Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 91
Found at i:1425919 original size:164 final size:162
Alignment explanation
Indices: 1425724--1426337 Score: 671
Period size: 164 Copynumber: 3.7 Consensus size: 162
1425714 TGATAGATAG
* *
1425724 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAG
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* *
1425789 GTCTTTGCTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCCG
66 GTCTTT--TTGGAAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCAG
* * *
1425854 AGTGTAGTCAAACTCGAAGGTTTTTGGCAGATAG
129 AGCGTAGTCAAACTCGAAGGTTTTTGGCAAATAA
* * * *
1425888 CCCTTCTCGACTTATGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTTGAAG
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* * * *
1425953 GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCAT
66 GTCTTT--TTGGAAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCAG
*
1426018 AGCATAGTCAAACTCGAAGGTCTTTTGGAGACAAATAA
129 AGCGTAGTCAAACTCGAAGGT-TTTT-G-G-CAAATAA
* * * * * * * * * *
1426056 CCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCTAACTCGAG
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAA
* ** * *
1426121 GGTC--TTTGGCAGATAGTCCTTCTCGACTTAAGCTATACTGCAAATGATGA-GCCTTGGAGCTG
65 GGTCTTTTTGGAAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT-ATGCCTTGGAGCAG
* * *
1426183 AGCGTAGTTAAACTCAAAGGTCTTTGGTTGGAAAATAA
129 AGCGTAGTCAAACTCGAAGG--TTT--TTGGCAAATAA
* * *
1426221 CGCTTCTCGATTTAAGTTATGCTGCAAAT-ATTGGTGCCTTTGAGCTGAGCGTAGTCGAACTCGA
1 CCCTTCTCGACTTAAGTTATGCTGCAAATGA-T-GTGCCTTGGAGCTGAGCGTAGTCGAACTCGA
* *
1426285 AGGTCCTTTATTGGCAA-ATAACCCTTCTCGACTTAAGCTATGTTGCAACTGAT
64 AGGT-CTTT-TTGG-AAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT
1426338 TTCTAAAAAA
Statistics
Matches: 374, Mismatches: 59, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
164 139 0.37
165 124 0.33
166 9 0.02
167 4 0.01
168 36 0.10
169 61 0.16
170 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (162 bp):
CCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
GTCTTTTTGGAAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCAGAG
CGTAGTCAAACTCGAAGGTTTTTGGCAAATAA
Found at i:1426205 original size:249 final size:248
Alignment explanation
Indices: 1425696--1426337 Score: 785
Period size: 249 Copynumber: 2.6 Consensus size: 248
1425686 AGTGTAATCG
* * *
1425696 AACTCGAAGGTCTTCGGTT-GATAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1 AACTCGAAGGTCTTTGGTTGGA-AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
* * * * *
1425760 CTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGCTTGGA-AGATAACCCTTCTCGACTTAAG
65 CTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-ATTGGACAAATAACCCTTCTAGACTTAAG
* * *
1425824 TTATGCTGCAAATGATATGCCTTGGAGCCGAGTGTAGTCAAACTCGAAGGTTTTTGGCAGATAGC
129 TTATGCTGCAAATGATATGCCTTGAAGCCGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAGC
* * * *
1425889 CCTTCTCGACTTATGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCG
194 CCTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTGGAGCTGAGCATAGTCA
* * *
1425944 AACTTGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCC
1 AACTCGAAGGTCTTTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
* * * * *
1426009 TTAGAGCAT-AGCATAGTCAAACTCGAAGGTCTTT-TGGAGACAAATAACCCTTCTAGCCTTGAG
66 TTAGAGC-TGAGCGTAGTCGAACTCGAAGGTCTTTATTG-GACAAATAACCCTTCTAGACTTAAG
* * * * * *
1426072 TTATGTTGTAAATGATGTGCCCTTGAAGCTGAGTGTAATCTAACTCGAGGGTCTTTGGCAGATAG
129 TTATGCTGCAAATGATATG-CCTTGAAGCCGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAG
* * *
1426137 TCCTTCTCGACTTAAGCTATACTGCAAATGATGA-GCCTTGGAGCTGAGCGTAGTTA
193 CCCTTCTCGACTTAAGCTATACTGCAAATGAT-ATGCCTTGGAGCTGAGCATAGTCA
* * * *
1426193 AACTCAAAGGTCTTTGGTTGGAAAATAACGCTTCTCGATTTAAGTTATGCTGCAAAT-ATTGGTG
1 AACTCGAAGGTCTTTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA-T-GTG
* *
1426257 CCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCCTTTATTGG-CAAATAACCCTTCTCGACTTAA
64 CCTTAGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTTATTGGACAAATAACCCTTCTAGACTTAA
* * *
1426321 GCTATGTTGCAACTGAT
128 GTTATGCTGCAAATGAT
1426338 TTCTAAAAAA
Statistics
Matches: 335, Mismatches: 48, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
246 2 0.01
247 2 0.01
248 120 0.36
249 141 0.42
250 63 0.19
251 5 0.01
252 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (248 bp):
AACTCGAAGGTCTTTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
TTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTATTGGACAAATAACCCTTCTAGACTTAAGTT
