Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 106 of 126
Found at i:31931977 original size:11 final size:11
Alignment explanation
Indices: 31931961--31932026 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
31931951 TATAATAATG
31931961 TTAAATTTAAA
1 TTAAATTTAAA
31931972 TTAAATTTAAA
1 TTAAATTTAAA
*
31931983 TTTAAA-TTGAA
1 -TTAAATTTAAA
*
31931994 TTCAAA-ATAAA
1 TT-AAATTTAAA
*
31932005 TTTAAAATTAAA
1 -TTAAATTTAAA
*
31932017 ATAAATTTAA
1 TTAAATTTAA
31932027 TTTCAAAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 2 0.04
11 32 0.71
12 11 0.24
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:31932019 original size:17 final size:18
Alignment explanation
Indices: 31931992--31932035 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
31931982 ATTTAAATTG
31931992 AATTCAAAATAAATTTAA
1 AATTCAAAATAAATTTAA
31932010 AATT-AAAATAAATTT-A
1 AATTCAAAATAAATTTAA
*
31932026 ATTTCAAAAT
1 AATTCAAAAT
31932036 GGTTTGGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 16 0.67
18 4 0.17
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTCAAAATAAATTTAA
Found at i:31932391 original size:51 final size:51
Alignment explanation
Indices: 31932286--31932423 Score: 217
Period size: 51 Copynumber: 2.7 Consensus size: 51
31932276 GATGTTTAGG
* * *
31932286 CTTCGTCTTGCTCTTACTTCAATTTCAGATG-GAC-GAAAATGATGTTGGTG
1 CTTCATCTTGCTCTTACTTCAATTTCAGA-GAGACAAAAAATGATGTTGGTA
*
31932336 CTTCATCTTACTCTTACTTCAATTTCAGAGAGACAAAAAATGATGTTGGTA
1 CTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAAAATGATGTTGGTA
31932387 CTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAA
1 CTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAA
31932424 GGCTTGATAT
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
49 1 0.01
50 30 0.37
51 50 0.62
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (51 bp):
CTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAAAATGATGTTGGTA
Found at i:31932485 original size:143 final size:146
Alignment explanation
Indices: 31932291--31932953 Score: 662
Period size: 143 Copynumber: 4.6 Consensus size: 146
31932281 TTAGGCTTCG
* *
31932291 TCTTGCTCTTACTTCAATTTC-AGATGG--ACGAAAATGATGTTGGTGCTTCATCTTACTCTTAC
1 TCTTGCTC-TACTTCAATTTCAAGA-GGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTAC
31932353 TTCAATTTCAGAGAGACAAAAAATGATGTTGGTACTTCATCTTGCTCTTACTTCAATTTCAGAGA
64 TTCAATTTCAGAGAGACAAAAAATGATGTTGGTACTTCATCTTGCTCTTACTTCAATTTCAGAGA
31932418 GACAAAG-GCTTGATAT-
129 GACAAAGAGCTTGATATA
* *
31932434 TC-GGCTCTACTTCAATTTCAAGAGGATAGGATAATGATGTTGGTGCTTCATCTTGCTCTTACTT
1 TCTTGCTCTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTT
** *
31932498 CAATTTCAGAGAGAC---AAA-G--GCTT-G-A--T-ATCCAGCTC-CACTTCAATTTCAAGAGG
66 CAATTTCAGAGAGACAAAAAATGATG-TTGGTACTTCATCTTGCTCTTACTTCAATTTC-AGA-G
* *
31932551 ATAGGA-AAAGATGTCGGTGCT-TCA
128 --A-GACAAAGA-G-C-TTGATAT-A
* * *
31932575 TCTTACTCTTCGTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTGCTCTTACT
1 TCTTGCTCTAC-TTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACT
* * *
31932640 TCAATTTTAGAGGGACAAAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAG
65 TCAATTTCAGAGAGACAAAAAATGATGTTGGTACTTCATCTTGCTCTTACTTCAATTTCAGAGAG
31932705 ACAAAG-GCTTG--ATA
130 ACAAAGAGCTTGATATA
** * *
31932719 TCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAA-GATGTCGGTGCTTCATCTTACTCTTACTT
1 TCTTGCTCTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTT
* * * *
31932783 CAATTTCA-AGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGG
66 CAATTTCAGAGA-GACA-AAAAATGATGTTGGTACTTCATCTTGCTCTTACTTCAATTTCAGAGA
* *
31932847 GACAAAAAATGATG-TTGGTGCTTCA
129 GAC---AAA-GA-GCTTGAT--AT-A
* * *
31932872 TCTTGCTCTTACTTCAATTTC-AGAGG-GACGAAAATGATGTTAGTGCTTCATCTTGCTCTTACT
1 TCTTGCTC-TACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACT
31932935 TCAATTTCAGAGAGACAAA
65 TCAATTTCAGAGAGACAAA
31932954 GGCTTGTTAT
Statistics
Matches: 430, Mismatches: 43, Indels: 85
0.77 0.08 0.15
Matches are distributed among these distances:
132 11 0.03
133 10 0.02
134 2 0.00
136 6 0.01
137 4 0.01
138 3 0.01
139 3 0.01
140 6 0.01
141 18 0.04
142 48 0.11
143 188 0.44
144 8 0.02
145 1 0.00
146 8 0.02
147 3 0.01
148 6 0.01
149 5 0.01
150 5 0.01
152 10 0.02
153 59 0.14
154 26 0.06
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (146 bp):
TCTTGCTCTACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTT
CAATTTCAGAGAGACAAAAAATGATGTTGGTACTTCATCTTGCTCTTACTTCAATTTCAGAGAGA
CAAAGAGCTTGATATA
Found at i:31932506 original size:92 final size:91
Alignment explanation
Indices: 31932350--31932600 Score: 364
Period size: 92 Copynumber: 2.8 Consensus size: 91
31932340 ATCTTACTCT
* ** *
31932350 TACTTCAATTTC-AGAGAGACAAAAAATGATGTTGGTACTTCATCTTGCTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAG-GATAGGAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
* *
31932414 GAGAGACAAAGGCTTGATATTCGGCTC
65 GAGAGACAAAGGCTTGATATCCAGCTC
31932441 TACTTCAATTTCAAGAGGATAGGATAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGA-AATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCA
31932506 GAGAGACAAAGGCTTGATATCCAGCTC
65 GAGAGACAAAGGCTTGATATCCAGCTC
* * * *
31932533 CACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTT-CGTTCAATTTCA
1 TACTTCAATTTCAAGAGGATAGGAAATGATGTTGGTGCTTCATCTTGCTCTTAC-TTCAATTTCA
31932597 -AGAG
65 GAGAG
31932601 GATAGGAAAA
Statistics
Matches: 147, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
90 5 0.03
91 51 0.35
92 91 0.62
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (91 bp):
TACTTCAATTTCAAGAGGATAGGAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAG
AGAGACAAAGGCTTGATATCCAGCTC
Found at i:31932652 original size:51 final size:51
Alignment explanation
Indices: 31932534--31933133 Score: 458
Period size: 51 Copynumber: 12.4 Consensus size: 51
31932524 ATCCAGCTCC
* *
31932534 ACTTCAATTTCAAGAGGATAGGAAAA-GATGTCGGTGCTTCATCTTACTCTT
1 ACTTCAATTT-AAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTT
*
31932585 -CGTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTGCTCTT
1 AC-TTCAATTT-AAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTT
* * *
31932637 ACTTCAATTTTAGAGGGACA-AAAAATGATGTTGGTGCTTCATCTTGCTCTT
1 ACTTCAATTTAAGA-GGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTT
* * * **
31932688 ACTTCAATTTCAGA-G--A-GACAAA-G--GCT--TG-AT-ATCCAGCTC-T
1 ACTTCAATTTAAGAGGATAGGA-AAATGATGTTGGTGCTTCATCTTGCTCTT
* *
31932728 ACTTCAATTTCAAGAGGATAGGAAAA-GATGTCGGTGCTTCATCTTACTCTT
1 ACTTCAATTT-AAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTT
31932779 ACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTT
1 ACTTCAATTT-AAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTT
* * *
31932831 ACTTCAATTTCAGAGGGACA-AAAAATGATGTTGGTGCTTCATCTTGCTCTT
1 ACTTCAATTTAAGA-GGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTT
* * * *
31932882 ACTTCAATTTCAGAGG-GACGAAAATGATGTTAGTGCTTCATCTTGCTCTT
1 ACTTCAATTTAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTT
* * **
31932932 ACTTCAATTTCAGA-G--A-GACAAA-G--GCT--TG-TT-ATCCAGCT-TT
1 ACTTCAATTTAAGAGGATAGGA-AAATGATGTTGGTGCTTCATCTTGCTCTT
* * *
31932972 ACTTCAATTTCAAGATGATAGGAAAA-GATATCGGTGCTTCATCTTGCTCTT
1 ACTTCAATTT-AAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTT
* * * * * **
31933023 ACTTCAATTTCAGA-G---GGACAA-G-GGCT--TG-AT-ATCCAGCTC-T
1 ACTTCAATTTAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTT
* *
31933063 ACTTCAATTTCAAAAGGATAGGAAAA-GATGTCGGTGCTTCATCTTGCTCTT
1 ACTTCAATTT-AAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTT
*
31933114 ACTTCAATTTCAGAGAGATA
1 ACTTCAATTTAAGAG-GATA
31933134 AAGACTCGTT
Statistics
Matches: 447, Mismatches: 57, Indels: 90
0.75 0.10 0.15
Matches are distributed among these distances:
40 34 0.08
41 28 0.06
42 7 0.02
43 6 0.01
44 10 0.02
45 14 0.03
46 8 0.02
47 6 0.01
48 13 0.03
49 8 0.02
50 71 0.16
51 170 0.38
52 71 0.16
53 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (51 bp):
ACTTCAATTTAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTT
Found at i:31932683 original size:194 final size:194
Alignment explanation
Indices: 31932466--31932896 Score: 819
Period size: 194 Copynumber: 2.2 Consensus size: 194
31932456 AGGATAGGAT
31932466 AATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGC
1 AATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGC
31932531 TCCACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTT-CGTTCAATTT
66 TCCACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTAC-TTCAATTT
* *
31932595 CAAGAGGATAGGAAAATGATGTTGGTGCTTCATTTTGCTCTTACTTCAATTTTAGAGGGACAAAA
130 CAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAA
31932660 AATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGC
1 AATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGC
*
31932725 TCTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTACTTCAATTTC
66 TCCACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTACTTCAATTTC
31932790 AAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAA
131 AAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAA
31932854 AATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAG
1 AATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAG
31932897 GGACGAAAAT
Statistics
Matches: 233, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
194 232 1.00
195 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (194 bp):
AATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGC
TCCACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTACTTCAATTTC
AAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAA
Found at i:31932977 original size:244 final size:245
Alignment explanation
Indices: 31932534--31933038 Score: 831
Period size: 244 Copynumber: 2.1 Consensus size: 245
31932524 ATCCAGCTCC
31932534 ACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTCGTTCAATTTCAAG
1 ACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTCGTTCAATTTCAAG
* * * *
31932599 AGGATAGGAAAATGATGTTGGTGCTTCATTTTGCTCTTACTTCAATTTTAGAGGGACAAAAAATG
66 AGGACAGAAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAAAATG
*
31932664 ATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGCTCTA
131 ATGTTAGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGCTCTA
*
31932729 CTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTT
196 CTTCAATTTCAAGAGGATAGGAAAAGATATCGGTGCTTCATCTTACTCTT
* *
31932779 ACTTCAATTTCAAGAGGATAGGAAAATGATGTTGGTGCTTCATCTTGCTCTTAC-TTCAATTTC-
1 ACTTCAATTTCAAGAGGATAGGAAAA-GATGTCGGTGCTTCATCTTACTCTT-CGTTCAATTTCA
*
31932842 AGAGGGACA-AAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGAC-GAAA
64 AGA-GGACAGAAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAAA
*
31932905 ATGATGTTAGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGTTATCCAGCT
128 ATGATGTTAGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGCT
* * *
31932970 TTACTTCAATTTCAAGATGATAGGAAAAGATATCGGTGCTTCATCTTGCTCTT
193 CTACTTCAATTTCAAGAGGATAGGAAAAGATATCGGTGCTTCATCTTACTCTT
31933023 ACTTCAATTTC-AGAGG
1 ACTTCAATTTCAAGAGG
31933039 GACAAGGGCT
Statistics
Matches: 244, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
243 5 0.02
244 126 0.52
245 76 0.31
246 36 0.15
247 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (245 bp):
ACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTACTCTTCGTTCAATTTCAAG
AGGACAGAAAAATGATGTTGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGGGACAAAAAATG
ATGTTAGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGCTCTA
CTTCAATTTCAAGAGGATAGGAAAAGATATCGGTGCTTCATCTTACTCTT
Found at i:31933034 original size:91 final size:91
Alignment explanation
Indices: 31932880--31933173 Score: 396
Period size: 91 Copynumber: 3.2 Consensus size: 91
31932870 CATCTTGCTC
* * * **
31932880 TTACTTCAATTTC-AGAGG-GACGAAAATGATGTTAGTGCTTCATCTTGCTCTTACTTCAATTTC
1 TTACTTCAATTTCAAGAGGATAGGAAAA-GATATCGGTGCTTCATCTTGCTCTTACTTCAATTTC
31932943 AGAGAGACAAAGGCTTGTTATCCAGCT
65 AGAGAGACAAAGGCTTGTTATCCAGCT
*
31932970 TTACTTCAATTTCAAGATGATAGGAAAAGATATCGGTGCTTCATCTTGCTCTTACTTCAATTTCA
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATATCGGTGCTTCATCTTGCTCTTACTTCAATTTCA
* * *
31933035 GAGGGACAAGGGCTTGATATCCAGCT
66 GAGAGACAAAGGCTTGTTATCCAGCT
* * *
31933061 CTACTTCAATTTCAAAAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCA
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATATCGGTGCTTCATCTTGCTCTTACTTCAATTTCA
* * * *
31933126 GAGAGATAAAGACTCGTTATCCATCT
66 GAGAGACAAAGGCTTGTTATCCAGCT
*
31933152 TTACTAT-AACTTCAAGAGGATA
1 TTACT-TCAATTTCAAGAGGATA
31933174 AAAAAATGAC
Statistics
Matches: 178, Mismatches: 23, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
90 13 0.07
91 158 0.89
92 7 0.04
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (91 bp):
TTACTTCAATTTCAAGAGGATAGGAAAAGATATCGGTGCTTCATCTTGCTCTTACTTCAATTTCA
GAGAGACAAAGGCTTGTTATCCAGCT
Found at i:31933219 original size:93 final size:93
Alignment explanation
Indices: 31933100--31933694 Score: 921
Period size: 93 Copynumber: 6.4 Consensus size: 93
31933090 ATGTCGGTGC
* * * *
31933100 TTCATCTTGCTCTTACT-TCAATTTCAGAGAGATAAAGACTCGTTATCCATCTTTACTATAACTT
