*
7853432 ACAATTTTT
1 ATAATTTTT
*
7853441 TTATATTTTT
1 ATA-ATTTTT
*
7853451 CTAATTTTT
1 ATAATTTTT
*
7853460 AATATTTTATT
1 -ATAATTT-TT
* *
7853471 A-AAATTTA
1 ATAATTTTT
*
7853479 ATAATATTT
1 ATAATTTTT
7853488 ATAA
1 ATAA
7853492 CCTTTATTGA
Statistics
Matches: 96, Mismatches: 19, Indels: 26
0.68 0.13 0.18
Matches are distributed among these distances:
8 8 0.08
9 45 0.47
10 25 0.26
11 17 0.18
12 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (9 bp):
ATAATTTTT
Found at i:7853385 original size:20 final size:19
Alignment explanation
Indices: 7853355--7853483 Score: 75
Period size: 19 Copynumber: 6.7 Consensus size: 19
7853345 TTTTGGTACG
7853355 ATAATTTTTATAATTTTTTT
1 ATAA-TTTTATAATTTTTTT
* *
7853375 ACGAATTTTAT-ATTTCTTT
1 A-TAATTTTATAATTTTTTT
* *
7853394 ATATTTTGTATAATTTTCTT
1 ATAATTT-TATAATTTTTTT
**
7853414 ATAATTTTATAA-AATTTT
1 ATAATTTTATAATTTTTTT
* * * *
7853432 ACAATTTTTTTATATTTTT
1 ATAATTTTATAATTTTTTT
*
7853451 CTAATTTT-TAATATTTTATT
1 ATAATTTTATAAT-TTTT-TT
* *
7853471 AAAATTTAATAAT
1 ATAATTTTATAAT
7853484 ATTTATAACC
Statistics
Matches: 81, Mismatches: 21, Indels: 13
0.70 0.18 0.11
Matches are distributed among these distances:
18 19 0.23
19 30 0.37
20 26 0.32
21 6 0.07
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (19 bp):
ATAATTTTATAATTTTTTT
Found at i:7853413 original size:21 final size:21
Alignment explanation
Indices: 7853387--7853431 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7853377 GAATTTTATA
* *
7853387 TTTCTT-TATATTTTGTATAAT
1 TTTCTTATA-ATTTTATAAAAT
7853408 TTTCTTATAATTTTATAAAAT
1 TTTCTTATAATTTTATAAAAT
7853429 TTT
1 TTT
7853432 ACAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTCTTATAATTTTATAAAAT
Found at i:7853637 original size:86 final size:86
Alignment explanation
Indices: 7853539--7853704 Score: 217
Period size: 86 Copynumber: 1.9 Consensus size: 86
7853529 AAGTAGGGGT
* * * * * *
7853539 TTAATTACTTTTTTTGAAAAA-GTTTGAAGGTCTTTTTTATGCATTTTAAAAGTTCAAGTATCTA
1 TTAATTAC-TTTTTTCAAAAAGGTTTGAAGGCCTTTTTGATACATTTTAAAAGTTCAAGTACCAA
*
7853603 ATTGAGTACAAAAAAAGTAGGC
65 AATGAGTACAAAAAAAGTAGGC
* * *
7853625 TTAATTGCTTTTTTCAAAAAGGTTTGAGGGCCTTTTTGATACATTTTGAAAGTTCAAGTACCAAA
1 TTAATTACTTTTTTCAAAAAGGTTTGAAGGCCTTTTTGATACATTTTAAAAGTTCAAGTACCAAA
*
7853690 ATGAGTGCAAAAAAA
66 ATGAGTACAAAAAAA
7853705 AAGAGGAGGG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 11 0.16
86 57 0.84
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (86 bp):
TTAATTACTTTTTTCAAAAAGGTTTGAAGGCCTTTTTGATACATTTTAAAAGTTCAAGTACCAAA
ATGAGTACAAAAAAAGTAGGC
Found at i:7854844 original size:6 final size:7
Alignment explanation
Indices: 7854804--7854857 Score: 58
Period size: 7 Copynumber: 7.6 Consensus size: 7
7854794 TTCAATCTCC
7854804 ATTTTCCA
1 ATTTT-CA
7854812 ATTTT-A
1 ATTTTCA
7854818 TATTTTCA
1 -ATTTTCA
*
7854826 ATCTTCAA
1 ATTTTC-A
7854834 ATTTT-A
1 ATTTTCA
7854840 ATTTTCA
1 ATTTTCA
7854847 ATTTTCA
1 ATTTTCA
7854854 ATTT
1 ATTT
7854858 CAAATTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 7 0.17
7 22 0.55
8 11 0.28
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTTTCA
Found at i:7854845 original size:21 final size:22
Alignment explanation
Indices: 7854811--7854854 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
7854801 TCCATTTTCC
7854811 AATTTTATATTTTCAATCTTCA
1 AATTTTATATTTTCAATCTTCA
*
7854833 AATTTTA-ATTTTCAATTTTCA
1 AATTTTATATTTTCAATCTTCA
7854854 A
1 A
7854855 TTTCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTTTATATTTTCAATCTTCA
Found at i:7854863 original size:14 final size:14
Alignment explanation
Indices: 7854804--7854865 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
7854794 TTCAATCTCC
* *
7854804 ATTTTCCAATTTTAT
1 ATTTT-CAATTTCAA
7854819 ATTTTCAATCTTCAA
1 ATTTTCAAT-TTCAA
7854834 ATTTT-AATTTTC-A
1 ATTTTCAA-TTTCAA
7854847 ATTTTCAATTTCAA
1 ATTTTCAATTTCAA
7854861 ATTTT
1 ATTTT
7854866 TAATCCTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
13 10 0.24
14 17 0.41
15 14 0.34
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTTCAATTTCAA
Found at i:7854863 original size:21 final size:20
Alignment explanation
Indices: 7854804--7854865 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
7854794 TTCAATCTCC
*
7854804 ATTTTCCAATTTTATATTTTCA
1 ATTTT-CAA-TTTAAATTTTCA
* *
7854826 ATCTTCAAATTTTAATTTTCA
1 ATTTTC-AATTTAAATTTTCA
7854847 ATTTTCAATTTCAAATTTT
1 ATTTTCAATTT-AAATTTT
7854866 TAATCCTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 5 0.15
21 22 0.67
22 6 0.18
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTCAATTTAAATTTTCA
Found at i:7854877 original size:14 final size:14
Alignment explanation
Indices: 7854788--7854877 Score: 62
Period size: 14 Copynumber: 6.4 Consensus size: 14
7854778 TCCTAAATTC
*
7854788 TCAATCTTCAATC-
1 TCAATTTTCAATCT
*
7854801 TCCATTTTCCAAT-T
1 TCAATTTT-CAATCT
*
7854815 TTATATTTTCAATCT
1 TCA-ATTTTCAATCT
*
7854830 TCAAATTTT-AATTT
1 TC-AATTTTCAATCT
7854844 TCAATTTTCAAT-T
1 TCAATTTTCAATCT
* *
7854857 TCAAATTTTTAATCC
1 TC-AATTTTCAATCT
7854872 TCAATT
1 TCAATT
7854878 ATTTTTTTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
13 15 0.25
14 31 0.51
15 14 0.23
16 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (14 bp):
TCAATTTTCAATCT
Found at i:7856004 original size:80 final size:80
Alignment explanation
Indices: 7855870--7856023 Score: 238
Period size: 80 Copynumber: 1.9 Consensus size: 80
7855860 AACCAAATCT
* * *
7855870 GTCAATTCATGGCACCAGGTGCCTAGCGGATAAACCGCAATAAGTGAGCTCAGCTCTAGTTGGAT
1 GTCAATTCATAGCACCAGGTGCCTAGCGGATAAACCGCAATAAATGAGCCCAGCTCTAGTTGGAT
7855935 TAACCAACGAATTCC
66 TAACCAACGAATTCC
* * *
7855950 GTCAATTCATAGCACCCA-GTGCCTAGCGGATAAATCGCGATAAATGTGCCCAGCTCTAGTTGGA
1 GTCAATTCATAGCA-CCAGGTGCCTAGCGGATAAACCGCAATAAATGAGCCCAGCTCTAGTTGGA
7856014 TTAACCAACG
65 TTAACCAACG
7856024 GTTTACGCCC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 64 0.96
81 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (80 bp):
GTCAATTCATAGCACCAGGTGCCTAGCGGATAAACCGCAATAAATGAGCCCAGCTCTAGTTGGAT
TAACCAACGAATTCC
Found at i:7857725 original size:24 final size:24
Alignment explanation
Indices: 7857664--7857726 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
7857654 TAGACTAATA
* * *
7857664 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
* *
7857688 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
7857712 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
7857727 GATTATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:7862657 original size:21 final size:21
Alignment explanation
Indices: 7862633--7862675 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
7862623 TTATCAACAA
*
7862633 AAGGTCC-AGAGTCCAGGGTCC
1 AAGGTCCAAGA-TCCAAGGTCC
7862654 AAGGTCCAAGATCCAAGGTCC
1 AAGGTCCAAGATCCAAGGTCC
7862675 A
1 A
7862676 CGGTGTAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.14
Consensus pattern (21 bp):
AAGGTCCAAGATCCAAGGTCC
Found at i:7862659 original size:7 final size:7
Alignment explanation
Indices: 7862633--7862675 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
7862623 TTATCAACAA
7862633 AAGGTCC
1 AAGGTCC
7862640 -AGAGTCC
1 AAG-GTCC
*
7862647 AGGGTCC
1 AAGGTCC
7862654 AAGGTCC
1 AAGGTCC
*
7862661 AAGATCC
1 AAGGTCC
7862668 AAGGTCC
1 AAGGTCC
7862675 A
1 A
7862676 CGGTGTAGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
6 2 0.07
7 27 0.90
8 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.14
Consensus pattern (7 bp):
AAGGTCC
Found at i:7867246 original size:11 final size:11
Alignment explanation
Indices: 7867227--7867275 Score: 80
Period size: 11 Copynumber: 4.4 Consensus size: 11
7867217 TCAAACACAC
*
7867227 TTTTATCTTTT
1 TTTTTTCTTTT
7867238 TTTTTTCTTTT
1 TTTTTTCTTTT
7867249 TTTTTTCTTTT
1 TTTTTTCTTTT
7867260 TCTTTTTCTTTT
1 T-TTTTTCTTTT
7867272 TTTT
1 TTTT
7867276 CTCAATTTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
11 25 0.69
12 11 0.31
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:7867259 original size:18 final size:18
Alignment explanation
Indices: 7867227--7867307 Score: 89
Period size: 17 Copynumber: 4.6 Consensus size: 18
7867217 TCAAACACAC
7867227 TTTTATCTTTTTTTTTTC-
1 TTTT-TCTTTTTTTTTTCA
7867245 TTTTT-TTTTTCTTTTTC-
1 TTTTTCTTTTT-TTTTTCA
*
7867262 TTTTTCTTTTTTTTCTCA
1 TTTTTCTTTTTTTTTTCA
*
7867280 ATTTTC-TTTTTTTTTCAA
1 TTTTTCTTTTTTTTTTC-A
7867298 TTTTTCTTTT
1 TTTTTCTTTT
7867308 CGACTTTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
16 5 0.09
17 26 0.48
18 20 0.37
19 3 0.06
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTTCA
Found at i:7867289 original size:23 final size:22
Alignment explanation
Indices: 7867235--7867294 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
7867225 ACTTTTATCT
* * *
7867235 TTTTTTTTTCTTTTTTTTTTCT
1 TTTTCTTTTCTTTTTTTTCTCA
7867257 TTTTCTTTTTCTTTTTTTTCTCAA
1 TTTTC-TTTTCTTTTTTTTCTC-A
7867281 TTTTCTTTT-TTTTT
1 TTTTCTTTTCTTTTT
7867295 CAATTTTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 9 0.27
23 19 0.58
24 5 0.15
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTTCTTTTCTTTTTTTTCTCA
Found at i:7867316 original size:42 final size:41