ATGCTGCAAATGATATGCCTTGAAGCCGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAGCCC
TTCTCGACTTAAGCTATACTGCAAATGATATGCCTTGGAGCTGAGCATAGTCA
Found at i:1431710 original size:19 final size:18
Alignment explanation
Indices: 1431668--1431721 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
1431658 AAGGGTTAGT
*
1431668 AAAAAAATAGAAAATAAC
1 AAAATAATAGAAAATAAC
1431686 AAAATAATAGTAAAATAA-
1 AAAATAATAG-AAAATAAC
* *
1431704 AATAATAAGAAAAAATAA
1 AA-AATAATAGAAAATAA
1431722 TAATAAAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 18 0.58
19 13 0.42
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAATAATAGAAAATAAC
Found at i:1431716 original size:16 final size:16
Alignment explanation
Indices: 1431686--1431727 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
1431676 AGAAAATAAC
1431686 AAAATAAT-AGTAAAA
1 AAAATAATAAGTAAAA
1431701 TAAAATAATAAG-AAAA
1 -AAAATAATAAGTAAAA
1431717 AATAATAATAA
1 AA-AATAATAA
1431728 AAGGTTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.08
16 20 0.83
17 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AAAATAATAAGTAAAA
Found at i:1433107 original size:36 final size:36
Alignment explanation
Indices: 1433057--1433305 Score: 276
Period size: 37 Copynumber: 6.9 Consensus size: 36
1433047 AAATGATATA
* *
1433057 ATATATTTTCAAAAATATTTTAAAACTATATAGTAT
1 ATATATTTTCAAAAATGTTTTAAAACTATATATTAT
* *
1433093 ATATGTTTTCAAAAATGTTTTAAAATTTATATATTAT
1 ATATATTTTCAAAAATGTTTTAAAA-CTATATATTAT
* * * *
1433130 ATTTATTTT-TAAAATGTTTTAAAAATTATATAATAT
1 ATATATTTTCAAAAATGTTTT-AAAACTATATATTAT
*
1433166 ATATATTTTTAAAAATGTTTTAAAATCTATATATTAT
1 ATATATTTTCAAAAATGTTTTAAAA-CTATATATTAT
* * *
1433203 ATTTATTTTCAAAAA----TAAAAACTATATAATAT
1 ATATATTTTCAAAAATGTTTTAAAACTATATATTAT
*
1433235 ATATATTTTTAAAAATGTTTTAAAAACTATATATTAT
1 ATATATTTTCAAAAATGTTTT-AAAACTATATATTAT
*
1433272 ATTTATTTTC-AAAATGTTTTAAAAAACTATATAT
1 ATATATTTTCAAAAATGTTTT--AAAACTATATAT
1433306 AAAAAAAAGA
Statistics
Matches: 181, Mismatches: 22, Indels: 19
0.82 0.10 0.09
Matches are distributed among these distances:
32 23 0.13
33 5 0.03
36 66 0.36
37 87 0.48
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (36 bp):
ATATATTTTCAAAAATGTTTTAAAACTATATATTAT
Found at i:1433125 original size:69 final size:70
Alignment explanation
Indices: 1433052--1433304 Score: 259
Period size: 69 Copynumber: 3.5 Consensus size: 70
1433042 AAACCAAATG
* * *
1433052 ATATA-ATATATTTTCAAAAATATTTTAAAACTATATAGTATATATGTTTTCAAAAATGTTTTAA
1 ATATATATATATTTTCAAAAATATTTTAAAACTATATAATATATATATTTTTAAAAATGTTTTAA
1433116 AATTT
66 AATTT
* * *
1433121 ATATATTATATTTATTTT-TAAAATGTTTTAAAAATTATATAATATATATATTTTTAAAAATGTT
1 ATATA-TATA--TATTTTCAAAAATATTTT-AAAACTATATAATATATATATTTTTAAAAATGTT
1433185 TTAAAATCTAT
62 TTAAAAT-T-T
*
1433196 ATATTATATTTATTTTCAAAAATA----AAAACTATATAATATATATATTTTTAAAAATGTTTTA
1 ATA-TATATATATTTTCAAAAATATTTTAAAACTATATAATATATATATTTTTAAAAATGTTTT-
*
1433257 AAAACTAT
64 AAAA-TTT
* *
1433265 ATATTATATTTATTTTC-AAAATGTTTTAAAAAACTATATA
1 ATA-TATATATATTTTCAAAAATATTTT--AAAACTATATA
1433305 TAAAAAAAAG
Statistics
Matches: 155, Mismatches: 12, Indels: 29
0.79 0.06 0.15
Matches are distributed among these distances:
68 5 0.03
69 58 0.37
70 4 0.03
71 4 0.03
72 9 0.06
73 49 0.32
74 17 0.11
75 7 0.05
76 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.48
Consensus pattern (70 bp):
ATATATATATATTTTCAAAAATATTTTAAAACTATATAATATATATATTTTTAAAAATGTTTTAA
AATTT
Found at i:1433319 original size:69 final size:71
Alignment explanation
Indices: 1433060--1433306 Score: 285
Period size: 73 Copynumber: 3.5 Consensus size: 71
1433050 TGATATAATA
* * *
1433060 TATTTTCAAAAATATTTT--AAAACTATATAGTATATATGTTTTCAAAAATGTTTTAAAATTTAT
1 TATTTTC-AAAATGTTTTAAAAAACTATATA-TATATAT-ATTT-AAAAATGTTTTAAAATCTAT
1433123 ATATTATATT
62 ATATTATATT
* *
1433133 TATTTTTAAAATGTTTTAAAAATTA-TATAATATATATATTTTTAAAAATGTTTTAAAATCTATA
1 TATTTTCAAAATGTTTTAAAAA--ACTAT-ATATATATATATTTAAAAATGTTTTAAAATCTATA
1433197 TATTATATT
63 TATTATATT
* *
1433206 TATTTTCAAAA----AT-AAAAACTATATAATATATATATTTTTAAAAATGTTTTAAAAACTATA
1 TATTTTCAAAATGTTTTAAAAAACTATAT-ATATATATA--TTTAAAAATGTTTTAAAATCTATA
1433266 TATTATATT
63 TATTATATT
1433275 TATTTTCAAAATGTTTTAAAAAACTATATATA
1 TATTTTCAAAATGTTTTAAAAAACTATATATA
1433307 AAAAAAAGAA
Statistics
Matches: 152, Mismatches: 8, Indels: 28
0.81 0.04 0.15
Matches are distributed among these distances:
66 3 0.02
67 11 0.07
68 4 0.03
69 44 0.29
72 9 0.06
73 49 0.32
74 18 0.12
75 10 0.07
76 4 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (71 bp):