1 TTCATCTTGCTCTTACTAT-AACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTT
*
31933164 CAAGAGGATAAAAAAATGACATTTGAAAA
65 CAAGAGGATAAAAAATTGACATTTGAAAA
*
31933193 TTCATCTTGCTCTTACTATAACTTCAGAGAGATGAAGATTCATTATCCAACTTTACTATAACTTC
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTTC
31933258 AAGAGGAT-AAAAATTGACATTTGAAAA
66 AAGAGGATAAAAAATTGACATTTGAAAA
*
31933285 TTCATCTTGCTCTTACTATAACTTCAGAGAGATGAAGATTCATTATCCAACTTTACTATAACTTC
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTTC
* **
31933350 AAGAGGATAAAAATTTGACATTTGAAGC
66 AAGAGGATAAAAAATTGACATTTGAAAA
*
31933378 TTTATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTTC
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTTC
31933443 AAGAGGATAAAAAATTTGACATTTGAAAA
66 AAGAGGATAAAAAA-TTGACATTTGAAAA
*
31933472 TTCATCTTGC-CATTACTATAACTTCAGAGAGATGAAGATTCATTATCCAACTTTACTATAACTT
1 TTCATCTTGCTC-TTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTT
* * **
31933536 TAAGAGGATAAAAATTTGACATTTGAAGC
65 CAAGAGGATAAAAAATTGACATTTGAAAA
* *
31933565 TTTATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCAATATCCAACTTTACTATAACTTC
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTTC
* * *
31933630 AAGAGGATAAGAAA-TGACGTTT-AAAGC
66 AAGAGGATAAAAAATTGACATTTGAAA-A
*
31933657 TTTATCTTGCTCTTACTATAACTTCAGAGAGATAAAGA
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGA
31933695 CTTTTCCCTT
Statistics
Matches: 468, Mismatches: 28, Indels: 13
0.92 0.06 0.03
Matches are distributed among these distances:
91 2 0.00
92 137 0.29
93 242 0.52
94 87 0.19
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (93 bp):
TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTTC
AAGAGGATAAAAAATTGACATTTGAAAA
Found at i:31933547 original size:187 final size:186
Alignment explanation
Indices: 31933100--31933694 Score: 957
Period size: 185 Copynumber: 3.2 Consensus size: 186
31933090 ATGTCGGTGC
* * * *
31933100 TTCATCTTGCTCTTACT-TCAATTTCAGAGAGATAAAGACTCGTTATCCATCTTTACTATAACTT
1 TTCATCTTGCTCTTACTAT-AACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTT
** ** * *
31933164 CAAGAGGATAAAAAAATGACATTTGAAAATTCATCTTGCTCTTACTATAACTTCAGAGAGATGAA
65 CAAGAGGATAAAAATTTGACATTTGAAGCTTTATCTTGCTCTTACTATAACTTCAGAGAGATAAA
31933229 GATTCATTATCCAACTTTACTATAACTTCAAGAGGAT-AAAAATTGACATTTGAAAA
130 GATTCATTATCCAACTTTACTATAACTTCAAGAGGATAAAAAATTGACATTTGAAAA
*
31933285 TTCATCTTGCTCTTACTATAACTTCAGAGAGATGAAGATTCATTATCCAACTTTACTATAACTTC
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTTC
31933350 AAGAGGATAAAAATTTGACATTTGAAGCTTTATCTTGCTCTTACTATAACTTCAGAGAGATAAAG
66 AAGAGGATAAAAATTTGACATTTGAAGCTTTATCTTGCTCTTACTATAACTTCAGAGAGATAAAG
31933415 ATTCATTATCCAACTTTACTATAACTTCAAGAGGATAAAAAATTTGACATTTGAAAA
131 ATTCATTATCCAACTTTACTATAACTTCAAGAGGATAAAAAA-TTGACATTTGAAAA
*
31933472 TTCATCTTGC-CATTACTATAACTTCAGAGAGATGAAGATTCATTATCCAACTTTACTATAACTT
1 TTCATCTTGCTC-TTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTT
*
31933536 TAAGAGGATAAAAATTTGACATTTGAAGCTTTATCTTGCTCTTACTATAACTTCAGAGAGATAAA
65 CAAGAGGATAAAAATTTGACATTTGAAGCTTTATCTTGCTCTTACTATAACTTCAGAGAGATAAA
* * * *
31933601 GATTCAATATCCAACTTTACTATAACTTCAAGAGGATAAGAAA-TGACGTTT-AAAGC
130 GATTCATTATCCAACTTTACTATAACTTCAAGAGGATAAAAAATTGACATTTGAAA-A
*
31933657 TTTATCTTGCTCTTACTATAACTTCAGAGAGATAAAGA
1 TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGA
31933695 CTTTTCCCTT
Statistics
Matches: 386, Mismatches: 18, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
184 3 0.01
185 194 0.50
186 8 0.02
187 181 0.47
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (186 bp):
TTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTTC
AAGAGGATAAAAATTTGACATTTGAAGCTTTATCTTGCTCTTACTATAACTTCAGAGAGATAAAG
ATTCATTATCCAACTTTACTATAACTTCAAGAGGATAAAAAATTGACATTTGAAAA
Found at i:31935073 original size:16 final size:16
Alignment explanation
Indices: 31935054--31935104 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
31935044 TTTCTTTTTC
31935054 TTTTTCTCTTTTTTATT
1 TTTTTCTCTTTTTTA-T
* *
31935071 TTTTTATTTTTTTTAT
1 TTTTTCTCTTTTTTAT
31935087 TTTTTCTCTTTTTTAT
1 TTTTTCTCTTTTTTAT
31935103 TT
1 TT
31935105 GTTTTTCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCTCTTTTTTAT
Found at i:31935074 original size:9 final size:9
Alignment explanation
Indices: 31935062--31935091 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
31935052 TCTTTTTCTC
31935062 TTTTTTA-T
1 TTTTTTATT
31935070 TTTTTTATT
1 TTTTTTATT
31935079 TTTTTTATT
1 TTTTTTATT
31935088 TTTT
1 TTTT
31935092 CTCTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTATT
Found at i:31935082 original size:17 final size:17
Alignment explanation
Indices: 31935054--31935113 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
31935044 TTTCTTTTTC
*
31935054 TTTTTCTCTTTTTTATT
1 TTTTTATCTTTTTTATT
*
31935071 TTTTTATTTTTTTTA-T
1 TTTTTATCTTTTTTATT
*
31935087 TTTTTCTCTTTTTTATT
1 TTTTTATCTTTTTTATT
31935104 TGTTTT-TCTT
1 T-TTTTATCTT
31935114 CATTGTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.38
17 19 0.51
18 4 0.11
ACGTcount: A:0.07, C:0.08, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTTTATCTTTTTTATT
Found at i:31935098 original size:9 final size:8
Alignment explanation
Indices: 31935062--31935109 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
31935052 TCTTTTTCTC
31935062 TTTTTTAT
1 TTTTTTAT
31935070 TTTTTTATT
1 TTTTTTA-T
31935079 TTTTTTAT
1 TTTTTTAT
*
31935087 TTTTTCT-C
1 TTTTT-TAT
31935095 TTTTTTAT
1 TTTTTTAT
31935103 TTGTTTT
1 TT-TTTT
31935110 TCTTCATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 1 0.03
8 20 0.59
9 13 0.38
ACGTcount: A:0.08, C:0.04, G:0.02, T:0.85
Consensus pattern (8 bp):
TTTTTTAT
Found at i:31935936 original size:5 final size:5
Alignment explanation
Indices: 31935922--31936028 Score: 87
Period size: 5 Copynumber: 21.4 Consensus size: 5
31935912 ATCTTGACCC
* * *
31935922 TTTT- TTTTG TTTTG TTTTT TTTTC TTCTT- TTTTG TTTTG TTTTG TTCTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TT-TTG TTTTG TTTTG TTTTG TTTTG
* * *
31935971 TTCTG TTTTG CTTTG CTTTGTT TTTTG TTTT- TTTTGG TTTT- TTTTG
1 TTTTG TTTTG TTTTG -TTT-TG TTTTG TTTTG TTTT-G TTTTG TTTTG
*
31936017 TTTTT TTTTG TT
1 TTTTG TTTTG TT
31936029 ATAACACGTC
Statistics
Matches: 85, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
4 14 0.16
5 59 0.69
6 11 0.13
7 1 0.01
ACGTcount: A:0.00, C:0.06, G:0.14, T:0.80
Consensus pattern (5 bp):
TTTTG
Found at i:31935958 original size:25 final size:26
Alignment explanation
Indices: 31935924--31936022 Score: 105
Period size: 25 Copynumber: 3.8 Consensus size: 26
31935914 CTTGACCCTT
*
31935924 TTTTTTGTTTTGTTT-TTTTTTCTTC
1 TTTTTTGTTTTGTTTGTTTTTTGTTC
* *
31935949 TTTTTTGTTTTGTTT-TGTTCTGTTC
1 TTTTTTGTTTTGTTTGTTTTTTGTTC
* *
31935974 TGTTTTGCTTTGCTTTGTTTTTTGTT-
1 TTTTTTGTTTTG-TTTGTTTTTTGTTC
*
31936000 TTTTTTGGTTTTTTTTGTTTTTT
1 TTTTTT-GTTTTGTTTGTTTTTT
31936023 TTTGTTATAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
25 32 0.52
26 18 0.30
27 11 0.18
ACGTcount: A:0.00, C:0.06, G:0.14, T:0.80
Consensus pattern (26 bp):
TTTTTTGTTTTGTTTGTTTTTTGTTC
Found at i:31940651 original size:29 final size:27
Alignment explanation
Indices: 31940491--31940688 Score: 89
Period size: 28 Copynumber: 6.8 Consensus size: 27
31940481 GATATCCGGG
* ** *
31940491 GGTAAAATGGTAATTTTAGACTTTCGGG
1 GGTAAAATGGTAATTTTGGAAATTC-GA
31940519 GGTAAAATGGTAATTTTTTGTGAAA-TCGA
1 GGTAAAATGGTAA--TTTTG-GAAATTCGA
** * *
31940548 GGCTAAAAATGG-AATTTAAGAAAGTTTGGG
1 GG-T-AAAATGGTAATTTTGGAAA--TTCGA
**
31940578 GGTAAAATGGTAAATTTTGGCAAAACCGA
1 GGTAAAATGGT-AATTTTGG-AAATTCGA
*
31940607 GGTCAAAAACGG-AATTTTGGAAAGTTCGA
1 GGT--AAAATGGTAATTTTGGAAA-TTCGA
* *
31940636 TGGTAAAATGGTAATTTTTGGTAAAATCGG
1 -GGTAAAATGGTAA-TTTTGG-AAATTCGA
31940666 GGTCAAAAAT-GTAATTTTGGAAA
1 GGT--AAAATGGTAATTTTGGAAA
31940689 ATTTTTGTAG
Statistics
Matches: 130, Mismatches: 20, Indels: 40
0.68 0.11 0.21
Matches are distributed among these distances:
27 4 0.03
28 35 0.27
29 30 0.23
30 35 0.27
31 26 0.20
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (27 bp):
GGTAAAATGGTAATTTTGGAAATTCGA
Found at i:31940683 original size:59 final size:59
Alignment explanation
Indices: 31940513--31940688 Score: 210
Period size: 59 Copynumber: 3.0 Consensus size: 59
31940503 ATTTTAGACT
* * * **
31940513 TTCGGGGGTAAAATGGTAATTTTTTGTGAAATCGAGG-CTAAAAATGGAATTTAAGAAAG
1 TTCGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTC-AAAAATGGAATTTTGGAAAG
* * * * * *
31940572 TTTGGGGGTAAAATGGTAAATTTTGGCAAAACCGAGGTCAAAAACGGAATTTTGGAAAG
1 TTCGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTCAAAAATGGAATTTTGGAAAG
* * *
31940631 TTCGATGGTAAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGTAATTTTGGAAA
1 TTCGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTCAAAAATGGAATTTTGGAAA
31940689 ATTTTTGTAG
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
59 97 0.99
60 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (59 bp):
TTCGAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTCAAAAATGGAATTTTGGAAAG
Found at i:31940740 original size:90 final size:89
Alignment explanation
Indices: 31940639--31940862 Score: 256
Period size: 90 Copynumber: 2.5 Consensus size: 89
31940629 AGTTCGATGG
* * *
31940639 TAAAATGGTAATTTTTGGTAAAA-TCGGGGTCAAAAATGTAATTTTGGAAAATTTTTGTAGTCAA
1 TAAAAT-GTAATTTTTGG-AAAATTCGGGGT-AAAAATATAATTTTGGAAAAGTTTTGGAGTCAA
*
31940703 AATGTAATTTTAGAAAAGTTTTAGGGC
63 AATATAATTTTAGAAAAGTTTTAGGGC
* * *
31940730 TAAAATGTAA-TTTTGGAAAAGTTTTGGGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTCAAA
1 TAAAATGTAATTTTTGGAAAA--TTCGGGGTAAAAATATAATTTTGGAAAAGTTTTGGAGTCAAA
* *
31940794 ATATAATTTTGGAAAAGTTTTAGGGT
64 ATATAATTTTAGAAAAGTTTTAGGGC
* * *
31940820 TAAAATGTAA-TTTTGGAAAAGTTTTGGTGTCAAAATATAATTT
1 TAAAATGTAATTTTTGGAAAA--TTCGGGGTAAAAATATAATTT
31940863 CTAGATAGTT
Statistics
Matches: 119, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
88 4 0.03
89 6 0.05
90 97 0.82
91 12 0.10
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.39
Consensus pattern (89 bp):
TAAAATGTAATTTTTGGAAAATTCGGGGTAAAAATATAATTTTGGAAAAGTTTTGGAGTCAAAAT
ATAATTTTAGAAAAGTTTTAGGGC
Found at i:31940873 original size:30 final size:30
Alignment explanation
Indices: 31940664--31940862 Score: 256
Period size: 30 Copynumber: 6.6 Consensus size: 30
31940654 TGGTAAAATC
* *
31940664 GGGGTCAAAAATGTAATTTTGGAAAATTTTT
1 GGGGTC-AAAATATAATTTTGGAAAAGTTTT
** * *
31940695 GTAGTCAAAATGTAATTTTAGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
* *
31940725 AGGG-CTAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTC-AAAATATAATTTTGGAAAAGTTTT
*
31940755 GGGGTTAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
31940785 GGGGTCAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
* * *
31940815 AGGGTTAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
*
31940845 GGTGTCAAAATATAATTT
1 GGGGTCAAAATATAATTT
31940863 CTAGATAGTT
Statistics
Matches: 147, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
29 1 0.01
30 142 0.97
31 4 0.03
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.39
Consensus pattern (30 bp):
GGGGTCAAAATATAATTTTGGAAAAGTTTT
Found at i:31940873 original size:90 final size:90
Alignment explanation
Indices: 31940664--31940867 Score: 291
Period size: 90 Copynumber: 2.2 Consensus size: 90
31940654 TGGTAAAATC
* * * ** *
31940664 GGGGTCAAAAATGTAATTTTGGAAAATTTTTGTAGTCAAAATGTAATTTTAGAAAAGTTTTAGGG
1 GGGGTC-AAAATATAATTTTAGAAAAGTTTTGGGGTCAAAATATAATTTTAGAAAAGTTTTAGGG
31940729 CTAAAATGTAATTTTGGAAAAGTTTT
65 CTAAAATGTAATTTTGGAAAAGTTTT
* * * *
31940755 GGGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGT
1 GGGGTCAAAATATAATTTTAGAAAAGTTTTGGGGTCAAAATATAATTTTAGAAAAGTTTTAGGGC
31940820 TAAAATGTAATTTTGGAAAAGTTTT
66 TAAAATGTAATTTTGGAAAAGTTTT
*
31940845 GGTGTCAAAATATAATTTCTAGA
1 GGGGTCAAAATATAATTT-TAGA
31940868 TAGTTTAGGG
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
90 93 0.92
91 8 0.08
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (90 bp):
GGGGTCAAAATATAATTTTAGAAAAGTTTTGGGGTCAAAATATAATTTTAGAAAAGTTTTAGGGC
TAAAATGTAATTTTGGAAAAGTTTT
Found at i:31942334 original size:6 final size:6
Alignment explanation
Indices: 31942325--31942390 Score: 59
Period size: 6 Copynumber: 11.7 Consensus size: 6
31942315 TATAATAATG
* * *
31942325 TTAAAT TTAAA- TTAAAT TCAAAT TTAAA- TTAAAT TCAAA- ATAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
31942370 TTAAAA TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAA
31942391 TTTCAAAATG
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
5 17 0.36
6 30 0.64
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:31942341 original size:11 final size:11
Alignment explanation
Indices: 31942325--31942393 Score: 61
Period size: 11 Copynumber: 6.2 Consensus size: 11
31942315 TATAATAATG
31942325 TTAAATTTAAA-
1 TTAAA-TTAAAT
31942336 TTAAATTCAAAT
1 TTAAATT-AAAT
31942348 TTAAATTAAAT
1 TTAAATTAAAT
* *
31942359 TCAAAATAAAT
1 TTAAATTAAAT
31942370 TTAAAATTAAA-
1 TT-AAATTAAAT
* *
31942381 ATAAATTTAAT
1 TTAAATTAAAT
31942392 TT
1 TT