Alignment explanation
Indices: 7867240--7867318 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 41
7867230 TATCTTTTTT
**
7867240 TTTTCTTTTTTTTTTCTTTTTCTTTTTCTTTTTTTTCTCAA
1 TTTTCTTTTTTTTTTCTTTTTCTTTTTCACTTTTTTCTCAA
7867281 TTTTC-TTTTTTTTTCAATTTTTC-TTTTCGACTTTTTTC
1 TTTTCTTTTTTTTTTC--TTTTTCTTTTTC-ACTTTTTTC
7867319 CTTTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
40 10 0.30
41 10 0.30
42 13 0.39
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.77
Consensus pattern (41 bp):
TTTTCTTTTTTTTTTCTTTTTCTTTTTCACTTTTTTCTCAA
Found at i:7869465 original size:20 final size:20
Alignment explanation
Indices: 7869419--7869484 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
7869409 AATACTAATG
*
7869419 ATAATAATAATAATAATAAC-G
1 ATAATAATAA-AATAA-AACAA
* *
7869440 ATAATAATAAATTTAAACAA
1 ATAATAATAAAATAAAACAA
*
7869460 ATAATAATAAAATAAAATAA
1 ATAATAATAAAATAAAACAA
7869480 ATAAT
1 ATAAT
7869485 CAAATCAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 3 0.08
20 25 0.66
21 10 0.26
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAATAATAAAATAAAACAA
Found at i:7869469 original size:3 final size:3
Alignment explanation
Indices: 7869394--7869449 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
7869384 CCATAATAGA
* * * * *
7869394 AAT AAT AAT AAT ACT AAT ACT AAT GAT AAT AAT AAT AAT AAT AAC GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7869442 AAT AAT AA
1 AAT AAT AA
7869450 ATTTAAACAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7869483 original size:9 final size:10
Alignment explanation
Indices: 7869457--7869513 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
7869447 TAAATTTAAA
7869457 CAAATAATAAT
1 CAAATAA-AAT
*
7869468 AAAATAAAAT
1 CAAATAAAAT
7869478 -AAAT--AAT
1 CAAATAAAAT
*
7869485 CAAATCAAAT
1 CAAATAAAAT
7869495 CAAATAAAAT
1 CAAATAAAAT
*
7869505 -AAAGAAAAT
1 CAAATAAAAT
7869514 AAAGAAAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 12 0.30
10 15 0.38
11 6 0.15
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (10 bp):
CAAATAAAAT
Found at i:7870283 original size:75 final size:76
Alignment explanation
Indices: 7870142--7870283 Score: 216
Period size: 75 Copynumber: 1.9 Consensus size: 76
7870132 TTCCGTGTAA
*
7870142 TATTTTGAAATTTCAGAAAATAAGGCTCCAATGGTCACACGATCTTGGACCACGCCCGTGTCTAT
1 TATTTTGAAATTTCAGAAAATAAGGCTCCAATGGTCACACGATCTTGAACCACGCCCGTGTCTAT
7870207 AAACCATATGC
66 AAACCATATGC
* * * *
7870218 TATTTTGATATTTCAGAAAATAA-GCTCCAGTGGTC-CTACGGTCTTGAACCACGCCCGTGTGTA
1 TATTTTGAAATTTCAGAAAATAAGGCTCCAATGGTCAC-ACGATCTTGAACCACGCCCGTGTCTA
7870281 TAA
65 TAA
7870284 GACGTGTGTC
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
74 1 0.02
75 37 0.62
76 22 0.37
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (76 bp):
TATTTTGAAATTTCAGAAAATAAGGCTCCAATGGTCACACGATCTTGAACCACGCCCGTGTCTAT
AAACCATATGC
Found at i:7874343 original size:28 final size:28
Alignment explanation
Indices: 7874303--7874359 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
7874293 TACCAAATTG
*
7874303 TAAGTTAATATGTAACTGTTTAAAAAGA
1 TAAGTTAATATGTAACTATTTAAAAAGA
7874331 TAAGTTAATATGTAACTATTTAAAAAGA
1 TAAGTTAATATGTAACTATTTAAAAAGA
7874359 T
1 T
7874360 CAAGAAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (28 bp):
TAAGTTAATATGTAACTATTTAAAAAGA
Found at i:7881687 original size:27 final size:27
Alignment explanation
Indices: 7881657--7881710 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
7881647 TCAAATACAT
7881657 ATAAA-AAATTAAAACAAACATTAAAAA
1 ATAAACAAATTAAAA-AAACATTAAAAA
* *
7881684 ATAAACAAATTTAAAATACATTAAAAA
1 ATAAACAAATTAAAAAAACATTAAAAA
7881711 TTCTTGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (27 bp):
ATAAACAAATTAAAAAAACATTAAAAA
Found at i:7881689 original size:18 final size:21
Alignment explanation
Indices: 7881653--7881692 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
7881643 TATATCAAAT
7881653 ACATATAAAAAATTAAAACAA
1 ACATATAAAAAATTAAAACAA
7881674 ACAT-TAAAAAA-T-AAACAA
1 ACATATAAAAAATTAAAACAA
7881692 A
1 A
7881693 TTTAAAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 7 0.37
21 4 0.21
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.17
Consensus pattern (21 bp):
ACATATAAAAAATTAAAACAA
Found at i:7881864 original size:12 final size:12
Alignment explanation
Indices: 7881847--7881941 Score: 83
Period size: 12 Copynumber: 8.2 Consensus size: 12
7881837 CCAAACAATC
*
7881847 AAAACAGCAACA
1 AAAACAACAACA
7881859 AAAACAACAACA
1 AAAACAACAACA
* *
7881871 AAAATAACAGCA
1 AAAACAACAACA