TATTTTCAAAATGTTTTAAAAAACTATATATATATATATTTAAAAATGTTTTAAAATCTATATAT
TATATT
Found at i:1433324 original size:142 final size:143
Alignment explanation
Indices: 1433060--1433324 Score: 338
Period size: 142 Copynumber: 1.8 Consensus size: 143
1433050 TGATATAATA
* * **
1433060 TATTTTCAAAAATATTTTAAAACTATATAGTATATATGTTTTCAAAAATGTTTTAAAATTTATAT
1 TATTTTCAAAAATA---TAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATAT
* * * * *****
1433125 ATTATATTTATTTTTAAAATGTTTTAAAAATTATATAATATATATATTTTTAAAAATGTTTTAAA
63 ATTATATTTATTTTCAAAATGTTTTAAAAACTATATAATATAAAAAAAGAAAAAAATGTTTTAAA
1433190 ATCTATATATTATATT
128 ATCTATATATTATATT
*
1433206 TATTTTCAAAAATA-AAAACTATATAATATATATATTTTTAAAAATGTTTTAAAAACTATATATT
1 TATTTTCAAAAATATAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATATT
1433270 ATATTTATTTTCAAAATGTTTTAAAAAACTATAT-ATA-AAAAAAAGAAAATAAATG
66 ATATTTATTTTCAAAATGTTTT-AAAAACTATATAATATAAAAAAAGAAAA-AAATG
1433325 GACGAAAATG
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
141 5 0.05
142 74 0.72
143 10 0.10
146 14 0.14
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (143 bp):
TATTTTCAAAAATATAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATATT
ATATTTATTTTCAAAATGTTTTAAAAACTATATAATATAAAAAAAGAAAAAAATGTTTTAAAATC
TATATATTATATT
Found at i:1433998 original size:84 final size:84
Alignment explanation
Indices: 1433856--1434555 Score: 629
Period size: 84 Copynumber: 8.4 Consensus size: 84
1433846 CGACCAATTT
* * * * * * * * *
1433856 GTTGACAAATAACTCTTCTTGCCTTAAGCTATTCTGTAAATTTGGTTTGCCTCT-GAGCTGAGTG
1 GTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAA--TGATGTGCCT-TGGAGCTGAGCG
* * *
1433920 TAATCGAACTTGAAGGTCTTCG
63 TAGTCGAACTCGAAGGTCTTTG
* * * *
1433942 GTTGATAGATATCCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAG
1 GTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
1434007 TCGAACTCGAAGGTCTTTG
66 TCGAACTCGAAGGTCTTTG
* * * * * *
1434026 GTTGGA-AGATAACCCTTCTCGACGTAAGTTATGCTGTAAATGATATGCCTTTGAGCTGAGTGTA
1 GTT-GACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
* * *
1434090 GTCAAACTCGAGGGTTTTTG
65 GTCGAACTCGAAGGTCTTTG
* * * *
1434110 G-T---AGATAGCCCTTCTC-ATCTTAAGCTATGCTGCAAATGATATACCTTGGAGCTGAGCATA
1 GTTGACAGATAACCCTTCTCGA-CTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
*
1434170 GTCGAACTTGAAGGTCTTTG
65 GTCGAACTCGAAGGTCTTTG
* * * *
1434190 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAG
1 GTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
1434255 TCGAACTCGAAGGTCTTTTG
66 TCGAACTCGAAGGTC-TTTG
* * * * * * * * * *
1434275 G-AGACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTTGAAGCTGAGTGTA
1 GTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTA
* * **
1434339 ATCTAACTCGGGGGTCTTT-
65 GTCGAACTCGAAGGTCTTTG
* * *
1434358 G--G-CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGAGCCTTGGAGCTGAGCGTAG
1 GTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
** *
1434420 TTAAACTCAAAGGTCTTTG
66 TCGAACTCGAAGGTCTTTG
* * * * *
1434439 GTTGGA-AAATAACGCTTCTCGATTTAAGTTATGCTGCAAAT-ATTGGTGCCTTTGAGCTGAGCG
1 GTT-GACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGA-T-GTGCCTTGGAGCTGAGCG
1434502 TAGTCGAACTCGAAGGTCCTTT-
63 TAGTCGAACTCGAAGGT-CTTTG
* * * *
1434524 ATTGGCAAATAGCCCTTCTCGACTTAAGCTAT
1 GTTGACAGATAACCCTTCTCGACTTAAGCTAT
1434556 ATTGCAACTG
Statistics
Matches: 504, Mismatches: 91, Indels: 39
0.79 0.14 0.06
Matches are distributed among these distances:
79 1 0.00
80 93 0.18
81 34 0.07
82 1 0.00
83 4 0.01
84 246 0.49
85 88 0.17
86 37 0.07
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (84 bp):
GTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
TCGAACTCGAAGGTCTTTG
Found at i:1434140 original size:164 final size:163
Alignment explanation
Indices: 1433947--1434551 Score: 591
Period size: 164 Copynumber: 3.7 Consensus size: 163
1433937 CTTCGGTTGA
* * *
1433947 TAGATATCCCTTCTTGA-CTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGA
1 TAGATAACCCTTC-TCATCTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
* *
1434011 ACTCGAAGGTCTTTGGTTGGAAGATAACCCTTCTCGACGTAAGTTATGCTGTAAATGATATGCCT
65 ACTCGAAGGTCTTT-GTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCT
* *
1434076 TTGAGCTGAGTGTAGTCAAACTCGAGGGTTTTTGG
129 TAGAGCTGAGCGTAGTCAAACTCGAGGGTTTTTGG
* * * *
1434111 TAGATAGCCCTTCTCATCTTAAGCTATGCTGCAAATGATATACCTTGGAGCTGAGCATAGTCGAA
1 TAGATAACCCTTCTCATCTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
1434176 CTTGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
66 CTCGAAGGTCTTT-GTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