31942394 CAAAATGGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
10 9 0.19
11 24 0.51
12 14 0.30
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:31942347 original size:17 final size:17
Alignment explanation
Indices: 31942327--31942363 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
31942317 TAATAATGTT
31942327 AAATTTAAATTAAATTC
1 AAATTTAAATTAAATTC
31942344 AAATTTAAATTAAATTC
1 AAATTTAAATTAAATTC
31942361 AAA
1 AAA
31942364 ATAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTTAAATTAAATTC
Found at i:31942373 original size:17 final size:16
Alignment explanation
Indices: 31942332--31942399 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 16
31942322 ATGTTAAATT
*
31942332 TAAATTAAATTCAAATT
1 TAAATTAAATTCAAA-A
31942349 TAAATTAAATTCAAAA
1 TAAATTAAATTCAAAA
31942365 TAAATTTAAAATT-AAAA
1 TAAA-TT-AAATTCAAAA
*
31942382 TAAATTTAATTTCAAAA
1 TAAA-TTAAATTCAAAA
31942399 T
1 T
31942400 GGTTTGGGCC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.17
17 33 0.72
18 5 0.11
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATTAAATTCAAAA
Found at i:31942544 original size:27 final size:27
Alignment explanation
Indices: 31942466--31942533 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
31942456 ATTCAAATTG
*
31942466 AAATGAAATT-AAA--AACTTTAATTTT
1 AAATGAAATTGAAATCAAC-TTAAGTTT
*
31942491 AAATTTAAATTGAAATCAACTTAAGTTT
1 AAA-TGAAATTGAAATCAACTTAAGTTT
31942519 AAATGAAATTGAAAT
1 AAATGAAATTGAAAT
31942534 GGACTTCAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 3 0.08
26 6 0.17
27 14 0.39
28 10 0.28
29 3 0.08
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.37
Consensus pattern (27 bp):
AAATGAAATTGAAATCAACTTAAGTTT
Found at i:31942549 original size:27 final size:27
Alignment explanation
Indices: 31942463--31942549 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
31942453 GAAATTCAAA
*
31942463 TTGAAATGAAATT-AAA--AACTTTAAT
1 TTGAAATGAAATTGAAATCAAC-TTAAG
* *
31942488 TTTAAATTTAAATTGAAATCAACTTAAG
1 TTGAAA-TGAAATTGAAATCAACTTAAG
* ** *
31942516 TTTAAATGAAATTGAAATGGACTTCAG
1 TTGAAATGAAATTGAAATCAACTTAAG
31942543 TTGAAAT
1 TTGAAAT
31942550 TAAAAAAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
25 5 0.10
26 6 0.12
27 26 0.52
28 10 0.20
29 3 0.06
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (27 bp):
TTGAAATGAAATTGAAATCAACTTAAG
Found at i:31942582 original size:18 final size:18
Alignment explanation
Indices: 31942555--31942589 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31942545 GAAATTAAAA
*
31942555 AAATTGAAGTTGCAATTT
1 AAATTGAAGTTGAAATTT
*
31942573 AAATTTAAGTTGAAATT
1 AAATTGAAGTTGAAATT
31942590 AAGTTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (18 bp):
AAATTGAAGTTGAAATTT
Found at i:31942711 original size:18 final size:18
Alignment explanation
Indices: 31942684--31942728 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
31942674 AATTAAGTTC
*
31942684 AAATTGAAATTGAAAATG
1 AAATTTAAATTGAAAATG
* *
31942702 AAATTTAAATTTAAAATT
1 AAATTTAAATTGAAAATG
31942720 AAAGTTTAA
1 AAA-TTTAA
31942729 TAATATAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (18 bp):
AAATTTAAATTGAAAATG
Found at i:31942713 original size:6 final size:6
Alignment explanation
Indices: 31942702--31942917 Score: 75
Period size: 6 Copynumber: 34.7 Consensus size: 6
31942692 ATTGAAAATG
* * *
31942702 AAATTT AAATTT AAAATT AAAGTTT AATAATAT AAAGTTT AAAATTA ATAATGTT
1 AAATTT AAATTT AAATTT AAA-TTT -A-AATTT AAA-TTT -AAATTT A-AAT-TT
* * * * *
31942757 AAAAATTA AAATTT AATTTT CAATTT AAA-TG AAATTT -AATTT AAAATTA
1 --AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT -AAATTT
* * * * * * *
31942806 AAATTA AAATTA AAATTT AGATTAAT AAAGTTT AAAATT AAGTTC AAATTG
1 AAATTT AAATTT AAATTT AAATT--T AAA-TTT AAATTT AAATTT AAATTT
* * * * *
31942857 AAATTT AAA-TT AAAATG AAATTG AAATTG AAA-TT AAATTG AAA--T
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
31942901 GAATTT GAAATTT AAAT
1 AAATTT -AAATTT AAAT
31942918 GAAATTAAAA
Statistics
Matches: 158, Mismatches: 32, Indels: 40
0.69 0.14 0.17
Matches are distributed among these distances:
4 2 0.01
5 18 0.11
6 96 0.61
7 23 0.15
8 11 0.07
9 7 0.04
10 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.39
Consensus pattern (6 bp):
AAATTT
Found at i:31942759 original size:22 final size:21
Alignment explanation
Indices: 31942714--31942769 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
31942704 ATTTAAATTT
*
31942714 AAAATTAAAGTTTAATAATATA
1 AAAATTAAA-ATTAATAATATA
** *
31942736 AAGTTTAAAATTAATAATGTTA
1 AAAATTAAAATTAATAAT-ATA
31942758 AAAATTAAAATT
1 AAAATTAAAATT
31942770 TAATTTTCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATTAAAATTAATAATATA
Found at i:31942804 original size:23 final size:23
Alignment explanation
Indices: 31942765--31942818 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
31942755 TTAAAAATTA
** *
31942765 AAATTTAATTTTCAATTTAAATG
1 AAATTTAATTTAAAATTAAAATG
*
31942788 AAATTTAATTTAAAATTAAAATT
1 AAATTTAATTTAAAATTAAAATG
*
31942811 AAAATTAA
1 AAATTTAA
31942819 AATTTAGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATTTAATTTAAAATTAAAATG
Found at i:31942812 original size:28 final size:28
Alignment explanation
Indices: 31942697--31942928 Score: 73
Period size: 28 Copynumber: 8.0 Consensus size: 28
31942687 TTGAAATTGA
*
31942697 AAATGAAATTTAAATTTAAAATTAAAGTT
1 AAATGAAATTT-AATTTAAAATTAAAATT
* *
31942726 TAAT--AATATAAAGTTTAAAATTAATAATGT
1 AAATGAAAT-TTAA-TTTAAAATTAA-AAT-T
* * ** * *
31942756 TAA--AAATTAAAATTTAATTTTCAATTT
1 AAATGAAATT-TAATTTAAAATTAAAATT
31942783 AAATGAAATTTAATTTAAAATTAAAATT
1 AAATGAAATTTAATTTAAAATTAAAATT
* *
31942811 AAAATTAAAATTTAGATTAATAAAGTTTAAAATT
1 -AAA-TGAAATTTA-ATT--TAAA-ATTAAAATT
* * * *
31942845 AAGTTCAAATTGAAATTT-AAATTAAAATG
1 AA-ATGAAATT-TAATTTAAAATTAAAATT
* * * *
31942874 AAATTGAAATTGAAATT-AAATTGAAATG
1 AAA-TGAAATTTAATTTAAAATTAAAATT
* * *
31942902 AATTTGAAATTTAA-ATGAAATTAAAAT
1 AA-ATGAAATTTAATTTAAAATTAAAAT
31942929 AAACTTAAAT
Statistics
Matches: 155, Mismatches: 29, Indels: 39
0.70 0.13 0.17
Matches are distributed among these distances:
27 9 0.06
28 61 0.39
29 37 0.24
30 20 0.13
31 4 0.03
33 15 0.10
34 9 0.06
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (28 bp):
AAATGAAATTTAATTTAAAATTAAAATT
Found at i:31942868 original size:23 final size:23
Alignment explanation
Indices: 31942840--31942928 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 23
31942830 ATAAAGTTTA
** *
31942840 AAATTAAGTTCAAATTGAAATTT
1 AAATTAAAATCAAATTGAAATTG
*
31942863 AAATTAAAATGAAATTGAAATTG
1 AAATTAAAATCAAATTGAAATTG
* * *
31942886 AAATTAAATTGAAA-TGAATTTG
1 AAATTAAAATCAAATTGAAATTG
* * *
31942908 AAATTTAAATGAAATTAAAAT
1 AAATTAAAATCAAATTGAAAT
31942929 AAACTTAAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 19 0.35
23 36 0.65
ACGTcount: A:0.54, C:0.01, G:0.10, T:0.35
Consensus pattern (23 bp):
AAATTAAAATCAAATTGAAATTG
Found at i:31942873 original size:86 final size:89
Alignment explanation
Indices: 31942666--31942893 Score: 221
Period size: 86 Copynumber: 2.7 Consensus size: 89
31942656 ATAAAAAATT
* * *
31942666 AAGTTTAGAATTAAGTTCAAATTGAAA--T--TGAAAATGAAATTTAAATTTAAAATTAAAGTTT
1 AAGTTTAAAATTAAGTTCAAATTGAAATTTAATTAAAATGAAATTT-AATTTAAAATTAAAGATT
*
31942727 AATAATATAAAGTTTAAAATTAATA
65 AATAATATAAAATTTAAAATTAATA
* * * * *
31942752 ATG-TT-AAA--AA-TTAAAATTTAATTTTCAATTTAAATGAAATTTAATTTAAAATTAAA-ATT
1 AAGTTTAAAATTAAGTTCAAATTGAAATTT-AATTAAAATGAAATTTAATTTAAAATTAAAGATT
*
31942811 AA-AAT-TAAAATTT-AGATTAATA
65 AATAATATAAAATTTAAAATTAATA
* * *
31942833 AAGTTTAAAATTAAGTTCAAATTGAAATTTAAATTAAAATGAAATTGAAATTGAAATTAAA
1 AAGTTTAAAATTAAGTTCAAATTGAAATTT-AATTAAAATGAAATTTAATTTAAAATTAAA
31942894 TTGAAATGAA
Statistics
Matches: 113, Mismatches: 19, Indels: 20
0.74 0.12 0.13
Matches are distributed among these distances:
81 19 0.17
82 11 0.10
83 7 0.06
84 6 0.05
85 18 0.16
86 52 0.46
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.38
Consensus pattern (89 bp):
AAGTTTAAAATTAAGTTCAAATTGAAATTTAATTAAAATGAAATTTAATTTAAAATTAAAGATTA
ATAATATAAAATTTAAAATTAATA
Found at i:31942875 original size:17 final size:17
Alignment explanation
Indices: 31942851--31942928 Score: 68
Period size: 17 Copynumber: 4.6 Consensus size: 17
31942841 AATTAAGTTC
* *
31942851 AAATTGAAATTTAAATT
1 AAATTGAAATTAAAATG
* *
31942868 AAAATGAAATTGAAATTG
1 AAATTGAAATT-AAAATG
*
31942886 AAATT-AAATTGAAATG
1 AAATTGAAATTAAAATG
* *
31942902 AATTTGAAATTTAAATG
1 AAATTGAAATTAAAATG
*
31942919 AAATTAAAAT
1 AAATTGAAAT
31942929 AAACTTAAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
16 8 0.17
17 33 0.69
18 7 0.15
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (17 bp):
AAATTGAAATTAAAATG
Found at i:31942883 original size:11 final size:11
Alignment explanation
Indices: 31942851--31942928 Score: 61
Period size: 11 Copynumber: 6.9 Consensus size: 11
31942841 AATTAAGTTC
*
31942851 AAATTGAAATTT
1 AAATTGAAA-TG
*
31942863 AAATTAAAATG
1 AAATTGAAATG
31942874 AAATTGAAATTG
1 AAATTGAAA-TG
31942886 AAATT-AAATTG
1 AAATTGAAA-TG
*
31942897 AAA-TGAATTTG
1 AAATTGAA-ATG
*
31942908 AAATTTAAATG
1 AAATTGAAATG
*
31942919 AAATTAAAAT
1 AAATTGAAAT
31942929 AAACTTAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
10 1 0.02
11 36 0.65
12 18 0.33
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (11 bp):
AAATTGAAATG
Found at i:31945907 original size:116 final size:113
Alignment explanation
Indices: 31945683--31945961 Score: 388
Period size: 116 Copynumber: 2.5 Consensus size: 113
31945673 GTAAAACTCT
**
31945683 AAAAAAAATATTTTTTATTCGTGTTTTATGGGTGTTGGCCATTAGTTGAAAAAGTGAAAAAATTA
1 AAAAAAAATATTTTTTATTCGTGTTTTATGGGTGCCGGCCATTAGTTGAAAAAGTGAAAAAATTA
* *
31945748 TTTTTGGGTGTTGAGAAAGGTGGTGTCGACCATTGGTTACCAAACACC
66 TTTTCGGGTGTTGAAAAAGGTGGTGTCGACCATTGGTTACCAAACACC
31945796 AAAAAAAATAATTTTTTTATTCGTGTTTTATGGGTGCCGGCCATTAGTTGAAAAAGTGGGAAAAA
1 AAAAAAAAT-A-TTTTTTATTCGTGTTTTATGGGTGCCGGCCATTAGTTGAAAAAGT--GAAAAA
* *
31945861 ATT-TTTTCGGGTGTTGAAAAAGGTGGTGTCGATCATTGGTTGCCAAACACC
62 ATTATTTTCGGGTGTTGAAAAAGGTGGTGTCGACCATTGGTTACCAAACACC
* * * *
31945912 AAAAAAAA-A---TTTATTCGTATTTTTTTGGGTGTCGGCCATTAGTTAAAAAA
1 AAAAAAAATATTTTTTATTCGT-GTTTTATGGGTGCCGGCCATTAGTTGAAAAA
31945962 ACCCGCCAAA
Statistics
Matches: 151, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
110 9 0.06
111 27 0.18
113 9 0.06
114 2 0.01
115 43 0.28
116 52 0.34
117 9 0.06
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (113 bp):
AAAAAAAATATTTTTTATTCGTGTTTTATGGGTGCCGGCCATTAGTTGAAAAAGTGAAAAAATTA
TTTTCGGGTGTTGAAAAAGGTGGTGTCGACCATTGGTTACCAAACACC
Found at i:31945981 original size:116 final size:113
Alignment explanation
Indices: 31945683--31945983 Score: 315
Period size: 115 Copynumber: 2.6 Consensus size: 113
31945673 GTAAAACTCT
* ** * ** *
31945683 AAAAAAAATATTTTTTATTCGTGTTTTATGGGTGTTGGCCATTAGTTGAAAAAGTGAAAAAATTA
1 AAAAAAAATA-ATTTTATTCGTGTTTTATGGGTGCCGGCCATTAGTTAAAAAAGCCAAAAAAATA
*
31945748 -TTTTTGGGTGTTGAGAAAGGTGGTGTCGACCATTGGTTACCAAACACC
65 TTTTTTGGGTGTTGAAAAAGGTGGTGTCGACCATTGGTTACCAAACACC
* ***
31945796 AAAAAAAATAATTTTTTTATTCGTGTTTTATGGGTGCCGGCCATTAGTTGAAAAAGTGGGAAAAA
1 AAAAAAAATAA---TTTTATTCGTGTTTTATGGGTGCCGGCCATTAGTTAAAAAAG-CCAAAAAA
* * *
31945861 AT-TTTTTCGGGTGTTGAAAAAGGTGGTGTCGATCATTGGTTGCCAAACACC
62 ATATTTTTTGGGTGTTGAAAAAGGTGGTGTCGACCATTGGTTACCAAACACC
* * *
31945912 -AAAAAAA-AA-TTTATTCGTATTTTTTTGGGTGTCGGCCATTAGTTAAAAAAACCCGCCAAAAA
1 AAAAAAAATAATTTTATTCGT-GTTTTATGGGTGCCGGCCATTAGTT-AAAAAA---GCCAAAAA
31945974 AATATTTTTT
61 AATATTTTTT
31945984 AATCTAAGAA
Statistics
Matches: 159, Mismatches: 18, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
110 9 0.06
111 22 0.14
112 5 0.03
113 10 0.06
114 9 0.06
115 53 0.33
116 51 0.32
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (113 bp):
AAAAAAAATAATTTTATTCGTGTTTTATGGGTGCCGGCCATTAGTTAAAAAAGCCAAAAAAATAT
TTTTTGGGTGTTGAAAAAGGTGGTGTCGACCATTGGTTACCAAACACC
Found at i:31946539 original size:18 final size:17
Alignment explanation
Indices: 31946505--31946539 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31946495 CTTTTAAACA
*
31946505 TAATTTTGGATTCAATT
1 TAATTTTGGATTAAATT
31946522 TAATTTTGGGATTAAATT
1 TAATTTT-GGATTAAATT
31946540 CAAATTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.51
Consensus pattern (17 bp):
TAATTTTGGATTAAATT
Found at i:31948474 original size:11 final size:11
Alignment explanation
Indices: 31948459--31948537 Score: 63
Period size: 11 Copynumber: 7.0 Consensus size: 11
31948449 AAACACATTT
*
31948459 TTTAAATTTAT
1 TTTAAATTTAA
*
31948470 TTTAAGATTAAA
1 TTTAA-ATTTAA
*
31948482 TTT-ATTTTAAA
1 TTTAAATTT-AA
**
31948493 TTTAAATTTGT
1 TTTAAATTTAA
31948504 TTTAAATTTAAA
1 TTTAAATTT-AA
31948516 TTT-AATTTAA
1 TTTAAATTTAA
31948526 GTTTAAATTTAA
1 -TTTAAATTTAA
31948538 AATTATTCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
10 4 0.08
11 28 0.53
12 21 0.40
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:31948537 original size:17 final size:17
Alignment explanation
Indices: 31948459--31948536 Score: 113
Period size: 17 Copynumber: 4.6 Consensus size: 17
31948449 AAACACATTT
31948459 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