7881883 AAAACAACAAC-
1 AAAACAACAACA
*
7881894 AAAA-AAC-ACC
1 AAAACAACAACA
*
7881904 AAAACAATAA-A
1 AAAACAACAACA
*
7881915 AAAA-AACAATAA
1 AAAACAACAA-CA
*
7881927 AAAACAACACCA
1 AAAACAACAACA
7881939 AAA
1 AAA
7881942 CAGTAATCAA
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
9 2 0.03
10 11 0.16
11 10 0.15
12 40 0.60
13 4 0.06
ACGTcount: A:0.74, C:0.21, G:0.02, T:0.03
Consensus pattern (12 bp):
AAAACAACAACA
Found at i:7881871 original size:27 final size:27
Alignment explanation
Indices: 7881849--7881899 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
7881839 AAACAATCAA
7881849 AACAGCAACAAA-AACAACAACAAAAAT
1 AACAGCAA-AAACAACAACAACAAAAAT
7881876 AACAGCAAAAACAACAACAA-AAAA
1 AACAGCAAAAACAACAACAACAAAA
7881900 CACCAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.73, C:0.22, G:0.04, T:0.02
Consensus pattern (27 bp):
AACAGCAAAAACAACAACAACAAAAAT
Found at i:7881879 original size:21 final size:21
Alignment explanation
Indices: 7881856--7881935 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 21
7881846 CAAAACAGCA
7881856 ACAAAAACAACAACAAAAATAAC
1 ACAAAAACAACAAC-AAAA-AAC
7881879 AGCAAAAACAACAACAAAAAAC
1 A-CAAAAACAACAACAAAAAAC
* *
7881901 ACCAAAACAATAA-AAAAAA-
1 ACAAAAACAACAACAAAAAAC
*
7881920 ACAATAAAAAACAACA
1 ACAA-AAACAACAACA
7881936 CCAAAACAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.06
20 13 0.27
21 11 0.22
22 4 0.08
23 5 0.10
24 13 0.27
ACGTcount: A:0.75, C:0.20, G:0.01, T:0.04
Consensus pattern (21 bp):
ACAAAAACAACAACAAAAAAC
Found at i:7881920 original size:13 final size:13
Alignment explanation
Indices: 7881904--7881935 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7881894 AAAAAACACC
7881904 AAAACAATAAAAA
1 AAAACAATAAAAA
7881917 AAAACAATAAAAA
1 AAAACAATAAAAA
*
7881930 ACAACA
1 AAAACA
7881936 CCAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.81, C:0.12, G:0.00, T:0.06
Consensus pattern (13 bp):
AAAACAATAAAAA
Found at i:7881936 original size:34 final size:33
Alignment explanation
Indices: 7881882--7881983 Score: 113
Period size: 34 Copynumber: 3.2 Consensus size: 33
7881872 AAATAACAGC
* *
7881882 AAAAACAACAACAAAAAACACCAAAACAATAAAA
1 AAAAACAATAA-AAAAAACACCAAAACAGTAAAA
*
7881916 AAAAACAATAAAAAACAACACCAAAACAGT-AAT
1 AAAAACAATAAAAAA-AACACCAAAACAGTAAAA
* *
7881949 CAAAACAGT--AAAAAA-ACCAAAACAGTAAAA
1 AAAAACAATAAAAAAAACACCAAAACAGTAAAA
7881979 AAAAA
1 AAAAA
7881984 TAAAAACAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
29 11 0.19
30 8 0.14
31 4 0.07
33 13 0.22
34 23 0.39
ACGTcount: A:0.74, C:0.18, G:0.03, T:0.06
Consensus pattern (33 bp):
AAAAACAATAAAAAAAACACCAAAACAGTAAAA
Found at i:7881971 original size:17 final size:17
Alignment explanation
Indices: 7881949--7881981 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7881939 AAACAGTAAT
7881949 CAAAACAGTAAAAAAAC
1 CAAAACAGTAAAAAAAC
7881966 CAAAACAGTAAAAAAA
1 CAAAACAGTAAAAAAA
7881982 AATAAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.73, C:0.15, G:0.06, T:0.06
Consensus pattern (17 bp):
CAAAACAGTAAAAAAAC
Found at i:7881971 original size:29 final size:29
Alignment explanation
Indices: 7881935--7882020 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
7881925 AAAAAACAAC
7881935 ACCAAAACAGTAATCAAAACAGTAAAAAA
1 ACCAAAACAGTAATCAAAACAGTAAAAAA
* * *
7881964 ACCAAAACAGTAA--AAAAAAATAAAAAC
1 ACCAAAACAGTAATCAAAACAGTAAAAAA
** * * *
7881991 AGAAAAAAAGCAATCAAAACAGCAAAAAA
1 ACCAAAACAGTAATCAAAACAGTAAAAAA
7882020 A
1 A
7882021 AAGCACCAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
27 20 0.45
29 24 0.55
ACGTcount: A:0.71, C:0.15, G:0.07, T:0.07
Consensus pattern (29 bp):
ACCAAAACAGTAATCAAAACAGTAAAAAA
Found at i:7881996 original size:17 final size:17
Alignment explanation
Indices: 7881950--7881999 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
7881940 AACAGTAATC
* *
7881950 AAAACAGTAAAAAAACC
1 AAAACAGAAAAAAAACA
*
7881967 AAAACAGTAAAAAAAAATA
1 AAAACAG--AAAAAAAACA
7881986 AAAACAGAAAAAAA
1 AAAACAGAAAAAAA
7882000 GCAATCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 14 0.50
19 14 0.50
ACGTcount: A:0.78, C:0.10, G:0.06, T:0.06
Consensus pattern (17 bp):
AAAACAGAAAAAAAACA
Found at i:7882018 original size:20 final size:18
Alignment explanation
Indices: 7881946--7882021 Score: 73
Period size: 20 Copynumber: 4.1 Consensus size: 18
7881936 CCAAAACAGT
*
7881946 AATCAAAACAG-TAAAAA
1 AATCAAAACAGCAAAAAA
* *
7881963 AACCAAAACAGTAAAAAAA
1 AATCAAAACAG-CAAAAAA
* *
7881982 AATAAAAACAGAAAAAAA
1 AATCAAAACAGCAAAAAA
7882000 GCAATCAAAACAGCAAAAAA
1 --AATCAAAACAGCAAAAAA