* *
1434241 AGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
130 AGAGCTGAGCGTAGTCAAACTCGAGGGT-TTTTGG
* * * * * * *
1434276 -AGACAAATAACCCTTCT-AGCCTTGAGTTATGTTGTAAATGATGTGCCCTTGAAGCTGAGTGTA
1 TAG----ATAACCCTTCTCA-TCTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTA
* * ** * * * *
1434339 ATCTAACTCGGGGGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGA
60 GTCGAACTCGAAGGTCTTTGTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT-A
* * * *
1434401 -GCCTTGGAGCTGAGCGTAGTTAAACTCAAAGGTCTTTGGTTGG
124 TGCCTTAGAGCTGAGCGTAGTCAAACTC-GAGG-GTTT--TTGG
* * * * *
1434444 AAAATAACGCTTCTCGAT-TTAAGTTATGCTGCAAAT-ATTGGTGCCTTTGAGCTGAGCGTAGTC
1 TAGATAACCCTTCTC-ATCTTAAGCTATGCTGCAAATGA-T-GTGCCTTGGAGCTGAGCGTAGTC
* *
1434507 GAACTCGAAGGTCCTTTATTGGCAA-ATAGCCCTTCTCGACTTAAG
63 GAACTCGAAGGT-CTTTGTTGG-AAGATAACCCTTCTCGACTTAAG
1434552 CTATATTGCA
Statistics
Matches: 365, Mismatches: 53, Indels: 41
0.80 0.12 0.09
Matches are distributed among these distances:
163 2 0.01
164 144 0.39
165 121 0.33
166 9 0.02
167 4 0.01
168 34 0.09
169 50 0.14
170 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (163 bp):
TAGATAACCCTTCTCATCTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTA
GAGCTGAGCGTAGTCAAACTCGAGGGTTTTTGG
Found at i:1434459 original size:249 final size:247
Alignment explanation
Indices: 1433932--1434519 Score: 754
Period size: 249 Copynumber: 2.4 Consensus size: 247
1433922 ATCGAACTTG
* * * * * *
1433932 AAGGTCTTCGGTT-GATAGATATCCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGA
1 AAGGTCTTTGGTTGGA-AAATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTAGA
* * * *
1433996 GCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGAAGATAACCCTTCTCGACGTAAGTTATGCT
65 GCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TAGAAAATAACCCTTCTAGACGTAAGTTATGCT
* * * *
1434061 GTAAATGATATGCCTTTGAGCTGAGTGTAGTCAAACTCGAGGGTTTTTGGTAGATAGCCCTTCTC
129 GTAAATGATATGCCCTTGAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTC
* * **
1434126 ATCTTAAGCTATGCTGCAAATGATATACCTTGGAGCTGAGCATAGTCGAACTTG
194 ATCTTAAGCTATACTGCAAATGATATACCTTGGAGCTGAGCATAGTCAAACTCA
* * *
1434180 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAG
1 AAGGTCTTTGGTTGGAAAATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTAGAG
* * * *
1434245 CTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-AGACAAATAACCCTTCTAGCCTTGAGTTATGTT
66 CTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTAGA-AAATAACCCTTCTAGACGTAAGTTATGCT
* * *
1434309 GTAAATGATGTGCCCTTGAAGCTGAGTGTAATCTAACTCGGGGGTCTTTGGCAGATAGCCCTTCT
129 GTAAATGATATGCCCTTG-AGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCT
* * *
1434374 CGA-CTTAAGCTATACTGCAAATGATGA-GCCTTGGAGCTGAGCGTAGTTAAACTCA
193 C-ATCTTAAGCTATACTGCAAATGAT-ATACCTTGGAGCTGAGCATAGTCAAACTCA
* * *
1434429 AAGGTCTTTGGTTGGAAAATAACGCTTCTCGATTTAAGTTATGCTGCAAAT-ATTGGTGCCTTTG
1 AAGGTCTTTGGTTGGAAAATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA-T-GTGCCTTAG
1434493 AGCTGAGCGTAGTCGAACTCGAAGGTC
64 AGCTGAGCGTAGTCGAACTCGAAGGTC
1434520 CTTTATTGGC
Statistics
Matches: 297, Mismatches: 35, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
247 2 0.01
248 120 0.40
249 139 0.47
250 36 0.12
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (247 bp):
AAGGTCTTTGGTTGGAAAATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTAGAG
CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTAGAAAATAACCCTTCTAGACGTAAGTTATGCTGT
AAATGATATGCCCTTGAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCAT
CTTAAGCTATACTGCAAATGATATACCTTGGAGCTGAGCATAGTCAAACTCA
Found at i:1438604 original size:36 final size:37
Alignment explanation
Indices: 1438554--1438805 Score: 316
Period size: 36 Copynumber: 6.9 Consensus size: 37
1438544 ATATGATATA
* *
1438554 ATATATTTTCAAAAATATTTT-AAAACTATATAGTAT
1 ATATATTTTCAAAAATGTTTTAAAAACTATATATTAT
* * **
1438590 ATATGTTTTCAAAAATGTTTTAATATTTATATATTAT
1 ATATATTTTCAAAAATGTTTTAAAAACTATATATTAT
* * * *
1438627 ATTTATTTT-TAAAATGTTTTAAAAATTATATAATAT
1 ATATATTTTCAAAAATGTTTTAAAAACTATATATTAT
* *
1438663 ATATATTTTTAAAAATATTTT-AAAA-TATATATTAT
1 ATATATTTTCAAAAATGTTTTAAAAACTATATATTAT
* *
1438698 ATTTATTTTCAAAAAT-TTTTAAAAACTATATAATAT
1 ATATATTTTCAAAAATGTTTTAAAAACTATATATTAT
*
1438734 ATATATTTTTAAAAATGTTTTAAAAACTATATATTAT
1 ATATATTTTCAAAAATGTTTTAAAAACTATATATTAT
*
1438771 ATTTATTTTCAAAAATGTTTTAAAAAACTATATAT
1 ATATATTTTCAAAAATGTTTT-AAAAACTATATAT
1438806 AAAAAAAAGA
Statistics
Matches: 186, Mismatches: 24, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