31948477 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
31948493 TTTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
* *
31948510 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
31948527 TTTAAATTTA
1 TTTAAATTTA
31948537 AAATTATTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
16 1 0.02
17 54 0.98
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:31948553 original size:23 final size:23
Alignment explanation
Indices: 31948504--31948556 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
31948494 TTAAATTTGT
* *
31948504 TTTAAATTTAAATTTAATTTAAG
1 TTTAAATTTAAAATTAATTTAAA
31948527 TTTAAATTTAAAATT-ATTCTAAA
1 TTTAAATTTAAAATTAATT-TAAA
31948550 TTTAAAT
1 TTTAAAT
31948557 AAATAAAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTAAATTTAAAATTAATTTAAA
Found at i:31950306 original size:29 final size:29
Alignment explanation
Indices: 31950254--31950690 Score: 207
Period size: 29 Copynumber: 14.9 Consensus size: 29
31950244 CCTAGAAAGT
*
31950254 CTCTGAACTATCCAAAAATTACATTTTAAC
1 CTCTAAACT-TCCAAAAATTACATTTTAAC
31950284 CTCTAAACTTCCAAAAATTACATTTTAAC
1 CTCTAAACTTCCAAAAATTACATTTTAAC
* *
31950313 CTTTAAACTTTCTAAAAATTACATTTTAAC
1 CTCTAAAC-TTCCAAAAATTACATTTTAAC
* * *
31950343 CCCCAAACTTCTCAAAAATTACATTTTCAC
1 CTCTAAACTTC-CAAAAATTACATTTTAAC
* * * *
31950373 C-CTCAAACTTTTCAAAAATCAAATTTTTACC
1 CTCT-AAAC-TTCCAAAAATTACA-TTTTAAC
* *
31950404 CCCT-AACTTTCTAAAAATTACATTTT-AC
1 CTCTAAAC-TTCCAAAAATTACATTTTAAC
* * *
31950432 CCCCAAA-TCTCCAAAAATTACATTTTACC
1 CTCTAAACT-TCCAAAAATTACATTTTAAC
* * * *
31950461 CTC-GAA-TATCTAAAAATTCCATTTTAGC
1 CTCTAAACT-TCCAAAAATTACATTTTAAC
* * *
31950489 CTCAAAATTTCTAAAAATTACCATTTT-AC
1 CTCTAAACTTCCAAAAATTA-CATTTTAAC
** * ** * **
31950518 CTCCGAATTTTAAAAAATTCCATTTTTTGC
1 CTCTAAACTTCCAAAAATTACA-TTTTAAC
* ** *
31950548 C-CGAATTTTCCAAAAATTACTAATTT-AC
1 CTCTAAACTTCCAAAAATTAC-ATTTTAAC
* ** * * *
31950576 CCCCGAATTTCCAAAAATTTCATTTTTAC
1 CTCTAAACTTCCAAAAATTACATTTTAAC
*
31950605 C-CTCAAATTTTCCAAAAATTACCATTTT-AC
1 CTCT-AAA-CTTCCAAAAATTA-CATTTTAAC
* * * *
31950635 CCCTAAATTTCCAAAAATTCCATTTTGGAC
1 CTCTAAACTTCCAAAAATTACATTTT-AAC
*
31950665 C-C-GAACTTTCCAAAAATTACCATTTT
1 CTCTAAAC-TTCCAAAAATTA-CATTTT
31950691 TTCCCTCGAG
Statistics
Matches: 325, Mismatches: 57, Indels: 50
0.75 0.13 0.12
Matches are distributed among these distances:
27 1 0.00
28 60 0.18
29 132 0.41
30 114 0.35
31 16 0.05
32 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (29 bp):
CTCTAAACTTCCAAAAATTACATTTTAAC
Found at i:31950332 original size:30 final size:30
Alignment explanation
Indices: 31950267--31950690 Score: 254
Period size: 30 Copynumber: 14.5 Consensus size: 30
31950257 TGAACTATCC
* * *
31950267 AAAAATTACATTTTAACCTCTAAAC-TTCC
1 AAAAATTACATTTTAACCCCCAAACTTTCT
***
31950296 AAAAATTACATTTTAACCTTTAAACTTTCT
1 AAAAATTACATTTTAACCCCCAAACTTTCT
31950326 AAAAATTACATTTTAACCCCCAAAC-TTCT
1 AAAAATTACATTTTAACCCCCAAACTTTCT
* *
31950355 CAAAAATTACATTTTCACCCTCAAACTTT-T
1 -AAAAATTACATTTTAACCCCCAAACTTTCT
* * * *
31950385 CAAAAATCAAATTTTTACCCCCTAACTTTCT
1 -AAAAATTACATTTTAACCCCCAAACTTTCT
* *
31950416 AAAAATTACATTTT-ACCCCCAAA-TCTCC
1 AAAAATTACATTTTAACCCCCAAACTTTCT
* * *
31950444 AAAAATTACATTTT-ACCCTCGAA-TATCT
1 AAAAATTACATTTTAACCCCCAAACTTTCT
* * * *
31950472 AAAAATTCCATTTT-AGCCTCAAAATTTCT
1 AAAAATTACATTTTAACCCCCAAACTTTCT
* *
31950501 AAAAATTACCATTTT-ACCTCCGAA-TTT-T
1 AAAAATTA-CATTTTAACCCCCAAACTTTCT
* *** * * *
31950529 AAAAAATTCCATTTT-TTGCCCGAATTTTCC
1 -AAAAATTACATTTTAACCCCCAAACTTTCT
* * *
31950559 AAAAATTACTAATTT-ACCCCCGAA-TTTCC
1 AAAAATTAC-ATTTTAACCCCCAAACTTTCT
* * * * *
31950588 AAAAATTTCATTTTTACCCTCAAATTTTCC
1 AAAAATTACATTTTAACCCCCAAACTTTCT
* *
31950618 AAAAATTACCATTTT-ACCCCTAAA-TTTCC
1 AAAAATTA-CATTTTAACCCCCAAACTTTCT
* * * *
31950647 AAAAATTCCATTTTGGA--CCCGAACTTTCC
1 AAAAATTACATTTT-AACCCCCAAACTTTCT
31950676 AAAAATTACCATTTT
1 AAAAATTA-CATTTT
31950691 TTCCCTCGAG
Statistics
Matches: 326, Mismatches: 52, Indels: 33
0.79 0.13 0.08
Matches are distributed among these distances:
28 73 0.22
29 112 0.34
30 132 0.40
31 9 0.03
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAAATTACATTTTAACCCCCAAACTTTCT
Found at i:31950534 original size:58 final size:58
Alignment explanation
Indices: 31950259--31950757 Score: 359
Period size: 59 Copynumber: 8.5 Consensus size: 58
31950249 AAAGTCTCTG
* * ** * * * *
31950259 AACTATCCAAAAATTA-CATTTTAACCTCTAAACTTCCAAAAATTACATTTTAACCTTTA
1 AACTTTCCAAAAATTACCATTTT-ACCCCCGAATTTTCAAAAATTACATTTTAGCC-TCA
* * * *
31950318 AACTTTCTAAAAATTA-CATTTTAACCCCCAAACTTCTCAAAAATTACATTTTCACCCTCA
1 AACTTTCCAAAAATTACCATTTT-ACCCCCGAA-TTTTCAAAAATTACATTTT-AGCCTCA
* * * * * * *
31950378 AACTTTTCAAAAATCA-AATTTTTACCCCCTAACTTTCTAAAAATTACATTTTACCCCCA
1 AACTTTCCAAAAATTACCA-TTTTACCCCCGAATTTTC-AAAAATTACATTTTAGCCTCA
* * * *
31950437 AA-TCTCCAAAAATTA-CATTTTACCCTCGAA-TATCTAAAAATTCCATTTTAGCCTCA
1 AACTTTCCAAAAATTACCATTTTACCCCCGAATTTTC-AAAAATTACATTTTAGCCTCA
* * * * * * *
31950493 AAATTTCTAAAAATTACCATTTTACCTCCGAATTTTAAAAAATTCCATTTTTTGCC-CG
1 AACTTTCCAAAAATTACCATTTTACCCCCGAATTTTCAAAAATTACA-TTTTAGCCTCA
* * * * * *
31950551 AATTTTCCAAAAATTACTAATTTACCCCCGAATTTCCAAAAATTTCATTTTTACCCTCA
1 AACTTTCCAAAAATTACCATTTTACCCCCGAATTTTCAAAAATTACA-TTTTAGCCTCA
* ** * * * *
31950610 AATTTTCCAAAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTGGACC-CG
1 AACTTTCCAAAAATTACCATTTTACCCCCGAATTTTCAAAAATTACATTTTAG-CCTCA
* * * * * *
31950668 AACTTTCCAAAAATTACCATTTTTTCCCTCGAGTTTCCAAAAATTACCATTTTACCCTCG
1 AACTTTCCAAAAATTACCA-TTTTACCCCCGAATTTTCAAAAATTA-CATTTTAGCCTCA
* *
31950728 AGC-CTCCAAAAATTACCATTTTACCCCCGA
1 AACTTTCCAAAAATTACCATTTTACCCCCGA
31950758 GCATCCAAAA
Statistics
Matches: 360, Mismatches: 67, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
56 24 0.07
57 22 0.06
58 114 0.32
59 129 0.36
60 64 0.18
61 7 0.02
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (58 bp):
AACTTTCCAAAAATTACCATTTTACCCCCGAATTTTCAAAAATTACATTTTAGCCTCA
Found at i:31950709 original size:29 final size:30
Alignment explanation
Indices: 31950411--31950767 Score: 203
Period size: 29 Copynumber: 12.3 Consensus size: 30
31950401 ACCCCCTAAC
* * * *
31950411 TTTCTAAAAATTA-CA-TTTTACCCCCAAA
1 TTTCCAAAAATTACCATTTTTACCCTCGAG
* *
31950439 TCTCCAAAAATTA-CA-TTTTACCCTCGAA
1 TTTCCAAAAATTACCATTTTTACCCTCGAG
* * * * *
31950467 TATCTAAAAATT-CCA-TTTTAGCCTCAAAA
1 TTTCCAAAAATTACCATTTTTACCCTC-GAG
* *
31950496 TTTCTAAAAATTACCA-TTTTA-CCTCCGAA
1 TTTCCAAAAATTACCATTTTTACCCT-CGAG
** ** *
31950525 TTTTAAAAAATT-CCATTTTTTGCC-CGAAT
1 TTTCCAAAAATTACCATTTTTACCCTCG-AG
* * * *
31950554 TTTCCAAAAATTACTA-ATTTACCCCCGAA
1 TTTCCAAAAATTACCATTTTTACCCTCGAG
* * *
31950583 TTTCCAAAAATT-TCATTTTTACCCTCAAAT
1 TTTCCAAAAATTACCATTTTTACCCTC-GAG
* *
31950613 TTTCCAAAAATTACCA-TTTTACCC-CTAAA
1 TTTCCAAAAATTACCATTTTTACCCTC-GAG
* *
31950642 TTTCCAAAAATT-CCATTTTGGA-CC-CGAAC
1 TTTCCAAAAATTACCATTTT-TACCCTCG-AG
*
31950671 TTTCCAAAAATTACCATTTTTTCCCTCGAG
1 TTTCCAAAAATTACCATTTTTACCCTCGAG
31950701 TTTCCAAAAATTACCA-TTTTACCCTCGAG
1 TTTCCAAAAATTACCATTTTTACCCTCGAG
** *
31950730 CCTCCAAAAATTACCA-TTTTACCCCCGAG
1 TTTCCAAAAATTACCATTTTTACCCTCGAG
**
31950759 CATCCAAAA
1 TTTCCAAAA
31950768 GTTGTATTTT
Statistics
Matches: 270, Mismatches: 41, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
28 54 0.20
29 149 0.55
30 63 0.23
31 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (30 bp):
TTTCCAAAAATTACCATTTTTACCCTCGAG
Found at i:31950767 original size:117 final size:116
Alignment explanation
Indices: 31950318--31950757 Score: 406
Period size: 117 Copynumber: 3.8 Consensus size: 116
31950308 TTAACCTTTA
* * * * * *
31950318 AACTTTCTAAAAATTA-CATTTTAACCCCCAAACTTCTCAAAAATTACATTTTCACCCTCAAACT
1 AACTTTCCAAAAATTACCATTTT-ACCCTCGAATTTC-CAAAAATTCCATTTT-ACCCTCAAAAT
* * * * * * ** *
31950382 TTTCAAAAATCA-AATTTTTACCCCCTAACTTTCTAAAAATTACA-TTTTACCCCC
63 TTCCAAAAATTACCA-TTTTACCCCCGAA-TTTCCAAAAATTCCATTTTTGGCCCG
* * * * *
31950436 AAATCTCCAAAAATTA-CATTTTACCCTCGAATATCTAAAAATTCCATTTTAGCCTCAAAATTTC
1 AACTTTCCAAAAATTACCATTTTACCCTCGAATTTCCAAAAATTCCATTTTACCCTCAAAATTTC
* * ** *
31950500 TAAAAATTACCATTTTACCTCCGAATTTTAAAAAATTCCATTTTTTGCCCG
66 CAAAAATTACCATTTTACCCCCGAATTTCCAAAAATTCCATTTTTGGCCCG
* * * * * *
31950551 AATTTTCCAAAAATTACTAATTTACCCCCGAATTTCCAAAAATTTCATTTTTACCCTCAAATTTT
1 AACTTTCCAAAAATTACCATTTTACCCTCGAATTTCCAAAAATTCCA-TTTTACCCTCAAAATTT
**
31950616 CCAAAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCA-TTTTGGACCCG
65 CCAAAAATTACCATTTTACCCCCGAATTTCCAAAAATTCCATTTTTGG-CCCG
* * * ***
31950668 AACTTTCCAAAAATTACCATTTTTTCCCTCGAGTTTCCAAAAATTACCATTTTACCCTC-GAGCC
1 AACTTTCCAAAAATTACCA-TTTTACCCTCGAATTTCCAAAAATT-CCATTTTACCCTCAAAATT
31950732 TCCAAAAATTACCATTTTACCCCCGA
64 TCCAAAAATTACCATTTTACCCCCGA
31950758 GCATCCAAAA
Statistics
Matches: 262, Mismatches: 53, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
114 12 0.05
115 50 0.19
116 43 0.16
117 105 0.40
118 50 0.19
119 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (116 bp):
AACTTTCCAAAAATTACCATTTTACCCTCGAATTTCCAAAAATTCCATTTTACCCTCAAAATTTC
CAAAAATTACCATTTTACCCCCGAATTTCCAAAAATTCCATTTTTGGCCCG
Found at i:31962861 original size:153 final size:151
Alignment explanation
Indices: 31962627--31962907 Score: 438
Period size: 153 Copynumber: 1.8 Consensus size: 151
31962617 AGCTCAATCC
* * * *
31962627 GAGCGAAACTTCGAACCTCAGCTTTCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAATGG
1 GAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAATGG
* *
31962692 TCAGCTTCCTGATGAGATACTAAGAAGTGGAGCAAATTCGTCTTCCTGAGGAGATACAGAGAAGT
66 TCAGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTT-CTGAGAAGATACAGAGAAGT
31962757 ATACCAACTCAAGGCTCAAAGT
130 ATACCAACTCAAGGCTCAAAGT
*
31962779 GAGCGAATCTTCGAACCCCAGCTTCCTGGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAATG
1 GAGCGAAACTTCGAACCCCAGCTTCCT-GATGAGATACTGAGAAGCAAGTCGAAGCAATAAAATG
* * *
31962844 GTTAGCTTCCT-ATTGAGATACTGAGAAGTGGACCAAATTCGTCTTCTGATAAGATACAGAGAAG
65 GTCAGCTTCCTGA-TGAGATACTAAGAAGTGGACCAAATTCGTCTTCTGAGAAGATACAGAGAAG
31962908 CGGATTGAAA
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
152 42 0.36
153 75 0.64
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (151 bp):
GAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAATGG
TCAGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCTGAGAAGATACAGAGAAGTA
TACCAACTCAAGGCTCAAAGT
Found at i:31963055 original size:209 final size:209
Alignment explanation
Indices: 31962770--31964416 Score: 2107
Period size: 209 Copynumber: 8.0 Consensus size: 209
31962760 CCAACTCAAG
* *
31962770 GCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGGATGAGATACTGAGAAGCAAGTCGAAGC
1 GCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCT-GATGAGATACTGAGAAGCAGGTCGAAGC
*
31962835 AATAAAATGGTTAGCTTCCT-ATTGAGATACTGAGAAGTGGACCAAATTCGTCTT-CTGATAAGA
65 AATAAAATGGTTAGCTTCCTGA-TGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGA
* * * *
31962898 TACAGAGAAGCGGATTGAAATAAGTGAGGCGGTTATCTTCCTGATGAGATACTGAGAAGTAGACC
129 TACAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
31962963 AAATCAACGAAACCAAA
194 AAATCAACGAAACC-AA
* * * * * * *
31962980 ACTCTATGTGAGCGAATCTTCGAAACCCAACTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCA
1 GCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* * *
31963045 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATAAAATA
66 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
* * * * *
31963110 TAAAGAAACGGATTGAAATAAGTGATGCGGTCATCTT-C--------T--TGAGAAGTAGACCAA
131 CAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAA
* *
31963164 ATCAATGAAATCAA
196 ATCAACGAAACCAA
* * *
31963178 GTTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAAAAGCAGGTCGAAGCA
1 GCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
*
31963243 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCGAATTCGTCTTCCTGATGAGATA
66 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
* * * * * * *
31963308 CAGAGAAGTGAATTAAAACAAGTGAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACTAA
131 CAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAA
*
31963373 CTCAA-G-------
196 ATCAACGAAACCAA
* * *
31963379 GCTCAAAGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGTA
1 GCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* *
31963444 ATAAAATGGTTAGCTTCCTGATAAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
66 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
* *
31963509 CAGAGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAA
131 CAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAA
* *
31963574 ATTAATGAAACCAA
196 ATCAACGAAACCAA
* * *
31963588 GGCTTAAAGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGATACTGAGAAGCAAGTCGAAGC
1 -GCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
* * *
31963653 AATAAAATGGTTAGCTTCTTGATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGAGAT
65 AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
* * * * *
31963718 ACAGAGAAGCAGATTGAAACAAGCGACGCGGTCATCTTTCTGATGAGATACTGAGAAGTAGACCA
130 ACAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCA
*
31963783 AATCAACGAAACCAG
195 AATCAACGAAACCAA
*
31963798 GCTCAAAGTGAGCAAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
1 GCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
** * * * * * *
31963863 ATAAAGCGGTTACCTTCTTGATGAGATACAT-AGAAGTGAACCAGATCCGTCTTCCTGATGAGAC
66 ATAAAATGGTTAGCTTCCTGATGAGATAC-TGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
* * * * *
31963927 ACAAAGAAGTGGATCAAAACAAGTGATACGGTCATCTTCCCGATGAGATACTGAGAAGTAGACCA
130 ACAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCA
*
31963992 AATCAACGAAACCAG
195 AATCAACGAAACCAA
* *
31964007 GCTCAAAGTGAGCAAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCA
1 GCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* * * * * * * * *
31964072 ATAAAATGGTTACCTTCCTAATGAGATACAGAGAATTGGACCAGATCCATCTTCCTAATGAGACA
66 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
* *
31964137 CAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAA
131 CAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAA
* * *
31964202 ATCAATGAAGCTAAA
196 ATCAACGAAAC-CAA
* * * *
31964217 GCTCGATA-TGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCAAAGC
1 GCTC-AAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
** * * * * * * * *
31964281 AATAAAGCGGTTACCTTCTTGATGAGATACAGAGAAGTGAACTAGATCCGTCTTCCTGATGAGAC
65 AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
* * * * *
31964346 ATAGAAAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTAATGAGATACTGAGAAGTAGACCA
130 ACAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCA
31964411 AATCAA
195 AATCAA
31964417 TAACACCAAA
Statistics
Matches: 1275, Mismatches: 136, Indels: 52
0.87 0.09 0.04
Matches are distributed among these distances:
198 147 0.12
199 25 0.02
201 181 0.14
202 1 0.00
207 1 0.00
208 1 0.00
209 471 0.37
210 446 0.35
211 2 0.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (209 bp):
GCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
CAGAGAAGCGGATTAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAA
ATCAACGAAACCAA
Found at i:31963321 original size:32 final size:33
Alignment explanation
Indices: 31963256--31963321 Score: 80
Period size: 37 Copynumber: 1.9 Consensus size: 33
31963246 AAATGGTTAG
*
31963256 CTTCCTGATGAGATACTGAGAAGTGGACCGAATTCGT
1 CTTCCTGATGAGATACAGAGAAGT----CGAATTCGT
31963293 CTTCCTGATGAGATACAGAGAAGT-GAATT
1 CTTCCTGATGAGATACAGAGAAGTCGAATT
31963322 AAAACAAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 5 0.18
37 23 0.82
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (33 bp):
CTTCCTGATGAGATACAGAGAAGTCGAATTCGT
Found at i:31964307 original size:419 final size:419
Alignment explanation
Indices: 31962768--31964417 Score: 2085
Period size: 419 Copynumber: 4.0 Consensus size: 419
31962758 TACCAACTCA
*
31962768 AGGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGGATGAGATACTGAGAAGCAAGTCGAA
1 AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCT-GATGAGATACTGAGAAGCAAGTCGAA
* * *
31962833 GCAATAAAATGGTTAGCTTCCTATTGAGATACTGAGAAGTGGACCAAATTCGTCTT-CTGATAAG
65 GCAATAAAATGGTTAGCTTCCTAATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAG
* * *
31962897 ATACAGAGAAGCGGATTGAAATAAGTGAGGCGGTTATCTTCCTGATGAGATACTGAGAAGTAGAC
130 ATACAGAGAAGCGGATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGAC
* * * * * *
31962962 CAAATCAACGAAACCAAAACTCTATGTGAGCGAATCTTCGAAACCCAACTTCCTGATGAGATACT
195 CAAATCAACGAAACTAAAGCTCGATATGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACT
* * * * * *
31963027 AAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATT
260 GAGAAGCAGGTCGAAGCAATAAAACGGTTACCTTCCTGATGAGATACTAAGAAGTGAACCAAATC
* * * * * * ** *
31963092 CGTCTTCTTGATAAAATATAAAGAAACGGATTGAAATAAGTGATGCGGTCATCTT--C-------
325 CGTCTTCCTGATGAGACACAAAGAAGCGGATCAAAACAAGTGATGCGGTCATCTTCCCGATGAGA
*
31963148 T--TGAGAAGTAGACCAAATCAATGAAATC
390 TACTGAGAAGTAGACCAAATCAATGAAACC
* * * * *
31963176 AAGTTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAAAAGCAGGTCGAAG
1 AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAG
* * *
31963241 CAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCGAATTCGTCTTCCTGATGAGA
66 CAATAAAATGGTTAGCTTCCTAATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGA
* * * * *
31963306 TACAGAGAAGTGAATTAAAACAAGTGAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATA-C
131 TACAGAGAAGCGGATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
* * * *
31963370 ---T-AAC---TC-AAGGCTC-AAAGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGGTACT
196 AAATCAACGAAACTAAAGCTCGATA-TGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACT
* * * * * *
31963426 GAGAAGCAGGTCGAAGTAATAAAATGGTTAGCTTCCTGATAAGATACTAAGAAGTGGACCAAATT
260 GAGAAGCAGGTCGAAGCAATAAAACGGTTACCTTCCTGATGAGATACTAAGAAGTGAACCAAATC
* * ** * *
31963491 CGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGA
325 CGTCTTCCTGATGAGACACAAAGAAGCGGATCAAAACAAGTGATGCGGTCATCTTCCCGATGAGA
*
31963556 TACTGAGAAGTAGACCAAATTAATGAAACC
390 TACTGAGAAGTAGACCAAATCAATGAAACC
* *
31963586 AAGGCTTAAAGTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGATACTGAGAAGCAAGTCGAA
1 -AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAA
* * *
31963651 GCAATAAAATGGTTAGCTTCTTGATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGAG
65 GCAATAAAATGGTTAGCTTCCTAATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAG
* * * * *
31963716 ATACAGAGAAGCAGATTGAAACAAGCGACGCGGTCATCTTTCTGATGAGATACTGAGAAGTAGAC
130 ATACAGAGAAGCGGATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGAC
* * * * *
31963781 CAAATCAACGAAAC-CAGGCTC-AAAGTGAGCAAATCTTTGAACCCCAGCTTCCTGATGAGATAC
195 CAAATCAACGAAACTAAAGCTCGATA-TGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATAC
* * *
31963844 TGAGAAGCAGGTCGAAGCAATAAAGCGGTTACCTTCTTGATGAGATAC-ATAGAAGTGAACCAGA
259 TGAGAAGCAGGTCGAAGCAATAAAACGGTTACCTTCCTGATGAGATACTA-AGAAGTGAACCAAA
* *
31963908 TCCGTCTTCCTGATGAGACACAAAGAAGTGGATCAAAACAAGTGATACGGTCATCTTCCCGATGA
323 TCCGTCTTCCTGATGAGACACAAAGAAGCGGATCAAAACAAGTGATGCGGTCATCTTCCCGATGA
*
31963973 GATACTGAGAAGTAGACCAAATCAACGAAACC
388 GATACTGAGAAGTAGACCAAATCAATGAAACC
* * *
31964005 AGGCTCAAAGTGAGCAAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAG
1 AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAG
* * * * * *
31964070 CAATAAAATGGTTACCTTCCTAATGAGATACAGAGAATTGGACCAGATCCATCTTCCTAATGAGA
66 CAATAAAATGGTTAGCTTCCTAATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGA
* * * *
31964135 CACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
131 TACAGAGAAGCGGATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
* * * * *
31964200 AAATCAATGAAGCTAAAGCTCGATATGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTG
196 AAATCAACGAAACTAAAGCTCGATATGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTG
* * * * *
31964265 AGAAGCAGGTCAAAGCAATAAAGCGGTTACCTTCTTGATGAGATAC-AGAGAAGTGAACTAGATC
261 AGAAGCAGGTCGAAGCAATAAAACGGTTACCTTCCTGATGAGATACTA-AGAAGTGAACCAAATC
* * **
31964329 CGTCTTCCTGATGAGACATAGAA-AAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTAATGAG
325 CGTCTTCCTGATGAGACACA-AAGAAGCGGATCAAAACAAGTGATGCGGTCATCTTCCCGATGAG
31964393 ATACTGAGAAGTAGACCAAATCAAT
389 ATACTGAGAAGTAGACCAAATCAAT
31964418 AACACCAAAT
Statistics
Matches: 1092, Mismatches: 124, Indels: 41
0.87 0.10 0.03
Matches are distributed among these distances:
398 1 0.00
399 149 0.14
400 1 0.00
403 3 0.00
404 1 0.00
407 77 0.07
408 99 0.09
410 25 0.02
411 172 0.16
412 1 0.00
415 1 0.00
416 3 0.00
418 185 0.17
419 370 0.34
420 4 0.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (419 bp):
AGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAG
CAATAAAATGGTTAGCTTCCTAATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGA
TACAGAGAAGCGGATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
AAATCAACGAAACTAAAGCTCGATATGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTG
AGAAGCAGGTCGAAGCAATAAAACGGTTACCTTCCTGATGAGATACTAAGAAGTGAACCAAATCC
GTCTTCCTGATGAGACACAAAGAAGCGGATCAAAACAAGTGATGCGGTCATCTTCCCGATGAGAT
ACTGAGAAGTAGACCAAATCAATGAAACC
Found at i:31964741 original size:17 final size:17
Alignment explanation
Indices: 31964719--31964828 Score: 132
Period size: 17 Copynumber: 6.4 Consensus size: 17
31964709 AGACCCATTT
*
31964719 TTTAAATTT-ATTTTAAA
1 TTTAAATTTAAATTT-AA
**
31964736 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTTAA
31964753 TTTAAATTTAAATTTAA
1 TTTAAATTTAAATTTAA
* **
31964770 TTTAAGTTTAAATTTGT
1 TTTAAATTTAAATTTAA
31964787 TTTAAATTTAAATTTAA
1 TTTAAATTTAAATTTAA
*
31964804 TTTAAGTTTAAATTTAAA
1 TTTAAATTTAAATTT-AA
31964822 TTTAAAT
1 TTTAAAT
31964829 AAATAAAAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
17 66 0.85
18 12 0.15
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Found at i:31964826 original size:23 final size:24
Alignment explanation
Indices: 31964719--31964828 Score: 122
Period size: 23 Copynumber: 4.8 Consensus size: 24
31964709 AGACCCATTT
*
31964719 TTTAAATTT-ATTTTAAATTTAAA
1 TTTAAATTTAAATTTAAATTTAAA
**
31964742 TTTAAATTT-GTTTTAAATTTAAA
1 TTTAAATTTAAATTTAAATTTAAA
* **
31964765 TTT-AATTTAAGTTTAAATTT-GT
1 TTTAAATTTAAATTTAAATTTAAA
*
31964787 TTTAAATTTAAATTT-AATTTAAG
1 TTTAAATTTAAATTTAAATTTAAA
31964810 TTTAAATTTAAATTTAAAT
1 TTTAAATTTAAATTTAAAT
31964829 AAATAAAAGC
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
22 13 0.17
23 59 0.79
24 3 0.04
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (24 bp):
TTTAAATTTAAATTTAAATTTAAA
Found at i:31965560 original size:13 final size:15
Alignment explanation
Indices: 31965527--31965567 Score: 59
Period size: 13 Copynumber: 2.9 Consensus size: 15
31965517 TTTAATGTGT
*
31965527 ATTAATTATAATGAC
1 ATTAATAATAATGAC
31965542 ATTAATAATAAT-A-
1 ATTAATAATAATGAC
31965555 ATTAATAATAATG
1 ATTAATAATAATG
31965568 TTAATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
15 11 0.46
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (15 bp):
ATTAATAATAATGAC
Found at i:31966540 original size:30 final size:29
Alignment explanation
Indices: 31966505--31966645 Score: 113
Period size: 30 Copynumber: 4.7 Consensus size: 29
31966495 TGAACTGTCC
*
31966505 AAAAATCACATCTTGACCCCCAAACTTTT
1 AAAAATCACATTTTGACCCCCAAACTTTT
* * *
31966534 AAAAAATTACATTTTGACCTCTAAACTTTT
1 -AAAAATCACATTTTGACCCCCAAACTTTT
* * *
31966564 CAAAAATTATATTTTGACCCCAAAACTTTCT
1 -AAAAATCACATTTTGACCCCCAAACTTT-T
* * *
31966595 AAAAATCA-AATTTGAAACCCCAAACTTTCC
1 AAAAATCACATTTTG-ACCCCCAAACTTT-T
* *
31966625 AAAAATTACAATTTTTACCCC
1 AAAAATCAC-ATTTTGACCCC
31966646 TAAATCTCCA
Statistics
Matches: 90, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
29 5 0.06
30 76 0.84
31 5 0.06
32 4 0.04
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAAATCACATTTTGACCCCCAAACTTTT
Found at i:31966656 original size:30 final size:29
Alignment explanation
Indices: 31966535--31966778 Score: 169
Period size: 30 Copynumber: 8.2 Consensus size: 29
31966525 CAAACTTTTA
* * *
31966535 AAAAATT-ACATTTTGACCTCTAAACTTTTC
1 AAAAATTCA-ATTTTTACCCCTAAA-TTTCC
* * *
31966565 AAAAATT-ATATTTTGACCCCAAAACTTTCT
1 AAAAATTCA-ATTTTTACCCCTAAA-TTTCC
**
31966595 AAAAA-TCAAATTTGAAACCCC-AAACTTTCC
1 AAAAATTC-AATTT-TTACCCCTAAA-TTTCC
*
31966625 AAAAATTACAATTTTTACCCCTAAATCTCC
1 AAAAATT-CAATTTTTACCCCTAAATTTCC
* *
31966655 AAAAATT-ATAATTTTACCCCTAAATCTCC
1 AAAAATTCA-ATTTTTACCCCTAAATTTCC
* * *
31966684 AAAAATTCCATTTTTAGCCCAAAATTTTCC
1 AAAAATTCAATTTTTACCCCTAAA-TTTCC
*
31966714 -AAAATTCACTATTTTACCCCTAAATTTCC
1 AAAAATTCAAT-TTTTACCCCTAAATTTCC
* * *
31966743 AAAAATTCCATTTTTGA-CCCTGAGTTTCC
1 AAAAATTCAATTTTT-ACCCCTAAATTTCC
31966772 AAAAATT
1 AAAAATT
31966779 ACCATCTTAC
Statistics
Matches: 177, Mismatches: 25, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
28 1 0.01
29 73 0.41
30 87 0.49
31 15 0.08
32 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAAATTCAATTTTTACCCCTAAATTTCC
Found at i:31966670 original size:29 final size:29
Alignment explanation
Indices: 31966622--31966818 Score: 157
Period size: 29 Copynumber: 6.8 Consensus size: 29
31966612 CCCCAAACTT
31966622 TCCAAAAATTACAATTTTTACCCCTAAATC
1 TCCAAAAATTACAA-TTTTACCCCTAAATC
*
31966652 TCCAAAAATTATAATTTTACCCCTAAATC
1 TCCAAAAATTACAATTTTACCCCTAAATC
* * * * *
31966681 TCCAAAAATTCCATTTTTAGCCCAAAATTT
1 TCCAAAAATTACAATTTTACCCCTAAA-TC
* *
31966711 TCC-AAAATTCACTATTTTACCCCTAAATT
1 TCCAAAAATT-ACAATTTTACCCCTAAATC
* * * * *
31966740 TCCAAAAATTCCATTTTTGA-CCCTGAGTT
1 TCCAAAAATTACAATTTT-ACCCCTAAATC
* * * *
31966769 TCCAAAAATTACCATCTTACCCC-GAACC
1 TCCAAAAATTACAATTTTACCCCTAAATC
* * *
31966797 TTCAAAATTTACCATTTTACCC
1 TCCAAAAATTACAATTTTACCC
31966819 TCGACCATCC
Statistics
Matches: 135, Mismatches: 27, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
28 22 0.16
29 77 0.57
30 36 0.27
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTACAATTTTACCCCTAAATC
Found at i:31966690 original size:59 final size:57
Alignment explanation
Indices: 31966622--31966791 Score: 191
Period size: 59 Copynumber: 2.9 Consensus size: 57
31966612 CCCCAAACTT
* *
31966622 TCCAAAAATTACAATTTTTACCCCTAAATCTCCAAAAATTA-TAATTTTACCCCTAAATC