7882020 AA
1 AA
7882022 AGCACCAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
17 10 0.20
18 9 0.18
19 14 0.29
20 16 0.33
ACGTcount: A:0.74, C:0.13, G:0.07, T:0.07
Consensus pattern (18 bp):
AATCAAAACAGCAAAAAA
Found at i:7882018 original size:56 final size:61
Alignment explanation
Indices: 7881888--7882020 Score: 152
Period size: 56 Copynumber: 2.2 Consensus size: 61
7881878 CAGCAAAAAC
* *
7881888 AACAACAAAAAACACCAAAACAATAAAAAAAAACAATAAAAAACAACACCAAAACAGTAATCAA
1 AACAGCAAAAAA-ACCAAAACAAT-AAAAAAAACAATAAAAAACAACA-CAAAACAGCAATCAA
* *
7881952 AACAGTAAAAAAACCAAAACAGT-AAAAAAA-AAT-AAAAACAGA-A-AAAA-AGCAATCAA
1 AACAGCAAAAAAACCAAAACAATAAAAAAAACAATAAAAAACA-ACACAAAACAGCAATCAA
7882008 AACAGCAAAAAAA
1 AACAGCAAAAAAA
7882021 AAGCACCAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
56 20 0.32
57 4 0.06
59 8 0.13
60 4 0.06
61 7 0.11
63 10 0.16
64 10 0.16
ACGTcount: A:0.73, C:0.17, G:0.05, T:0.06
Consensus pattern (61 bp):
AACAGCAAAAAAACCAAAACAATAAAAAAAACAATAAAAAACAACACAAAACAGCAATCAA
Found at i:7886369 original size:18 final size:19
Alignment explanation
Indices: 7886334--7886371 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7886324 ATTTTTTCAC
*
7886334 TTTTTCTATCAAATATTTA
1 TTTTTATATCAAATATTTA
*
7886353 TTTTTATATTAAA-ATTTA
1 TTTTTATATCAAATATTTA
7886371 T
1 T
7886372 AAATATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTATATCAAATATTTA
Found at i:7886644 original size:20 final size:21
Alignment explanation
Indices: 7886619--7886662 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
7886609 TTTTATTAAC
7886619 AATAAT-TGTAAAAA-AATAAA
1 AATAATCT-TAAAAATAATAAA
*
7886639 AATAATCTTAAAAATAATTAA
1 AATAATCTTAAAAATAATAAA
7886660 AAT
1 AAT
7886663 GTTTATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AATAATCTTAAAAATAATAAA
Found at i:7889091 original size:35 final size:33
Alignment explanation
Indices: 7889018--7889095 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 33
7889008 AAAAAATAAA
*
7889018 ATTT-AAATAATATAATTTTTTTACTATAACTT
1 ATTTAAAATAATATAATTTTTTTACTATAAATT
*
7889050 -TATAAAATACATATAATTTTTTTA-TAATATAATT
1 ATTTAAAATA-ATATAATTTTTTTACT-ATA-AATT
7889084 ATTTAAAA-AATA
1 ATTTAAAATAATA
7889096 ATTTTCCTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
31 2 0.05
32 6 0.16
33 20 0.53
34 4 0.11
35 6 0.16
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (33 bp):
ATTTAAAATAATATAATTTTTTTACTATAAATT
Found at i:7898032 original size:1 final size:1
Alignment explanation
Indices: 7898026--7898064 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
7898016 AGTGGCCCTG
* * *
7898026 CCCCCCCCCCCCCCCCCCCCTCCCCTCCCCCCGCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
7898065 TCTGGACCGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.92, G:0.03, T:0.05
Consensus pattern (1 bp):
C
Found at i:7898055 original size:19 final size:19
Alignment explanation
Indices: 7898028--7898066 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7898018 TGGCCCTGCC
7898028 CCCCCCCCCCCCCCCCCCT
1 CCCCCCCCCCCCCCCCCCT
* *
7898047 CCCCTCCCCCCGCCCCCCT
1 CCCCCCCCCCCCCCCCCCT
7898066 C
1 C
7898067 TGGACCGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.90, G:0.03, T:0.08
Consensus pattern (19 bp):
CCCCCCCCCCCCCCCCCCT
Found at i:7899445 original size:15 final size:15
Alignment explanation
Indices: 7899425--7899467 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
7899415 AAACAATGAC
7899425 TATTCTAAACACAAT
1 TATTCTAAACACAAT
*
7899440 TATTCTTGAAACACCAT
1 TATTC-T-AAACACAAT
7899457 TATTCTAAACA
1 TATTCTAAACA
7899468 AGAGTTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 10 0.40
16 2 0.08
17 13 0.52
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (15 bp):
TATTCTAAACACAAT
Found at i:7900846 original size:31 final size:31
Alignment explanation
Indices: 7900811--7900909 Score: 121
Period size: 31 Copynumber: 3.2 Consensus size: 31
7900801 CACATTAATG
7900811 TTAAATTAATAAAATACTATCAAGATAAATA
1 TTAAATTAATAAAATACTATCAAGATAAATA
* ** * * *
7900842 TTAAATCAAATTTAATA-TCTC-ACATTAATA
1 TTAAAT-TAATAAAATACTATCAAGATAAATA
7900872 TTAAATTAATAAAATACTATCAAGATAAATA
1 TTAAATTAATAAAATACTATCAAGATAAATA
7900903 TTAAATT
1 TTAAATT
7900910 TAATTTAATA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 7 0.13
30 16 0.30
31 23 0.43
32 7 0.13
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (31 bp):
TTAAATTAATAAAATACTATCAAGATAAATA
Found at i:7900883 original size:61 final size:61
Alignment explanation
Indices: 7900799--7900920 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