34 4 0.02
35 27 0.15
36 77 0.41
37 65 0.35
38 13 0.07
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (37 bp):
ATATATTTTCAAAAATGTTTTAAAAACTATATATTAT
Found at i:1438689 original size:10 final size:11
Alignment explanation
Indices: 1438669--1438796 Score: 53
Period size: 11 Copynumber: 10.8 Consensus size: 11
1438659 ATATATATAT
1438669 TTTTAAAAATA
1 TTTTAAAAATA
1438680 TTTTAAAATATA
1 TTTTAAAA-ATA
* * **
1438692 TATTATATTTA
1 TTTTAAAAATA
1438703 TTTTCAAAAAT-
1 TTTT-AAAAATA
1438714 TTTTAAAAACTA
1 TTTTAAAAA-TA
*
1438726 -TATAATATATATA
1 TTTTAA-A-A-ATA
*
1438739 TTTTTAAAAATG
1 -TTTTAAAAATA
1438751 TTTTAAAAACTA
1 TTTTAAAAA-TA
* **
1438763 TATATTATATTTA
1 T-T-TTAAAAATA
*
1438776 TTTTCAAAAATG
1 TTTT-AAAAATA
1438788 TTTTAAAAA
1 TTTTAAAAA
1438797 ACTATATATA
Statistics
Matches: 85, Mismatches: 19, Indels: 26
0.65 0.15 0.20
Matches are distributed among these distances:
10 5 0.06
11 38 0.45
12 24 0.28
13 8 0.09
14 6 0.07
15 4 0.05
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:1438705 original size:71 final size:72
Alignment explanation
Indices: 1438557--1438804 Score: 358
Period size: 73 Copynumber: 3.4 Consensus size: 72
1438547 TGATATAATA
* * * * *
1438557 TATTTTCAAAAATATTTT-AAAACTATATAGTATATATGTTTTCAAAAATGTTTTAATATTTATA
1 TATTTTCAAAAATGTTTTAAAAACTATATAATATATATATTTTTAAAAATGTTTTAA-A-ATATA
1438621 TATTATATT
64 TATTATATT
* * *
1438630 TATTTT-TAAAATGTTTTAAAAATTATATAATATATATATTTTTAAAAATATTTTAAAATATATA
1 TATTTTCAAAAATGTTTTAAAAACTATATAATATATATATTTTTAAAAATGTTTTAAAATATATA
1438694 TTATATT
66 TTATATT
1438701 TATTTTCAAAAAT-TTTTAAAAACTATATAATATATATATTTTTAAAAATGTTTTAAAAACTATA
1 TATTTTCAAAAATGTTTTAAAAACTATATAATATATATATTTTTAAAAATGTTTT-AAAA-TATA
1438765 TATTATATT
64 TATTATATT
1438774 TATTTTCAAAAATGTTTTAAAAAACTATATA
1 TATTTTCAAAAATGTTTT-AAAAACTATATA
1438805 TAAAAAAAAG
Statistics
Matches: 158, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
71 58 0.37
72 19 0.12
73 65 0.41
74 4 0.03
75 12 0.08
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (72 bp):
TATTTTCAAAAATGTTTTAAAAACTATATAATATATATATTTTTAAAAATGTTTTAAAATATATA
TTATATT
Found at i:1443298 original size:14 final size:14
Alignment explanation
Indices: 1443281--1443320 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1443271 AACGAACATA
*
1443281 AACGAACACGAACG
1 AACGAACACAAACG
*
1443295 AACGAACATAAACG
1 AACGAACACAAACG
1443309 AAC-AACACAAAC
1 AACGAACACAAAC
1443321 ACACAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.57, C:0.28, G:0.12, T:0.03
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:1443630 original size:16 final size:14
Alignment explanation
Indices: 1443576--1443631 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
1443566 GCCCTCTGTT
1443576 CGAACATAAATGAA
1 CGAACATAAATGAA
1443590 CGAAC--AAA--AA
1 CGAACATAAATGAA
*
1443600 TGAACATAAATGAA
1 CGAACATAAATGAA
1443614 CGAACATATAATCGAA
1 CGAACATA-AAT-GAA
1443630 CG
1 CG
1443632 TTCACGAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
10 6 0.18
12 6 0.18
14 14 0.41
15 3 0.09
16 5 0.15
ACGTcount: A:0.55, C:0.16, G:0.14, T:0.14
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:1456699 original size:249 final size:251
Alignment explanation
Indices: 1456317--1456777 Score: 637
Period size: 249 Copynumber: 1.8 Consensus size: 251
1456307 ACACTAAGTA
* * * * *
1456317 GTGTATTTGAGCATTTTAGGGTTTCATACTTGATTCATTCATAAATGATGGATTTGATGTAAAGC
1 GTGTATTTAAGCATTTTAGGGTTTCATACTTGATTCATCCATAAATGACGAATTTGATGTAAAAC
*
1456382 ATATGTTTTAATTATACTGTATGACCCTAAGTAACCTTCTAAAGCTTTATATCATGATTAGAAAC
66 ATATGTTTTAATTACAC--T-T-ACCCTAAGTAACCTTCTAAAGCTTTATATCATGATTAGAAAC
* * * *
1456447 CAAACTAAGACATTT-AGGATGATTTTTGGATA-TTTTTGAGCTTAAATAAGATAATTCTATGTT
127 CAAAATAAGACATTTGA-GATAATTTTTGGATATTTTTTGAGCTTAAATAAGATAATTATAGGTT
* *
1456510 CGAGTATCGATACTGGATTCTAAGCAAGGAGCTTCATAAGCATGAAGAATTGCTAATATTT
191 CGAATATCAATACTGGATTCTAAGCAAGGAGCTTCATAAGCATGAAGAATTGCTAATATTT
* *
1456571 GTGTATTTAAGCATTTTAGGGTTTTATACTTGATTCATGCCATAGATGACGAATTTGATGTAAAA
1 GTGTATTTAAGCATTTTAGGGTTTCATACTTGATTCAT-CCATAAATGACGAATTTGATGTAAAA
* * *
1456636 CATAT-TATTTTATTACAC-T-CCCTAATTAACCTTCTAAAGCTTTATCA-CATGATTAGGAACC
65 CATATGT-TTTAATTACACTTACCCTAAGTAACCTTCTAAAGCTTTAT-ATCATGATTAGAAACC
* *
1456697 AAAATAAGACATTTGAGATAATTTTTGGATATTTTTTGAGTTTAAATAAGATAATTATAGGTTTG
128 AAAATAAGACATTTGAGATAATTTTTGGATATTTTTTGAGCTTAAATAAGATAATTATAGGTTCG
1456762 AATATCAATACTGGAT
193 AATATCAATACTGGAT
1456778 AAACTAGGAT
Statistics
Matches: 183, Mismatches: 19, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