1 TCCAAAAATT-CCATTTTTA-CCCTAAATTTCCAAAAATTACT-ATTTTACCCCTAAATC
* *
31966681 TCCAAAAATTCCATTTTTAGCCCAAAATTTTCC-AAAATTCACTATTTTACCCCTAAATT
1 TCCAAAAATTCCATTTTTA-CCCTAAA-TTTCCAAAAATT-ACTATTTTACCCCTAAATC
* * * *
31966740 TCCAAAAATTCCATTTTTGACCCTGAGTTTCCAAAAATTACCATCTTACCCC
1 TCCAAAAATTCCATTTTT-ACCCTAAATTTCCAAAAATTACTATTTTACCCC
31966792 GAACCTTCAA
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
58 36 0.38
59 58 0.60
60 2 0.02
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (57 bp):
TCCAAAAATTCCATTTTTACCCTAAATTTCCAAAAATTACTATTTTACCCCTAAATC
Found at i:31969889 original size:20 final size:20
Alignment explanation
Indices: 31969866--31969904 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
31969856 TCACAAAAAA
*
31969866 CAAT-TAAAAGTTAGAAAATG
1 CAATCTAAAAATTA-AAAATG
31969886 CAATCTAAAAATTAAAAAT
1 CAATCTAAAAATTAAAAAT
31969905 AAAATGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (20 bp):
CAATCTAAAAATTAAAAATG
Found at i:31979083 original size:34 final size:35
Alignment explanation
Indices: 31979045--31979128 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 35
31979035 ATTAGGCTTA
*
31979045 TTGGGTCGGTTA-GGGTATTGGGCTAGGTTTAGG-T
1 TTGGGTTGGTTATGGGTATTGGG-TAGGTTTAGGAT
* * * *
31979079 TTGGGTTTGTAATGGGTTTTGGGTAGTTTTAGGAT
1 TTGGGTTGGTTATGGGTATTGGGTAGGTTTAGGAT
31979114 TTGGGTTGGTT-TGGG
1 TTGGGTTGGTTATGGG
31979129 GTTTTTAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
34 22 0.54
35 19 0.46
ACGTcount: A:0.11, C:0.02, G:0.43, T:0.44
Consensus pattern (35 bp):
TTGGGTTGGTTATGGGTATTGGGTAGGTTTAGGAT
Found at i:31979133 original size:35 final size:35
Alignment explanation
Indices: 31979057--31979123 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
31979047 GGGTCGGTTA
* *
31979057 GGGTATTGGGCTAGGTTTAGGTTTGGGTTTGTAAT
1 GGGTTTTGGGCTAGGTTTAGGTTTGGGTTGGTAAT
*
31979092 GGGTTTTGGG-TAGTTTTAGGATTTGGGTTGGT
1 GGGTTTTGGGCTAGGTTTAGG-TTTGGGTTGGT
31979124 TTGGGGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 9 0.32
35 19 0.68
ACGTcount: A:0.12, C:0.01, G:0.42, T:0.45
Consensus pattern (35 bp):
GGGTTTTGGGCTAGGTTTAGGTTTGGGTTGGTAAT
Found at i:31979180 original size:5 final size:5
Alignment explanation
Indices: 31979166--31979196 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
31979156 ATTAAAATGA
31979166 ATTTT AATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT
31979197 TGGATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:31979208 original size:16 final size:16
Alignment explanation
Indices: 31979184--31979231 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
31979174 TTTATTTTAT
31979184 TTTATTTTATTTTTGGA
1 TTTA-TTTATTTTTGGA
*
31979201 TTTATTTATTTTTTGGG
1 TTTATTTA-TTTTTGGA
*
31979218 GTT-TTTATTTTTGG
1 TTTATTTATTTTTGG
31979232 GCTCGATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 7 0.25
16 8 0.29
17 13 0.46
ACGTcount: A:0.12, C:0.00, G:0.17, T:0.71
Consensus pattern (16 bp):
TTTATTTATTTTTGGA
Found at i:31979809 original size:39 final size:39
Alignment explanation
Indices: 31979766--31980204 Score: 231
Period size: 39 Copynumber: 11.3 Consensus size: 39
31979756 GCCCCTATCG
* * * *
31979766 CGGGGTAAGAGATTGGCTGACGGTGATCTGCCCTATGAT
1 CGGGGTAAGAGATTGGATGACGGTGATCTGCCCCAGGCT
* * * * * *
31979805 CGGGGTAAAAGATCGAATG--GTTTCAATCTGTCCCAGGCT
1 CGGGGTAAGAGATTGGATGACG-GT-GATCTGCCCCAGGCT
* * * *
31979844 CGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAGCT
1 CGGGGTAAGAGATTGGATGACGGTGATCTGCCCCAGGCT
* * * * * * * ** ** *
31979883 CGAGGCAAAAGATCGAATGGCTGCAATCTGCCTTAGGGT
1 CGGGGTAAGAGATTGGATGACGGTGATCTGCCCCAGGCT
* *** * *
31979922 CGGGGTAAGAGATTGGCTGATAATGAGCTGCCCCAAGCT
1 CGGGGTAAGAGATTGGATGACGGTGATCTGCCCCAGGCT
* * * * * **
31979961 CGAGGTAAAAGATCGGAT-AGCTGTAATCCACCCCAGGCT
1 CGGGGTAAGAGATTGGATGA-CGGTGATCTGCCCCAGGCT
* * *
31980000 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCT
1 CGGGGTAAGAGATTGGATGACGGTGATCTGCCCCAGGCT
* * * * * * *
31980039 CGGGGTAAAAGATCGAATGGCTGG-AATCTACCTCAGGCT
1 CGGGGTAAGAGATTGGATGAC-GGTGATCTGCCCCAGGCT
* * * * *
31980078 CGGGGTAAGAGATTGGCTGATGGTGATTTGCCCCATGAT
1 CGGGGTAAGAGATTGGATGACGGTGATCTGCCCCAGGCT
* * *
31980117 TGGGGT-AGAAGATCGGATGATGGTGATCTGCCCCAGGCT
1 CGGGGTAAG-AGATTGGATGACGGTGATCTGCCCCAGGCT
* * * * * *
31980156 TGGGGTAAGAGATTAGATGACTGTGATTTGCCCCATGAT
1 CGGGGTAAGAGATTGGATGACGGTGATCTGCCCCAGGCT
31980195 CGGGGTAAGA
1 CGGGGTAAGA
31980205 AATCGAAATC
Statistics
Matches: 280, Mismatches: 110, Indels: 20
0.68 0.27 0.05
Matches are distributed among these distances:
37 1 0.00
38 6 0.02
39 266 0.95
40 6 0.02
41 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (39 bp):
CGGGGTAAGAGATTGGATGACGGTGATCTGCCCCAGGCT
Found at i:31979863 original size:78 final size:77
Alignment explanation
Indices: 31979766--31980211 Score: 446
Period size: 78 Copynumber: 5.7 Consensus size: 77
31979756 GCCCCTATCG
* * *
31979766 CGGGGTAAGAGATTGGCTGACGGTGATCTGCCCTATGATCGGGGTAAAAGATCGAATGGTTTCAA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGATCGGGGTAAAAGATCGAATGGTTT-AA
*
31979831 TCTGTCCCAGGCT
65 TCTGCCCCAGGCT
* * * * **
31979844 CGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAGCTCGAGGCAAAAGATCGAATGGCTGCAA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGATCGGGGTAAAAGATCGAATGG-TTTAA
** *
31979909 TCTGCCTTAGGGT
65 TCTGCCCCAGGCT
** * * * * * *
31979922 CGGGGTAAGAGATTGGCTGATAATGAGCTGCCCCAAGCTCGAGGTAAAAGATCGGATAGCTGTAA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGATCGGGGTAAAAGATCGAAT-GGTTTAA
**
31979987 TCCACCCCAGGCT
65 TCTGCCCCAGGCT
* **
31980000 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGGCTGGAA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGATCGGGGTAAAAGATCGAATGG-TTTAA
* *
31980065 TCTACCTCAGGCT
65 TCTGCCCCAGGCT
* * * * * * * *
31980078 CGGGGTAAGAGATTGGCTGATGGTGATTTGCCCCATGATTGGGGTAGAAGATCGGATGATGGTGA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGATCGGGGTAAAAGATCGAATGGT-TTAA
31980143 TCTGCCCCAGGCT
65 TCTGCCCCAGGCT
* * * * *
31980156 TGGGGTAAGAGATTAGATGACT-GTGATTTGCCCCATGATCGGGGTAAGAA-ATCGAA
1 CGGGGTAAGAGATTGGCTGA-TGGTGATCTGCCCCAAGATCGGGGTAA-AAGATCGAA
31980212 ATCTTCAATC
Statistics
Matches: 310, Mismatches: 52, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
77 2 0.01
78 303 0.98
79 5 0.02
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (77 bp):
CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGATCGGGGTAAAAGATCGAATGGTTTAAT
CTGCCCCAGGCT
Found at i:31980198 original size:156 final size:155
Alignment explanation
Indices: 31979766--31980211 Score: 554
Period size: 156 Copynumber: 2.9 Consensus size: 155
31979756 GCCCCTATCG
* * * * *
31979766 CGGGGTAAGAGATTGGCTGACGGTGATCTGCCCTATGATCGGGGTAAAAGATCGAATGGTTTCAA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGATCGGGGTAAAAGATCGGATGATGT-AA
* * *
31979831 TCTGTCCCAGGCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAGCTCGAGGCAAAAGAT
65 TCTGCCCCAGGCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGAT
* * *
31979896 CGAATGGCTGCAATCTGCCTTAGGGT
130 CGAATGGCTGCAATCTACCTCAGGCT
** * * * * *
31979922 CGGGGTAAGAGATTGGCTGATAATGAGCTGCCCCAAGCTCGAGGTAAAAGATCGGATAGCTGTAA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGATCGGGGTAAAAGATCGGAT-GATGTAA
** *
31979987 TCCACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGAT
65 TCTGCCCCAGGCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGAT
*
31980052 CGAATGGCTGGAATCTACCTCAGGCT
130 CGAATGGCTGCAATCTACCTCAGGCT
* * * *
31980078 CGGGGTAAGAGATTGGCTGATGGTGATTTGCCCCATGATTGGGGTAGAAGATCGGATGATGGTGA
1 CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGATCGGGGTAAAAGATCGGATGAT-GTAA
* * * * *
31980143 TCTGCCCCAGGCTTGGGGTAAGAGATTAGATGACT-GTGATTTGCCCCATGATCGGGGTAAGAA-
65 TCTGCCCCAGGCTCGGGGTAAGAGATTAGCTGA-TGGTGATCTGCCCCAAGCTCGGGGTAA-AAG
31980206 ATCGAA
128 ATCGAA
31980212 ATCTTCAATC
Statistics
Matches: 246, Mismatches: 40, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
155 2 0.01
156 238 0.97
157 6 0.02
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (155 bp):
CGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGATCGGGGTAAAAGATCGGATGATGTAAT
CTGCCCCAGGCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATC
GAATGGCTGCAATCTACCTCAGGCT
Found at i:31981630 original size:6 final size:6
Alignment explanation
Indices: 31981621--31981665 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
31981611 TCGACCTTTC
*
31981621 CTTTTT C-TTTT -TTCTT CTCTTTT CTTTTT CTTTTT CTTTTT -TTTT
1 CTTTTT CTTTTT CTTTTT CT-TTTT CTTTTT CTTTTT CTTTTT CTTTT
31981666 AAATTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
5 11 0.32
6 18 0.53
7 5 0.15
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:31981665 original size:17 final size:16
Alignment explanation
Indices: 31981623--31981665 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
31981613 GACCTTTCCT
31981623 TTTTCTTTTTTCTTCTC
1 TTTT-TTTTTTCTTCTC
* *
31981640 TTTTCTTTTTCTTTTTC
1 TTTTTTTTTTC-TTCTC
31981657 TTTTTTTTT
1 TTTTTTTTT
31981666 AAATTTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTTCTTCTC
Found at i:31986545 original size:57 final size:57
Alignment explanation
Indices: 31986478--31986592 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
31986468 TATGCAGCTT
31986478 ATGAATGCATGTATGCATAAGAAAATGCATTGATTCCATTAGAACAACTTCTCTAGA
1 ATGAATGCATGTATGCATAAGAAAATGCATTGATTCCATTAGAACAACTTCTCTAGA
31986535 ATGAATGCATGTATGCATAAGAAAATGCATTGATTCCATTAGAACAACTTCTCTAGA
1 ATGAATGCATGTATGCATAAGAAAATGCATTGATTCCATTAGAACAACTTCTCTAGA
31986592 A
1 A
31986593 GCCAAATTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (57 bp):
ATGAATGCATGTATGCATAAGAAAATGCATTGATTCCATTAGAACAACTTCTCTAGA
Found at i:31991156 original size:17 final size:17
Alignment explanation
Indices: 31991136--31991169 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31991126 ATCACTCACT
*
31991136 ATTTCAATAGCATTTTC
1 ATTTCAATAACATTTTC
31991153 ATTTCAATAACATTTTC
1 ATTTCAATAACATTTTC
31991170 CATATAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTTCAATAACATTTTC
Found at i:31994133 original size:193 final size:194
Alignment explanation
Indices: 31993783--31994218 Score: 547
Period size: 193 Copynumber: 2.3 Consensus size: 194
31993773 GAAACCGACG
* * *
31993783 CGATGGCTGAGGTACCACATATGTTGCGAGTCCTCGACAGCTCGTGTGAGTAGCATCGTGAGTCG
1 CGATGGTTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAATAGCATCGTGAGTCG
** * * *
31993848 GGAAATGAGAAAAGAATCTAAGAATGGATTACAGGCCCTACGATGGTTGAGATTTATGCATAAGT
66 AAAAAAGAGAAAAGAATCTAAGAATGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAAT
* * * * *
31993913 ACATATTCTCGATAGCTCGTATGAGCAGCATCGTTAAGGAATAGTTATA-TGCATAGATACCGTA
131 ACATATTCTCAATAGCTAGTATGAGCAGCATCGTTAAGGAACAGTT-TACAG-ATAGACACCGTA
*
31993977 T
194 C
* * * *
31993978 CGATGGTTGAGGTACCGCATATGTTGCTAGTCTTCAACAGCTCGTGTGAATAGCATTGTGAGTC-
1 CGATGGTTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAATAGCATCGTGAGTCG
* * * * *
31994042 AAAAAAGATATATGAATCCT-A-AATGGATTATAGGCCCTACGATGGCTGAGATTTATGCTTAAA
66 AAAAAAGAGAAAAGAAT-CTAAGAATGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAA
* * * * *
31994105 TGCATATTCTCAATAGCTAGTGTGAGCAGCATCGTTAGGGGACAGTTTACAGATAGACATCGTAC
130 TACATATTCTCAATAGCTAGTATGAGCAGCATCGTTAAGGAACAGTTTACAGATAGACACCGTAC
* *
31994170 CGATGGTTGGGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGTGA
1 CGATGGTTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGA
31994219 GCAGTATCAG
Statistics
Matches: 206, Mismatches: 33, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
192 56 0.27
193 79 0.38
194 12 0.06
195 59 0.29
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (194 bp):
CGATGGTTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAATAGCATCGTGAGTCG
AAAAAAGAGAAAAGAATCTAAGAATGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAAT
ACATATTCTCAATAGCTAGTATGAGCAGCATCGTTAAGGAACAGTTTACAGATAGACACCGTAC
Found at i:31995983 original size:13 final size:13
Alignment explanation
Indices: 31995965--31996008 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
31995955 TCTTTATTTT
31995965 TTATTATAATATA
1 TTATTATAATATA
31995978 TTATTATAATACTA
1 TTATTATAATA-TA
*
31995992 TTATTTATCATATA
1 TTA-TTATAATATA
31996006 TTA
1 TTA
31996009 ACACTTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 11 0.39
14 10 0.36
15 7 0.25
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTATAATATA
Found at i:31997663 original size:5 final size:5
Alignment explanation
Indices: 31997653--31997684 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
31997643 TCTTCATTCA
31997653 TTCTT TTCTT TTCTT TTC-T TTCTT TTCTT TTC
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTC
31997685 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTCTT
Found at i:31997676 original size:9 final size:9
Alignment explanation
Indices: 31997653--31997682 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
31997643 TCTTCATTCA
31997653 TTCTTTTCTT
1 TTCTTTTC-T
31997663 TTCTTTTCT
1 TTCTTTTCT
31997672 TTCTTTTCT
1 TTCTTTTCT
31997681 TT
1 TT
31997683 TCATAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.60
10 8 0.40
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTCTTTTCT
Found at i:31997676 original size:14 final size:14
Alignment explanation
Indices: 31997657--31997684 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31997647 CATTCATTCT
31997657 TTTCTTTTCTTTTC
1 TTTCTTTTCTTTTC
31997671 TTTCTTTTCTTTTC
1 TTTCTTTTCTTTTC
31997685 ATAAAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTTTCTTTTC
Found at i:31999009 original size:47 final size:47
Alignment explanation
Indices: 31998950--31999126 Score: 167
Period size: 47 Copynumber: 3.8 Consensus size: 47
31998940 AGTCAACAGT
* * * *
31998950 TCATCTGCTCGACCAATGGTTTTTCCACAACGTATTCTAGTCGGCGG
1 TCATCTACTCGACCAGTGGTTTATCCACAACGTATTATAGTCGGCGG
* * * * * *
31998997 TCATCTACTCGACCAGTGATTTTAT-TACAACATATTATAGTTGGTGT
1 TCATCTACTCGACCAGTG-GTTTATCCACAACGTATTATAGTCGGCGG
* * * * * *
31999044 TCATCTGCTCGACCATTGGTTTATCCACAACGTATTTTAGCCAGCAG
1 TCATCTACTCGACCAGTGGTTTATCCACAACGTATTATAGTCGGCGG
* * *
31999091 TCATCTACTCGTCTAGTGGTTCATCCACAACGTATT
1 TCATCTACTCGACCAGTGGTTTATCCACAACGTATT
31999127 TGTAACACCC
Statistics
Matches: 101, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
46 5 0.05
47 92 0.91
48 4 0.04
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (47 bp):
TCATCTACTCGACCAGTGGTTTATCCACAACGTATTATAGTCGGCGG
Found at i:31999121 original size:94 final size:94
Alignment explanation
Indices: 31998948--31999126 Score: 234
Period size: 94 Copynumber: 1.9 Consensus size: 94
31998938 GTAGTCAACA
* * * *
31998948 GTTCATCTGCTCGACCAATGGTTTTTCCACAACGTATTCTAGTCGGCGGTCATCTACTCGACCAG
1 GTTCATCTGCTCGACCAATGGTTTATCCACAACGTATTCTAGCCAGCAGTCATCTACTCGACCAG
* * *
31999013 TGATTTTATTACAACATATTATAGTTGGT
66 TGAGTTCATCACAACATATTATAGTTGGT
* * * *
31999042 GTTCATCTGCTCGACCATTGGTTTATCCACAACGTATTTTAGCCAGCAGTCATCTACTCGTCTAG
1 GTTCATCTGCTCGACCAATGGTTTATCCACAACGTATTCTAGCCAGCAGTCATCTACTCGACCAG
*
31999107 TG-GTTCATCCACAACGTATT
66 TGAGTTCAT-CACAACATATT
31999127 TGTAACACCC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
93 4 0.06
94 68 0.94
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (94 bp):
GTTCATCTGCTCGACCAATGGTTTATCCACAACGTATTCTAGCCAGCAGTCATCTACTCGACCAG
TGAGTTCATCACAACATATTATAGTTGGT
Found at i:32000049 original size:2 final size:2
Alignment explanation
Indices: 32000042--32000091 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
32000032 TTCATCAATT
*
32000042 CA CA CA CA CA GA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
32000084 CA CA CA CA
1 CA CA CA CA
32000092 TATATATTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.48, G:0.02, T:0.00
Consensus pattern (2 bp):
CA
Found at i:32002006 original size:9 final size:9
Alignment explanation
Indices: 32001992--32002033 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
32001982 TTTTGGGGTT
*
32001992 AAAAAATTC
1 AAAAAAATC
32002001 AAAAAATAT-
1 AAAAAA-ATC
32002010 AAAAAAATC
1 AAAAAAATC
32002019 ATAAAAAATC
1 A-AAAAAATC
32002029 AAAAA
1 AAAAA
32002034 GTTGAAGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 2 0.07
9 17 0.59
10 10 0.34
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAAAATC
Found at i:32005561 original size:20 final size:20
Alignment explanation
Indices: 32005536--32005573 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32005526 AATAATTTTC
*
32005536 AAATTTTAAAATATATATAA
1 AAATTTAAAAATATATATAA
*
32005556 AAATTTAAAAATTTATAT
1 AAATTTAAAAATATATAT
32005574 TTATTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATTTAAAAATATATATAA
Found at i:32011394 original size:30 final size:31
Alignment explanation
Indices: 32011321--32011401 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
32011311 AAATGAATAG
*
32011321 TAAGTAGA-TGACTGTTTTGTCACTTTTCGA
1 TAAGTTGAGTGACTGTTTTGTCACTTTTCGA
* *
32011351 TAATTTTAGTGACTGTTTTGTCACATTTTC-A
1 TAAGTTGAGTGACTGTTTTGTCAC-TTTTCGA
*
32011382 -AAGTTGAGTGACTATTTTGT
1 TAAGTTGAGTGACTGTTTTGT
32011402 TAAATTTAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
30 22 0.51
31 16 0.37
32 5 0.12
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (31 bp):
TAAGTTGAGTGACTGTTTTGTCACTTTTCGA
Found at i:32012452 original size:17 final size:17
Alignment explanation
Indices: 32012422--32012470 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
32012412 TATTTCTAAA
32012422 TTTAAATTTAAAATTCAT
1 TTTAAATTT-AAATTCAT
**
32012440 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTCAT
*
32012457 TCTAAATTTAAATT
1 TTTAAATTTAAATT
32012471 TGGTTCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTAAATTTAAATTCAT
Found at i:32013195 original size:3 final size:3
Alignment explanation
Indices: 32013182--32013236 Score: 101
Period size: 3 Copynumber: 18.0 Consensus size: 3
32013172 TGAAACATTC
32013182 ATT ACTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32013228 ATT ATT ATT
1 ATT ATT ATT
32013237 TATTTTCATT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:32014506 original size:30 final size:30
Alignment explanation
Indices: 32014462--32014740 Score: 200
Period size: 29 Copynumber: 9.4 Consensus size: 30
32014452 AACTGTCTAG
* ***
32014462 AAATTGTA-TTTTGACCCCCGAACTTTTGA
1 AAATTCTATTTTTGACCCCCGAACTTCCAA
*** *
32014491 AAATTCTATTTTTGACCCTAAAACTTCTAA
1 AAATTCTATTTTTGACCCCCGAACTTCCAA
* * *
32014521 AAATTATACTTTT-ACCCTCGAACTTCCAA
1 AAATTCTATTTTTGACCCCCGAACTTCCAA
* * * *
32014550 AAATTCCATTTTTTTA-CCCTGAAACTTTCAA
1 AAATTCTA-TTTTTGACCCCCG-AACTTCCAA
32014581 AAATTAC-ATTTTT-ACCCCCGAACTTCCAA
1 AAATT-CTATTTTTGACCCCCGAACTTCCAA
* **
32014610 AAATTCCATTTTTGA-CCTTGAAACTTCCAA
1 AAATTCTATTTTTGACCCCCG-AACTTCCAA
32014640 AAATTAC-ATTTTT-ACCCCCGAACTTCCAA
1 AAATT-CTATTTTTGACCCCCGAACTTCCAA
* * * **
32014669 AAATTCCATTTTTAACCTCAAAACTTCCAA
1 AAATTCTATTTTTGACCCCCGAACTTCCAA
* *
32014699 AAATTAC-A-TTTTCACCCTCGAACTTCCAA
1 AAATT-CTATTTTTGACCCCCGAACTTCCAA
*
32014728 AAATTCCATTTTT
1 AAATTCTATTTTT
32014741 AACCTCGAAA
Statistics
Matches: 203, Mismatches: 31, Indels: 31
0.77 0.12 0.12
Matches are distributed among these distances:
28 3 0.01
29 92 0.45
30 90 0.44
31 17 0.08
32 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.36
Consensus pattern (30 bp):
AAATTCTATTTTTGACCCCCGAACTTCCAA
Found at i:32014525 original size:59 final size:59
Alignment explanation
Indices: 32014447--32014740 Score: 351
Period size: 59 Copynumber: 5.0 Consensus size: 59
32014437 CCATAGAGGT
* ** * *** *
32014447 CCCT-AAACTGTCTAGAAATTGTATTTTGACCCCCGAACTTTTGAAAATTCTATTTTTGA
1 CCCTAAAACT-TCTAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGA
* * * *
32014506 CCCTAAAACTTCTAAAAATTATACTTTTACCCTCGAACTTCCAAAAATTCCATTTTTTTA
1 CCCTAAAACTTCTAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCA-TTTTTGA
*
32014566 CCCTGAAACTT-TCAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGA
1 CCCTAAAACTTCT-AAAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGA
* * *
32014625 CCTTGAAACTTCCAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTT-A
1 CCCTAAAACTTCTAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGA
* * * *
32014683 ACCTCAAAACTTCCAAAAATTACATTTTCACCCTCGAACTTCCAAAAATTCCATTTTT
1 CCCT-AAAACTTCTAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTT
32014741 AACCTCGAAA
Statistics
Matches: 208, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
58 3 0.01
59 148 0.71
60 57 0.27
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.36
Consensus pattern (59 bp):
CCCTAAAACTTCTAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGA
Found at i:32014741 original size:59 final size:58
Alignment explanation
Indices: 32014511--32014890 Score: 378
Period size: 59 Copynumber: 6.4 Consensus size: 58
32014501 TTTGACCCTA
* * *
32014511 AAACTTCTAAAAATTATACTTTTACCCTCGAACTTCCAAAAATTCCATTTTTTTACC-CTG
1 AAACTTCCAAAAATTACA-TTTTACCCTCGAACTTCCAAAAATTCCA-TTTTTAACCTC-G
* * * *
32014571 AAACTTTCAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTTG
1 AAACTTCCAAAAATTACA-TTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCTCG
* *
32014630 AAACTTCCAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTAACCTCA
1 AAACTTCCAAAAATTACA-TTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCTCG
32014689 AAACTTCCAAAAATTACATTTTCACCCTCGAACTTCCAAAAATTCCATTTTTAACCTCG
1 AAACTTCCAAAAATTACATTTT-ACCCTCGAACTTCCAAAAATTCCATTTTTAACCTCG
* * * * ** ** *
32014748 AAACTTTC-AAAATTACCATTTTACTCTCGAA-TACCCAAAATTTTATTTTTTGCCCCG
1 AAACTTCCAAAAATTA-CATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCTCG
* * * * *
32014805 AAACTTTCAAAAATTACCATTTTGACCC-C-AAATGTCCAAAAAACTCCATCTTCAACCTCG
1 AAACTTCCAAAAATTA-CATTTT-ACCCTCGAACT-TCC-AAAAATTCCATTTTTAACCTCG
*
32014865 AAGCCTT-C-AAAATTACCATTTTACCC
1 AA-ACTTCCAAAAATTA-CATTTTACCC
32014891 CGGGTATCCA
Statistics
Matches: 277, Mismatches: 34, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
57 29 0.10
58 39 0.14
59 148 0.53
60 58 0.21
61 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (58 bp):
AAACTTCCAAAAATTACATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCTCG
Found at i:32014753 original size:30 final size:30
Alignment explanation
Indices: 32014511--32014827 Score: 269
Period size: 29 Copynumber: 10.7 Consensus size: 30
32014501 TTTGACCCTA
* ** * *
32014511 AAACTTCTAAAAATTATACTTTTACCCTCG
1 AAACTTCCAAAAATTCCATTTTTAACCTCG
*
32014541 -AACTTCCAAAAATTCCATTTTTTTACC-CTG
1 AAACTTCCAAAAATTCCA-TTTTTAACCTC-G
* * * *
32014571 AAACTTTCAAAAATTACATTTTTACCCCCG
1 AAACTTCCAAAAATTCCATTTTTAACCTCG
* *
32014601 -AACTTCCAAAAATTCCATTTTTGACCTTG
1 AAACTTCCAAAAATTCCATTTTTAACCTCG
* * *
32014630 AAACTTCCAAAAATTACATTTTTACCCCCG
1 AAACTTCCAAAAATTCCATTTTTAACCTCG
*
32014660 -AACTTCCAAAAATTCCATTTTTAACCTCA
1 AAACTTCCAAAAATTCCATTTTTAACCTCG
* * *
32014689 AAACTTCCAAAAATTACATTTTCACCCTCG
1 AAACTTCCAAAAATTCCATTTTTAACCTCG
32014719 -AACTTCCAAAAATTCCATTTTTAACCTCG
1 AAACTTCCAAAAATTCCATTTTTAACCTCG
*
32014748 AAACTTTC-AAAATTACCA-TTTT-ACTCTCG
1 AAACTTCCAAAAATT-CCATTTTTAAC-CTCG
** ** *
32014777 AATAC--CC-AAAATTTTATTTTTTGCCCCG
1 AA-ACTTCCAAAAATTCCATTTTTAACCTCG
*
32014805 AAACTTTCAAAAATTACCATTTT
1 AAACTTCCAAAAATT-CCATTTT
32014828 GACCCCAAAT
Statistics
Matches: 230, Mismatches: 41, Indels: 31
0.76 0.14 0.10
Matches are distributed among these distances:
27 3 0.01
28 18 0.08
29 107 0.47
30 81 0.35
31 21 0.09
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (30 bp):
AAACTTCCAAAAATTCCATTTTTAACCTCG
Found at i:32014915 original size:117 final size:116
Alignment explanation
Indices: 32014560--32014915 Score: 283
Period size: 117 Copynumber: 3.0 Consensus size: 116
32014550 AAATTCCATT
* * * * * * * * **
32014560 TTTTTACCCTGAAACTTTCAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGA
1 TTTTTGCCCCGAAACTTCCAAAAATTACATTTTCACCCTCGAAATTCCAAAAACTCCATCTTCAA
* * * * *
32014625 CCTTGAAA-CTTCCAAAAATTA-CATTTTTACCCCCGAACTTCCAAAAATTCCA-
66 CCTCGAAACCTT-C-AAAATTACCA-TTTTACTCCCGAA-TACCAAAAAGTCTAG
* * * * * * *
32014677 TTTTTAACCTCAAAACTTCCAAAAATTACATTTTCACCCTCGAACTTCCAAAAATTCCATTTTTA
1 TTTTT-GCCCCGAAACTTCCAAAAATTACATTTTCACCCTCGAAATTCCAAAAACTCCATCTTCA
* * * * * *
32014742 ACCTCGAAACTTTCAAAATTACCATTTTACTCTCGAATACCCAAAATTTTAT
65 ACCTCGAAACCTTCAAAATTACCATTTTACTCCCGAATACCAAAAAGTCTAG
* *
32014794 TTTTTGCCCCGAAACTTTCAAAAATTACCATTTTGACCC-C-AAATGTCCAAAAAACTCCATCTT
1 TTTTTGCCCCGAAACTTCCAAAAATTA-CATTTTCACCCTCGAAAT-TCC-AAAAACTCCATCTT
* ** *
32014857 CAACCTCGAAGCCTTCAAAATTACCATTTTAC-CCCGGGTATCCAAAAAGTCTCG
63 CAACCTCGAAACCTTCAAAATTACCATTTTACTCCCGAATA-CCAAAAAGTCTAG
32014911 TTTTT
1 TTTTT
32014916 AATCCCGATT
Statistics
Matches: 197, Mismatches: 34, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
115 3 0.02
116 37 0.19
117 92 0.47
118 63 0.32
119 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (116 bp):
TTTTTGCCCCGAAACTTCCAAAAATTACATTTTCACCCTCGAAATTCCAAAAACTCCATCTTCAA
CCTCGAAACCTTCAAAATTACCATTTTACTCCCGAATACCAAAAAGTCTAG
Found at i:32016713 original size:24 final size:24
Alignment explanation
Indices: 32016680--32016726 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
32016670 TCAGGGTGGT
*
32016680 TAGCTGTTACGAGCCCAGAATGGG
1 TAGCTCTTACGAGCCCAGAATGGG
*
32016704 TAGCTCTTACGAGCCCATAATGG
1 TAGCTCTTACGAGCCCAGAATGG
32016727 TTAACCAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (24 bp):
TAGCTCTTACGAGCCCAGAATGGG
Found at i:32016868 original size:23 final size:23
Alignment explanation
Indices: 32016836--32016880 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
32016826 CTGCTCACAC
*
32016836 AAGCTAATGAGAATTCGCAACAT
1 AAGCTAATGAGAATTCGAAACAT
*
32016859 AAGCTGATGAGAATTCGAAACA
1 AAGCTAATGAGAATTCGAAACA
32016881 CTACGAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (23 bp):
AAGCTAATGAGAATTCGAAACAT
Found at i:32019468 original size:16 final size:17
Alignment explanation
Indices: 32019448--32019486 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
32019438 TATTAAGATT
*
32019448 TTATTTTTATTTTTTAA
1 TTATTTTTATCTTTTAA
32019465 -TA-TTTTATCTTTTAA
1 TTATTTTTATCTTTTAA
32019480 TTATTTT
1 TTATTTT
32019487 AAGATAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
15 12 0.63
16 4 0.21
17 3 0.16
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTTTATCTTTTAA
Found at i:32019469 original size:21 final size:23