7900789 ATTGAAATTA
*
7900799 CTCACATTAATGTTAAATTAATAAAATACTATCAAGATAAATATTAAATCAAATTTAATAT
1 CTCACATTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCAAATTTAATAT
**
7900860 CTCACATTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATTTAATTTAATAT
1 CTCACATTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCAAATTTAATAT
7900921 TAAATTTATT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (61 bp):
CTCACATTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCAAATTTAATAT
Found at i:7900936 original size:17 final size:17
Alignment explanation
Indices: 7900897--7900933 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7900887 ACTATCAAGA
7900897 TAAATATTAAATTTAAT
1 TAAATATTAAATTTAAT
*
7900914 TTAATATTAAATTT-AT
1 TAAATATTAAATTTAAT
7900930 TAAA
1 TAAA
7900934 ATAATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATATTAAATTTAAT
Found at i:7901590 original size:19 final size:19
Alignment explanation
Indices: 7901568--7901610 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
7901558 TGATCTCGAT
* *
7901568 TTTTGGTTCTCGGGTCCAA
1 TTTTCGTTCTCGGATCCAA
*
7901587 TTTTCTTTCTCGGATCCAA
1 TTTTCGTTCTCGGATCCAA
*
7901606 ATTTC
1 TTTTC
7901611 AAGTTCCATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.47
Consensus pattern (19 bp):
TTTTCGTTCTCGGATCCAA
Found at i:7903344 original size:20 final size:19
Alignment explanation
Indices: 7903296--7903346 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
7903286 AAATATATTT
* *
7903296 TAAATATTATATAATTATAT
1 TAAATATT-TATAATTACAA
*
7903316 TAAAAATTTATAATTAACAA
1 TAAATATTTATAATT-ACAA
7903336 TAAATATTTAT
1 TAAATATTTAT
7903347 GTTAAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATATTTATAATTACAA
Found at i:7905344 original size:15 final size:15
Alignment explanation
Indices: 7905315--7905357 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
7905305 GAAAGGGCCT
7905315 AACTATGAGAAAACTC
1 AACT-TGAGAAAACTC
*
7905331 AAGCTTGA-AAAACTG
1 AA-CTTGAGAAAACTC
7905346 AACTTGAGAAAA
1 AACTTGAGAAAA
7905358 AATTTTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 5 0.21
15 12 0.50
16 5 0.21
17 2 0.08
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (15 bp):
AACTTGAGAAAACTC
Found at i:7905351 original size:14 final size:16
Alignment explanation
Indices: 7905320--7905357 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
7905310 GGCCTAACTA
7905320 TGAGAAAACTCAAGCT
1 TGAGAAAACTCAAGCT
*
7905336 TGA-AAAACTGAA-CT
1 TGAGAAAACTCAAGCT
7905350 TGAGAAAA
1 TGAGAAAA
7905358 AATTTTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 5 0.25
15 12 0.60
16 3 0.15
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.18
Consensus pattern (16 bp):
TGAGAAAACTCAAGCT
Found at i:7905421 original size:16 final size:16
Alignment explanation
Indices: 7905400--7905433 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
7905390 GAATTCAAAC
7905400 TCAAAATAATCTAAAT
1 TCAAAATAATCTAAAT
*
7905416 TCAAAATAATTTAAAT
1 TCAAAATAATCTAAAT
7905432 TC
1 TC
7905434 GATAACAAAT
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:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (16 bp):
TCAAAATAATCTAAAT
Found at i:7926980 original size:16 final size:16
Alignment explanation
Indices: 7926959--7926989 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7926949 AAATTTTAAA
7926959 ATGTTTAGATAAAAAT
1 ATGTTTAGATAAAAAT
*
7926975 ATGTTTGGATAAAAA
1 ATGTTTAGATAAAAA
7926990 AATTAAACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.35
Consensus pattern (16 bp):
ATGTTTAGATAAAAAT
Found at i:7938855 original size:29 final size:29
Alignment explanation
Indices: 7938813--7938892 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
7938803 TTGCTTCAAG
*
7938813 TTACGTTTTAGTCACTTATGTTTGAAATA
1 TTACGTTTTAGTCACTTATGTTTAAAATA
*
7938842 TTACATTTTAGTCACTTATGTTTAAAATA
1 TTACGTTTTAGTCACTTATGTTTAAAATA
7938871 TTACGTTTTAGTCACTTATGTT
1 TTACGTTTTAGTCACTTATGTT
7938893 ATTATTTTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (29 bp):
TTACGTTTTAGTCACTTATGTTTAAAATA
Found at i:7942383 original size:18 final size:16
Alignment explanation
Indices: 7942360--7942394 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
7942350 TTTAATCATG
7942360 TTTAATTAAGCTTTAATC
1 TTTAATTAA-C-TTAATC
7942378 TTTAATTAACTTAATC
1 TTTAATTAACTTAATC
7942394 T
1 T
7942395 AACGACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 1 0.06
18 9 0.53
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTAATTAACTTAATC
Found at i:7950200 original size:16 final size:17