249 65 0.36
250 45 0.25
251 1 0.01
254 37 0.20
255 35 0.19
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (251 bp):
GTGTATTTAAGCATTTTAGGGTTTCATACTTGATTCATCCATAAATGACGAATTTGATGTAAAAC
ATATGTTTTAATTACACTTACCCTAAGTAACCTTCTAAAGCTTTATATCATGATTAGAAACCAAA
ATAAGACATTTGAGATAATTTTTGGATATTTTTTGAGCTTAAATAAGATAATTATAGGTTCGAAT
ATCAATACTGGATTCTAAGCAAGGAGCTTCATAAGCATGAAGAATTGCTAATATTT
Found at i:1465963 original size:24 final size:23
Alignment explanation
Indices: 1465922--1465967 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
1465912 ATTCGTATTT
*
1465922 TTTATTAATTTAATATTATATATA
1 TTTATTAATTTAAAATTA-ATATA
1465946 TTTATTAA-TTACAAATTAATAT
1 TTTATTAATTTA-AAATTAATAT
1465968 TTCTTTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTATTAATTTAAAATTAATATA
Found at i:1466517 original size:29 final size:30
Alignment explanation
Indices: 1466461--1466527 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
1466451 TTTATGTTTT
* *
1466461 ATATTTTTAGTTTAATAATTTTTATATTCC
1 ATATATTTAGTTTAATAATTTTTATATTCA
* *
1466491 ATATATTTA-TTTAAT-ATTTTATTTATTTA
1 ATATATTTAGTTTAATAATTTT-TATATTCA
1466520 ATATATTT
1 ATATATTT
1466528 TTATATCTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.16
29 19 0.59
30 8 0.25
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (30 bp):
ATATATTTAGTTTAATAATTTTTATATTCA
Found at i:1471257 original size:22 final size:22
Alignment explanation
Indices: 1471230--1471275 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
1471220 ATATTATTTG
1471230 AATTATTTACGTTTATATGTAA
1 AATTATTTACGTTTATATGTAA
*
1471252 AATTATTTACGTTTATGTGTAA
1 AATTATTTACGTTTATATGTAA
1471274 AA
1 AA
1471276 ATTTTATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
AATTATTTACGTTTATATGTAA
Found at i:1476883 original size:21 final size:21
Alignment explanation
Indices: 1476857--1476919 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 21
1476847 AACTGCAAAA
*
1476857 AAAATAATTAAATGAAATATT
1 AAAATAATTAAATAAAATATT
1476878 AAAATAATTAAATAAAATACTAAT
1 AAAATAATTAAATAAAATA-T--T
*
1476902 AAAAT-ATAAAATAAAATA
1 AAAATAATTAAATAAAATA
1476920 AAATATACCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.49
22 1 0.03
23 12 0.32
24 6 0.16
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATAATTAAATAAAATATT
Found at i:1476921 original size:17 final size:18
Alignment explanation
Indices: 1476889--1476926 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
1476879 AAATAATTAA
*
1476889 ATAAAATACTAATAAAAT
1 ATAAAATACAAATAAAAT
1476907 ATAAAATA-AAATAAAAT
1 ATAAAATACAAATAAAAT
1476924 ATA
1 ATA
1476927 CCTTAAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAATACAAATAAAAT
Found at i:1480223 original size:28 final size:28
Alignment explanation
Indices: 1480182--1480237 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
1480172 ATCAGTAATA
* *
1480182 ACCCTGCCCGGGATAAAACTAGTTTAAC
1 ACCCTACCCAGGATAAAACTAGTTTAAC
1480210 ACCCTACCCAGGATAAAACTAGTTTAAC
1 ACCCTACCCAGGATAAAACTAGTTTAAC
1480238 TGTTGGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (28 bp):
ACCCTACCCAGGATAAAACTAGTTTAAC
Found at i:1483884 original size:17 final size:18
Alignment explanation
Indices: 1483849--1483905 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
1483839 ATTGAGATAG
1483849 TTTAATTATAATATTTAT
1 TTTAATTATAATATTTAT
1483867 TTTATATTAT-AT-TTTAT
1 TTTA-ATTATAATATTTAT
* *
1483884 TAATTAATTTTAATATGTAT
1 T--TTAATTATAATATTTAT
1483904 TT
1 TT
1483906 ATATGATTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
17 6 0.19
18 11 0.34
19 10 0.31
20 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTAATTATAATATTTAT
Found at i:1484278 original size:15 final size:16
Alignment explanation
Indices: 1484258--1484289 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1484248 GATATTTTTA
1484258 AATTA-TTTTTTTATT
1 AATTATTTTTTTTATT
1484273 AATTATTTTTTTTATT
1 AATTATTTTTTTTATT
1484289 A
1 A
1484290 TTTTTTGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
AATTATTTTTTTTATT
Found at i:1489850 original size:15 final size:17
Alignment explanation
Indices: 1489821--1489855 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1489811 GAATTTGAAG
1489821 ATTTGAAATGAAAAT-A
1 ATTTGAAATGAAAATGA
1489837 ATTTGAAA-GAAAATGA
1 ATTTGAAATGAAAATGA
1489853 ATT
1 ATT
1489856 AAAGGAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.31
Consensus pattern (17 bp):
ATTTGAAATGAAAATGA
Found at i:1490332 original size:21 final size:22
Alignment explanation
Indices: 1490308--1490349 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1490298 AGGCTAGAAA