Alignment explanation
Indices: 32019435--32019491 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
32019425 ACTTCTAAAT
32019435 TTTTATTAAGATTTTAT-TTTT-A
1 TTTT-TTAAGATTTTATCTTTTAA
*
32019457 TTTTTTAATATTTTATCTTTTAA
1 TTTTTTAAGATTTTATCTTTTAA
32019480 TTATTTTAAGAT
1 TT-TTTTAAGAT
32019492 AACTCGGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 11 0.37
22 8 0.27
23 3 0.10
24 8 0.27
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTTTTAAGATTTTATCTTTTAA
Found at i:32019472 original size:15 final size:16
Alignment explanation
Indices: 32019452--32019487 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
32019442 AAGATTTTAT
*
32019452 TTTTATTTTTTAA-TA
1 TTTTATCTTTTAATTA
32019467 TTTTATCTTTTAATTA
1 TTTTATCTTTTAATTA
32019483 TTTTA
1 TTTTA
32019488 AGATAACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATCTTTTAATTA
Found at i:32025706 original size:20 final size:19
Alignment explanation
Indices: 32025681--32025745 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
32025671 AATTATATTG
*
32025681 TTGTTTTGGTGCTTTTTTTA
1 TTGTTTTGGT-CTCTTTTTA
* *
32025701 TTGTTTTGGT-TGTTTTTG
1 TTGTTTTGGTCTCTTTTTA
**
32025719 TTGTTTTTTTACTCTTTTTA
1 TTGTTTTGGT-CTCTTTTTA
32025739 TTGTTTT
1 TTGTTTT
32025746 TAATGTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
18 14 0.38
20 23 0.62
ACGTcount: A:0.05, C:0.05, G:0.17, T:0.74
Consensus pattern (19 bp):
TTGTTTTGGTCTCTTTTTA
Found at i:32025736 original size:29 final size:30
Alignment explanation
Indices: 32025680--32025746 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
32025670 AAATTATATT
* *
32025680 GTTG-TTTTGGTGCTTTTTTTATTGTTTTG
1 GTTGTTTTTGGTGCTTTTTTTACTCTTTTG
* *
32025709 GTTGTTTTTGTTG-TTTTTTTACTCTTTTT
1 GTTGTTTTTGGTGCTTTTTTTACTCTTTTG
*
32025738 ATTGTTTTT
1 GTTGTTTTT
32025747 AATGTTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.04, C:0.04, G:0.18, T:0.73
Consensus pattern (30 bp):
GTTGTTTTTGGTGCTTTTTTTACTCTTTTG
Found at i:32025769 original size:12 final size:12
Alignment explanation
Indices: 32025749--32025799 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
32025739 TTGTTTTTAA
32025749 TGTTA-TTTTGC
1 TGTTATTTTTGC
32025760 TGTTATTTTTGC
1 TGTTATTTTTGC
* * * *
32025772 TTTTGTTTTGGT
1 TGTTATTTTTGC
*
32025784 TGTTATTTTTGT
1 TGTTATTTTTGC
32025796 TGTT
1 TGTT
32025800 TGGATGTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
11 5 0.16
12 27 0.84
ACGTcount: A:0.06, C:0.04, G:0.20, T:0.71
Consensus pattern (12 bp):
TGTTATTTTTGC
Found at i:32029420 original size:3 final size:3
Alignment explanation
Indices: 32029414--32029463 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
32029404 AATAATATAA
* *
32029414 ATT ATT ATT -TA ATT AGT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32029460 ATT A
1 ATT A
32029464 ACTAATATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 3 0.07
3 38 0.93
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:32032653 original size:43 final size:42
Alignment explanation
Indices: 32032522--32032664 Score: 175
Period size: 41 Copynumber: 3.4 Consensus size: 42
32032512 TTATGCTCTA
* *
32032522 TCGAGTCATAAGTCTTCCTTTA-ACCATATTCTCATTCTCATC
1 TCGAGACATGAGTCTTCCTTTATA-CATATTCTCATTCTCATC
* *
32032564 TCGAGACATGAGTCTTCC-TTATTCATAATCTCATTCTCATC
1 TCGAGACATGAGTCTTCCTTTATACATATTCTCATTCTCATC
* *
32032605 TCGAGACATGAGTCTTCCATTTATACA-ATTTCTCATGCTCAAC
1 TCGAGACATGAGTCTTCC-TTTATACATA-TTCTCATTCTCATC
*
32032648 CCGAGACATGAGTCTTC
1 TCGAGACATGAGTCTTC
32032665 TTTTTTATAC
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
41 38 0.43
42 17 0.19
43 33 0.38
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.36
Consensus pattern (42 bp):
TCGAGACATGAGTCTTCCTTTATACATATTCTCATTCTCATC
Found at i:32033513 original size:22 final size:21
Alignment explanation
Indices: 32033466--32033513 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
32033456 AACTTTCATA
* *
32033466 ATTAACTTAATTAATCATCTT
1 ATTAACTTAATTAACCATATT
* *
32033487 TTTAACCTTAATTAACCCTATT
1 ATTAA-CTTAATTAACCATATT
32033509 ATTAA
1 ATTAA
32033514 TCAATATTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTAACTTAATTAACCATATT
Found at i:32034237 original size:21 final size:19
Alignment explanation
Indices: 32034213--32034262 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 19
32034203 GTTTTTGGTG
32034213 TCGGTAGATGCATGACTTGTA
1 TCGGTAGAT-CAT-ACTTGTA
32034234 TCGGTAGAAATCATACTTGTA
1 TCGGTAG--ATCATACTTGTA
*
32034255 TCGATAGA
1 TCGGTAGA
32034263 GCTAACACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
21 20 0.77
22 3 0.12
23 2 0.08
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (19 bp):
TCGGTAGATCATACTTGTA
Found at i:32034860 original size:17 final size:18
Alignment explanation
Indices: 32034840--32034878 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
32034830 TTATCGTTTG
32034840 TTTATTTTTC-TTATTTA
1 TTTATTTTTCGTTATTTA
*
32034857 TTTA-TTTTCGTTATTTT
1 TTTATTTTTCGTTATTTA
32034874 TTTAT
1 TTTAT
32034879 CTCATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTATTTTTCGTTATTTA
Found at i:32038632 original size:54 final size:55
Alignment explanation
Indices: 32038573--32038726 Score: 161
Period size: 54 Copynumber: 2.7 Consensus size: 55
32038563 AAGAAAAGTT
*
32038573 GGTGTCGACCATGACTTGATAGACACTCAAAAAATATTTTTTTATCT-AAAAAGG-
1 GGTGTCGACCATG-CTTGGTAGACACTCAAAAAATATTTTTTTATCTGAAAAAGGA
* * * *
32038627 GGTGTCGACCATTGGTTGGTA-AGCATTCAAAAAATATTTTTTTTATTTGATAAAGGA
1 GGTGTCGACCA-TGCTTGGTAGA-CACTCAAAAAATA-TTTTTTTATCTGAAAAAGGA
* * *
32038684 GGTGTCGACCATGTCATGGTCGACACCTAAAAAAATATTTTTT
1 GGTGTCGACCATG-CTTGGTAGACA-CTCAAAAAATATTTTTT
32038727 AAATATAAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
53 1 0.01
54 28 0.34
55 12 0.15
56 8 0.10
57 23 0.28
58 10 0.12
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (55 bp):
GGTGTCGACCATGCTTGGTAGACACTCAAAAAATATTTTTTTATCTGAAAAAGGA
Found at i:32039902 original size:21 final size:22
Alignment explanation
Indices: 32039841--32039908 Score: 86
Period size: 24 Copynumber: 3.1 Consensus size: 22
32039831 CGGACGCGGC
* *
32039841 GGCGGTGG-TGGTGGCGGTTAT
1 GGCGGTGGATCGTGGTGGTTAT
32039862 GGCGGTGGATCTGGTGGTGGTTAT
1 GGCGGTGGATC--GTGGTGGTTAT
32039886 GGCGGTGGATC-TGGTGGTTAT
1 GGCGGTGGATCGTGGTGGTTAT
32039907 GG
1 GG
32039909 TGGAGGGGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 20 0.48
22 1 0.02
24 21 0.50
ACGTcount: A:0.07, C:0.09, G:0.53, T:0.31
Consensus pattern (22 bp):
GGCGGTGGATCGTGGTGGTTAT
Found at i:32039903 original size:24 final size:24
Alignment explanation
Indices: 32039849--32039903 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
32039839 GCGGCGGTGG
*
32039849 TGGTGGCGGTTATGGCGGTGGATC
1 TGGTGGTGGTTATGGCGGTGGATC
32039873 TGGTGGTGGTTATGGCGGTGGATC
1 TGGTGGTGGTTATGGCGGTGGATC
32039897 TGGTGGT
1 TGGTGGT
32039904 TATGGTGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.07, C:0.09, G:0.51, T:0.33
Consensus pattern (24 bp):
TGGTGGTGGTTATGGCGGTGGATC
Found at i:32039946 original size:18 final size:18
Alignment explanation
Indices: 32039923--32039965 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
32039913 GGGGGAAGGA
*
32039923 GAGGCGGTTATGGTGGAG
1 GAGGCGGTGATGGTGGAG
* *
32039941 GAGGCGGTGGTGGTGGTG
1 GAGGCGGTGATGGTGGAG
32039959 GAGGCGG
1 GAGGCGG
32039966 AGGCGGCGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.07, G:0.63, T:0.19
Consensus pattern (18 bp):
GAGGCGGTGATGGTGGAG
Found at i:32043260 original size:19 final size:19
Alignment explanation
Indices: 32043236--32043278 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
32043226 AAACATAAAT
32043236 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
32043255 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
32043274 TAAAT
1 TAAAT
32043279 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:32045446 original size:6 final size:6
Alignment explanation
Indices: 32045435--32045462 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
32045425 ACATACATAC
32045435 ATATTT ATATTT ATATTT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATAT
32045463 ATAGTCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:32050787 original size:21 final size:21
Alignment explanation
Indices: 32050761--32050807 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
32050751 ACGCGGCGGC
32050761 GGTGGTGGTGGCGGTTATGGA
1 GGTGGTGGTGGCGGTTATGGA
*
32050782 GGTGGTGGTGGCGGTTATGGC
1 GGTGGTGGTGGCGGTTATGGA
32050803 GGTGG
1 GGTGG
32050808 ATCCGGTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.06, C:0.06, G:0.60, T:0.28
Consensus pattern (21 bp):
GGTGGTGGTGGCGGTTATGGA
Found at i:32050865 original size:15 final size:15
Alignment explanation
Indices: 32050847--32050883 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
32050837 GAGGCGGTTA
32050847 TGGTGGAGGAGGAGG
1 TGGTGGAGGAGGAGG
*
32050862 TGGTGGAGGTGGAGG
1 TGGTGGAGGAGGAGG
*
32050877 CGGTGGA
1 TGGTGGA
32050884 TGTTATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.03, G:0.65, T:0.16
Consensus pattern (15 bp):
TGGTGGAGGAGGAGG
Found at i:32050971 original size:6 final size:6
Alignment explanation
Indices: 32050962--32050996 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
32050952 CAGATATGGT
* *
32050962 GGCGGC GGCGGA GGCGGA GGCGGA GGTGGA GGCGG
1 GGCGGA GGCGGA GGCGGA GGCGGA GGCGGA GGCGG
32050997 CGGTGCTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.11, C:0.17, G:0.69, T:0.03
Consensus pattern (6 bp):
GGCGGA
Found at i:32050996 original size:30 final size:30
Alignment explanation
Indices: 32050935--32050999 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
32050925 TGGGCAGGGT
* * *
32050935 GGCGGTGGAGGCGGAGGCAGATATGGTGGC
1 GGCGGCGGAGGCGGAGGCAGAGATGGAGGC
* *
32050965 GGCGGCGGAGGCGGAGGCGGAGGTGGAGGC
1 GGCGGCGGAGGCGGAGGCAGAGATGGAGGC
32050995 GGCGG
1 GGCGG
32051000 TGCTTGTTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.14, C:0.15, G:0.63, T:0.08
Consensus pattern (30 bp):
GGCGGCGGAGGCGGAGGCAGAGATGGAGGC
Found at i:32051001 original size:12 final size:12
Alignment explanation
Indices: 32050968--32051001 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32050958 TGGTGGCGGC
*
32050968 GGCGGAGGCGGA
1 GGCGGAGGTGGA
32050980 GGCGGAGGTGGA
1 GGCGGAGGTGGA
*
32050992 GGCGGCGGTG
1 GGCGGAGGTG
32051002 CTTGTTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.68, T:0.06
Consensus pattern (12 bp):
GGCGGAGGTGGA
Found at i:32055746 original size:16 final size:17
Alignment explanation
Indices: 32055722--32055756 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
32055712 CCATTTCACA
*
32055722 ATTTTTTTAATTTT-TT
1 ATTTATTTAATTTTGTT
32055738 ATTTATTTAATTTTGTT
1 ATTTATTTAATTTTGTT
32055755 AT
1 AT
32055757 ACTTTAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTAATTTTGTT
Found at i:32062474 original size:17 final size:19
Alignment explanation
Indices: 32062439--32062477 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
32062429 AATTAAAGTT
*
32062439 TTTTTTTCTTAATTTTTGA
1 TTTTTTTCTTAATTGTTGA
32062458 TTTTTTT-TT-ATTGTTGA
1 TTTTTTTCTTAATTGTTGA
32062475 TTT
1 TTT
32062478 ATCGAAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 2 0.11
19 7 0.37
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.77
Consensus pattern (19 bp):
TTTTTTTCTTAATTGTTGA
Found at i:32064815 original size:19 final size:20
Alignment explanation
Indices: 32064774--32064821 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
32064764 ATAATAAAAA
32064774 TAATTGAAATATTTTATAAT
1 TAATTGAAATATTTTATAAT
*
32064794 TAATT-AAAT-TTTTATACTT
1 TAATTGAAATATTTTATA-AT
32064813 TAATTGAAA
1 TAATTGAAA
32064822 AAAATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 7 0.28
19 10 0.40
20 8 0.32
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (20 bp):
TAATTGAAATATTTTATAAT
Found at i:32065952 original size:31 final size:30
Alignment explanation
Indices: 32065879--32065955 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
32065869 TATAATTTGA
*
32065879 TCACTAAACTATTCAAAAGTTTTCATTTAAG
1 TCACTAGACTATT-AAAAGTTTTCATTTAAG
* * *
32065910 TCA-TTGAACTATTAAAGAGTTTTTATTTAAT
1 TCACTAG-ACTATTAAA-AGTTTTCATTTAAG
32065941 TCACTAGACTATTAA
1 TCACTAGACTATTAA
32065956 GTTTTTCTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 4 0.11
31 32 0.84
32 2 0.05
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.42
Consensus pattern (30 bp):
TCACTAGACTATTAAAAGTTTTCATTTAAG
Found at i:32067336 original size:2 final size:2
Alignment explanation
Indices: 32067329--32067358 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32067319 AAAATACCAA
32067329 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
32067359 TATTAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32079106 original size:17 final size:17
Alignment explanation
Indices: 32079084--32079118 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32079074 TCTTATATAT
32079084 TTTACCAAAATTTCTCA
1 TTTACCAAAATTTCTCA
* *
32079101 TTTACCATATTTTCTCA
1 TTTACCAAAATTTCTCA
32079118 T
1 T
32079119 AAACTTTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTACCAAAATTTCTCA
Done.