Alignment explanation
Indices: 7950179--7950212 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7950169 ACAATTTTTT
7950179 TTATTTT-TTATTGAAA
1 TTATTTTATTATTGAAA
*
7950195 TTATTTTATTATTTAAA
1 TTATTTTATTATTGAAA
7950212 T
1 T
7950213 GCATGCTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTATTTTATTATTGAAA
Found at i:7951323 original size:28 final size:26
Alignment explanation
Indices: 7951279--7951332 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
7951269 AACTTAAAAC
* *
7951279 TTTTTTTTAATCTGATATTTAAACTT
1 TTTTTTTTAATCTGATACTCAAACTT
*
7951305 TTTTTTATTCAATTTGATACTCAAACTT
1 TTTTTT-TT-AATCTGATACTCAAACTT
7951333 GACACTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.26
27 2 0.09
28 15 0.65
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTTTTTAATCTGATACTCAAACTT
Found at i:7951393 original size:32 final size:31
Alignment explanation
Indices: 7951304--7951393 Score: 90
Period size: 32 Copynumber: 2.8 Consensus size: 31
7951294 TATTTAAACT
* *
7951304 TTTTTTTATTCAATTTGATACTCAAACTTGACA
1 TTTTTTTA-T-AATTTGGTACTTAAACTTGACA
* * * *
7951337 CTTTTTTCTAATTTAGTACCTAAACTTGACCA
1 TTTTTTTATAATTTGGTACTTAAACTTGA-CA
*
7951369 TTTTTTTATAAGTTGGTACTTAAAC
1 TTTTTTTATAATTTGGTACTTAAAC
7951394 ATTTTGAGAT
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
31 16 0.36
32 23 0.51
33 6 0.13
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.48
Consensus pattern (31 bp):
TTTTTTTATAATTTGGTACTTAAACTTGACA
Found at i:7959888 original size:21 final size:22
Alignment explanation
Indices: 7959862--7959903 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
7959852 TAGAAAAAGG
7959862 ATAAAAA-AAAATAAT-TAAACA
1 ATAAAAACAAAA-AATCTAAACA
7959883 ATAAAAACAAAAAATCTAAAC
1 ATAAAAACAAAAAATCTAAAC
7959904 CTACCCGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.17
Consensus pattern (22 bp):
ATAAAAACAAAAAATCTAAACA
Found at i:7961763 original size:23 final size:22
Alignment explanation
Indices: 7961737--7961779 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
7961727 CATAGAAATG
7961737 CAAAAAGAAAAACATAAAATTTC
1 CAAAAA-AAAAACATAAAATTTC
*
7961760 CAAAAAAAGAACATAAAATT
1 CAAAAAAAAAACATAAAATT
7961780 CTTAAGAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.67, C:0.12, G:0.05, T:0.16
Consensus pattern (22 bp):
CAAAAAAAAAACATAAAATTTC
Found at i:7961820 original size:21 final size:22
Alignment explanation
Indices: 7961772--7961820 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
7961762 AAAAAAGAAC
*
7961772 ATAAAATTCTTAAGAAGTTTTC
1 ATAAAATTCTTAAGAAGTTTTA
*
7961794 ATAAAATTC-TAA-AATTTTATA
1 ATAAAATTCTTAAGAAGTTT-TA
7961815 ATAAAA
1 ATAAAA
7961821 AAAATAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.21
21 10 0.42
22 9 0.38
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (22 bp):
ATAAAATTCTTAAGAAGTTTTA
Found at i:7972980 original size:11 final size:10
Alignment explanation
Indices: 7972966--7973015 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
7972956 GTGTGTGTGC
7972966 ATTATCAAAAA
1 ATTAT-AAAAA
7972977 ATTA-AAAAA
1 ATTATAAAAA
*
7972986 A-TATAAAAT
1 ATTATAAAAA
*
7972995 CTTATCAAAAA
1 ATTAT-AAAAA
7973006 ATTATAAAAA
1 ATTATAAAAA
7973016 GAATCACATC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
8 2 0.06
9 10 0.31
10 8 0.25
11 12 0.38
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:7972992 original size:10 final size:10
Alignment explanation
Indices: 7972972--7973068 Score: 52
Period size: 11 Copynumber: 9.3 Consensus size: 10
7972962 GTGCATTATC
7972972 AAAAAAT-TA
1 AAAAAATATA
7972981 AAAAAATATA
1 AAAAAATATA
***
7972991 AAATCTTATCA
1 AAAAAATAT-A
*
7973002 AAAAATTATA
1 AAAAAATATA
*
7973012 AAAAGAATCACA
1 AAAA-AAT-ATA
** * *
7973024 TCAATATATT
1 AAAAAATATA
7973034 AAAAAATATA
1 AAAAAATATA
*
7973044 TAAAAATAATA
1 AAAAAAT-ATA
7973055 AAAAAATGATA
1 AAAAAAT-ATA
7973066 AAA
1 AAA
7973069 CATCGCGGTC
Statistics
Matches: 64, Mismatches: 19, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
9 7 0.11
10 26 0.41
11 27 0.42
12 4 0.06
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (10 bp):
AAAAAATATA
Found at i:7973210 original size:2 final size:2
Alignment explanation
Indices: 7973203--7973234 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7973193 CCCCAAAAGA
7973203 AT AT 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 AT AT
7973235 TCATTTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7976947 original size:4 final size:4
Alignment explanation
Indices: 7976940--7976966 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7976930 TTAAAAATTA