1490308 TTTTTTCAGAAAATTAAGGAAT
1 TTTTTTCAGAAAATTAAGGAAT
**
1490330 TTTTTTTGGAAAATTAAGGA
1 TTTTTTCAGAAAATTAAGGA
1490350 CATGATGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
TTTTTTCAGAAAATTAAGGAAT
Found at i:1493457 original size:26 final size:25
Alignment explanation
Indices: 1493410--1493459 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1493400 ACACTTTTAA
* * *
1493410 ACATCATTTTTAAAAGTTCTTTTCT
1 ACATCAATTTTAAAAATACTTTTCT
1493435 ACATCAATTTTAAAAATAACTTTTC
1 ACATCAATTTTAAAAAT-ACTTTTC
1493460 AAAAGCATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.46
Consensus pattern (25 bp):
ACATCAATTTTAAAAATACTTTTCT
Found at i:1494329 original size:2 final size:2
Alignment explanation
Indices: 1494316--1494349 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1494306 TTATTATTTA
* *
1494316 AT AT AT AC AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1494350 TACAAAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:1494331 original size:10 final size:10
Alignment explanation
Indices: 1494316--1494353 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
1494306 TTATTATTTA
1494316 ATATATACAT
1 ATATATACAT
*
1494326 ATATATATAT
1 ATATATACAT
*
1494336 ATATATAAAT
1 ATATATACAT
1494346 ATAT-TACA
1 ATATATACA
1494354 AAAAAGGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 3 0.12
10 22 0.88
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATATACAT
Found at i:1498065 original size:17 final size:16
Alignment explanation
Indices: 1498036--1498077 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
1498026 ATCGTAGATC
1498036 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
1498053 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
1498068 AATTATTTTA
1 AATTATTTTA
1498078 AAATATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:1511049 original size:67 final size:67
Alignment explanation
Indices: 1510976--1511568 Score: 229
Period size: 56 Copynumber: 9.6 Consensus size: 67
1510966 AAGCTTCAAA
*
1510976 TTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATTTTTTACTTCCTCGTAAAGACGAACCGAT
1 TTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATTTTTTACTTCCTCGTAAAGACGAACCAAT
1511041 CT
66 CT
* * * * ***
1511043 TTGACTTCCTCGTGAAGAGAAGTTAA------TT-TTTGTTA-TT-C-C-TAAAGAGGAGTTAAT
1 TTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATTTTTTACTTCCTCGTAAAGACGAACCAAT
*
1511097 CA
66 CT
** * * *
1511099 TTGACTTCAACATGAAGAGAAGTCAGTCCTTGTTATTTTTTACTTCCTCGTGAAGATGAACCAAT
1 TTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATTTTTTACTTCCTCGTAAAGACGAACCAAT
1511164 CT
66 CT
* * ** *
1511166 TGGACTTCCTCGTGAAGAGAAGTCAA----T-TT-TTGCTT--TT-C-C-TAAAGTA-GAGCCAA
1 TTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATTTTTTACTTCCTCGTAAAG-ACGAACCAA
*
1511219 TCA
65 TCT
* ** * *** * * * * *
1511222 TTGACATCCTTGTGAAGAGAAGTCAATCTTTGTTATACCTGAC-TCCTCATGAAGAGGAATCAAT
1 TTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATTTTTTACTTCCTCGTAAAGACGAACCAAT
1511286 CT
66 CT
* * * * * **
1511288 TTTATTTCCTCGTGAAGAGAAGTCAAT-CTTG--A----CTA-TT-C-C-TAAAGAAGATTCAAT
1 TTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATTTTTTACTTCCTCGTAAAGACGAACCAAT
*
1511342 CC
66 CT
** * * ** ** *
1511344 TTGACTTCCTTGTGAAGAGAATTCAATCTTTGTTATTCCTGGC-TCCTCGTAAAGATGAACCAAT
1 TTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATTTTTTACTTCCTCGTAAAGACGAACCAAT
1511408 CT
66 CT
* * * ***
1511410 TTGACTTCCTCGTGAAGAGAAGTCAA--C----T-TTTTATA-TT-C-C-TAAAGAAGTGTCAAT
1 TTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATTTTTTACTTCCTCGTAAAGACGAACCAAT
*
1511464 CC
66 CT
** * * * * ** * * *
1511466 TTGACTTCCTTGTGAAGAGAACTCAATCTTTTTTGTTCCTGA-TTCCTCGTGAAGAGGAACCAAT
1 TTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATTTTTTACTTCCTCGTAAAGACGAACCAAT
1511530 CT
66 CT
*
1511532 TTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATT
1 TTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATT
1511569 CCTAAAGAAG
Statistics
Matches: 384, Mismatches: 95, Indels: 95
0.67 0.17 0.17
Matches are distributed among these distances:
56 139 0.36
57 8 0.02
58 4 0.01
59 10 0.03
60 8 0.02
61 8 0.02
62 8 0.02
63 15 0.04
64 5 0.01
65 8 0.02
66 115 0.30
67 56 0.15
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (67 bp):
TTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATTTTTTACTTCCTCGTAAAGACGAACCAAT
CT
Found at i:1511103 original size:56 final size:56
Alignment explanation
Indices: 1511043--1511757 Score: 346
Period size: 56 Copynumber: 11.9 Consensus size: 56