7976940 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
7976967 ATGAGGTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:7983349 original size:23 final size:23
Alignment explanation
Indices: 7983323--7983488 Score: 134
Period size: 23 Copynumber: 7.4 Consensus size: 23
7983313 AGTGCTGGGC
*
7983323 AACAGAGAGCACACAAAGTACTA
1 AACAGAGAGCACACAAAGTGCTA
*
7983346 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
*
7983365 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
7983385 ATCAGAGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
7983408 ATCGGAGAGCACACACAA-TGCTAA
1 AACAGAGAGCACACA-AAGTGCT-A
* *
7983432 TAACAGAGAGCACGA-GACGTGCTA
1 -AACAGAGAGCAC-ACAAAGTGCTA
*
7983456 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
7983479 ATCAGAGAGC
1 AACAGAGAGC
7983489 GCGCTAGTGT
Statistics
Matches: 113, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
16 10 0.09
18 3 0.03
19 1 0.01
20 1 0.01
21 1 0.01
22 1 0.01
23 76 0.67
24 5 0.04
25 14 0.12
26 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.11
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:7983391 original size:39 final size:39
Alignment explanation
Indices: 7983329--7983403 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
7983319 GGGCAACAGA
*
7983329 GAGCACACAAAGTACTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTACTAAACAGAGAGCACACAAAGTACT
* * *
7983368 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTACTAAACAGAGAGCACACAAAGT
7983404 GCTAATCGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTACTAAACAGAGAGCACACAAAGTACT
Found at i:7983442 original size:48 final size:46
Alignment explanation
Indices: 7983368--7983488 Score: 156
Period size: 48 Copynumber: 2.6 Consensus size: 46
7983358 ACAAAGTACT
* *
7983368 GAGCACACA-AAGTGCTAATCAGAGAGCAC-ACGAAGTGCTAATCGGA
1 GAGCACACACAA-TGCTAATCAGAGAGCACGA-GAAGTGCTAAACAGA
*
7983414 GAGCACACACAATGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAATGCTAAT--CAGAGAGCACGAGAAGTGCTAAACAGA
*
7983462 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAATGCTAATCAGAGAGC
7983489 GCGCTAGTGT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
46 24 0.36
47 2 0.03
48 40 0.60
49 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (46 bp):
GAGCACACACAATGCTAATCAGAGAGCACGAGAAGTGCTAAACAGA
Found at i:7983741 original size:15 final size:14
Alignment explanation
Indices: 7983702--7983747 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
7983692 TATAATCAAC
*
7983702 CACATAATATTTCA
1 CACATAATTTTTCA
*
7983716 CATATACATTTTTCA
1 CACATA-ATTTTTCA
7983731 TCACATAATTTTTCA
1 -CACATAATTTTTCA
7983746 CA
1 CA
7983748 TTAATTTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 7 0.26
15 15 0.56
16 5 0.19
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (14 bp):
CACATAATTTTTCA
Found at i:7990266 original size:19 final size:20
Alignment explanation
Indices: 7990242--7990293 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
7990232 AATATTTTTC
7990242 TTATAAAAA-TAATTAAAAT
1 TTATAAAAACTAATTAAAAT
*
7990261 TTATAAAAACTCATTAAAAGT
1 TTATAAAAACTAATTAAAA-T
*
7990282 GTA-AAAAACTAA
1 TTATAAAAACTAA
7990294 AAAAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 9 0.32
20 16 0.57
21 3 0.11
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.31
Consensus pattern (20 bp):
TTATAAAAACTAATTAAAAT
Found at i:7990269 original size:20 final size:19
Alignment explanation
Indices: 7990242--7990279 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
7990232 AATATTTTTC
7990242 TTATAAAAATAATTAAAAT
1 TTATAAAAATAATTAAAAT
*
7990261 TTATAAAAACTCATTAAAA
1 TTATAAAAA-TAATTAAAA
7990280 GTGTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
TTATAAAAATAATTAAAAT
Found at i:7990309 original size:5 final size:6
Alignment explanation
Indices: 7990294--7990318 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7990284 AAAAAACTAA
7990294 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
7990319 TTAAACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:7990342 original size:27 final size:27
Alignment explanation
Indices: 7990312--7990364 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
7990302 AAATAAAAAT
7990312 AAAA-ATAT-TAAACATATAAAAAAATTG
1 AAAATATATATAAAC-T-TAAAAAAATTG
*
7990339 AAAATTTATATAAACTTAAAAAAATT
1 AAAATATATATAAACTTAAAAAAATT
7990365 ATACAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 14 0.61
28 4 0.17
29 5 0.22
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (27 bp):
AAAATATATATAAACTTAAAAAAATTG
Done.