1511033 GAACCGATCT
* * *
1511043 TTGACTTCCTCGTGAAGAGAAGTTAATTTTTGTTATTCCTAAAGAGGAGTTAATCA
1 TTGACTTCCTCGTGAAGAGAAGTCAATTTTTGTTATTCCTAAAGAGGAATCAATCA
** * * * * * *
1511099 TTGACTTCAACATGAAGAGAAGTCAGTCCTTGTTATTTTTTACTTCCTCGTGAAGATGAACCAAT
1 TTGACTTCCTCGTGAAGAGAAGTCA------ATT-TTTGTTA-TT-C-C-TAAAGAGGAATCAAT
1511164 C-
55 CA
**
1511165 TTGGACTTCCTCGTGAAGAGAAGTCAATTTTTGCTT-TTCCTAAAGTA-GAGCCAATCA
1 TT-GACTTCCTCGTGAAGAGAAGTCAATTTTTG-TTATTCCTAAAG-AGGAATCAATCA
* * *
1511222 TTGACATCCTTGTGAAGAGAAGTCAATCTTTGTTATACCTGACTCCTCATGAAGAGGAATCAATC
1 TTGACTTCCTCGTGAAGAGAAGTCAATTTTTG-T-TA--T---TCCT-A--AAGAGGAATCAATC
*
1511287 T
56 A
* * * * * * *
1511288 TTTATTTCCTCGTGAAGAGAAGTCAA-TCTTGACTATTCCTAAAGAAGATTCAATCC
1 TTGACTTCCTCGTGAAGAGAAGTCAATTTTTG-TTATTCCTAAAGAGGAATCAATCA
* * * * *
1511344 TTGACTTCCTTGTGAAGAGAATTCAATCTTTGTTATTCCTGGCTCCTCGTAAAGATGAACCAATC
1 TTGACTTCCTCGTGAAGAGAAGTCAATTTTTGTTA----T---T-C-C-TAAAGAGGAATCAATC
*
1511409 T
56 A
* * ** *
1511410 TTGACTTCCTCGTGAAGAGAAGTCAACTTTTT-ATATTCCTAAAGAAGTGTCAATCC
1 TTGACTTCCTCGTGAAGAGAAGTCAA-TTTTTGTTATTCCTAAAGAGGAATCAATCA
* * * *
1511466 TTGACTTCCTTGTGAAGAGAACTCAATCTTTTTTGTTCCTGATTCCTCGTGAAGAGGAACCAATC
1 TTGACTTCCTCGTGAAGAGAAGTCAA---TTTTTG-T--T-ATT-C-C-TAAAGAGGAATCAATC
*
1511531 T
56 A
* * * *
1511532 TTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAAGAGTCAATCA
1 TTGACTTCCTCGTGAAGAGAAGTCAATTTTTGTTATTCCTAAAGAGGAATCAATCA
* * * * * * * *
1511588 TTAACTTTCTTGTAAATAGAAGTCAATCTTTGTTATTCTTGACTCCTTCGTGAAGAGGAACCAAT
1 TTGACTTCCTCGTGAAGAGAAGTCAATTTTTGTTA----T---T-C--C-TAAAGAGGAATCAAT
1511653 -A
55 CA
* *
1511654 TTTGACTTCCTCGTG-AGAGAAGTCAATTTTTGCTATTCCTAAAGAAGAATCAATCA
1 -TTGACTTCCTCGTGAAGAGAAGTCAATTTTTGTTATTCCTAAAGAGGAATCAATCA
* * *
1511710 TTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAGGA
1 TTGACTTCCTCGTGAAGAGAAGTCAATTTTTGTTATTCCTAAAGAGGA
1511758 GTCTTATTTC
Statistics
Matches: 497, Mismatches: 100, Indels: 124
0.69 0.14 0.17
Matches are distributed among these distances:
55 24 0.05
56 206 0.41
57 10 0.02
58 10 0.02
59 11 0.02
60 7 0.01
61 4 0.01
62 7 0.01
63 20 0.04
64 8 0.02
65 7 0.01
66 127 0.26
67 56 0.11
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (56 bp):
TTGACTTCCTCGTGAAGAGAAGTCAATTTTTGTTATTCCTAAAGAGGAATCAATCA
Found at i:1511327 original size:122 final size:122
Alignment explanation
Indices: 1510975--1511749 Score: 944
Period size: 122 Copynumber: 6.3 Consensus size: 122
1510965 AAAGCTTCAA
** * ** * * * *
1510975 ATTGACTTCCTCATGAAGAGAAGTCAATCCTTGTTATTTTTTACTTCCTCGTAAAGACGAACCGA
1 ATTGACTTCCTTGTGAAGAGAAGTCAATCTTTGTTATTCCTGAC-TCCTCGTGAAGAGGAACCAA
* * * *
1511040 TCTTTGACTTCCTCGTGAAGAGAAGTTAATTTTTGTTATTCCTAAAGAGGAGTTAATC
65 TCTTTGACTTCCTCGTGAAGAGAAGTCAATTTTTGCTATTCCTAAAGAAGAGTCAATC
**** * * ** * *
1511098 ATTGACTTCAACATGAAGAGAAGTCAGTCCTTGTTATTTTTTACTTCCTCGTGAAGATGAACCAA
1 ATTGACTTCCTTGTGAAGAGAAGTCAATCTTTGTTATTCCTGAC-TCCTCGTGAAGAGGAACCAA
* * * *
1511163 TCTTGGACTTCCTCGTGAAGAGAAGTCAATTTTTGCTTTTCCTAAAGTAGAGCCAATC
65 TCTTTGACTTCCTCGTGAAGAGAAGTCAATTTTTGCTATTCCTAAAGAAGAGTCAATC
* * * *
1511221 ATTGACATCCTTGTGAAGAGAAGTCAATCTTTGTTATACCTGACTCCTCATGAAGAGGAATCAAT
1 ATTGACTTCCTTGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCTCGTGAAGAGGAACCAAT
* * * *
1511286 CTTTTATTTCCTCGTGAAGAGAAGTCAA-TCTTGACTATTCCTAAAGAAGATTCAATC
66 CTTTGACTTCCTCGTGAAGAGAAGTCAATTTTTG-CTATTCCTAAAGAAGAGTCAATC
* * * * *
1511343 CTTGACTTCCTTGTGAAGAGAATTCAATCTTTGTTATTCCTGGCTCCTCGTAAAGATGAACCAAT
1 ATTGACTTCCTTGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCTCGTGAAGAGGAACCAAT
* *
1511408 CTTTGACTTCCTCGTGAAGAGAAGTCAACTTTTT-ATATTCCTAAAGAAGTGTCAATC
66 CTTTGACTTCCTCGTGAAGAGAAGTCAA-TTTTTGCTATTCCTAAAGAAGAGTCAATC
* * * * *
1511465 CTTGACTTCCTTGTGAAGAGAACTCAATCTTTTTTGTTCCTGATTCCTCGTGAAGAGGAACCAAT
1 ATTGACTTCCTTGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCTCGTGAAGAGGAACCAAT
* * *
1511530 CTTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAAGAGTCAATC
66 CTTTGACTTCCTCGTGAAGAGAAGTCAATTTTTGCTATTCCTAAAGAAGAGTCAATC
* * * * *
1511587 ATTAACTTTCTTGTAAATAGAAGTCAATCTTTGTTATTCTTGACTCCTTCGTGAAGAGGAACCAA
1 ATTGACTTCCTTGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCC-TCGTGAAGAGGAACCAA
* *
1511652 TATTTGACTTCCTCGTG-AGAGAAGTCAATTTTTGCTATTCCTAAAGAAGAATCAATC
65 TCTTTGACTTCCTCGTGAAGAGAAGTCAATTTTTGCTATTCCTAAAGAAGAGTCAATC
* **
1511709 ATTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTATTCCT
1 ATTGACTTCCTTGTGAAGAGAAGTCAATCTTTGTTATTCCT
1511750 AAAGAGGAGT
Statistics
Matches: 564, Mismatches: 83, Indels: 11
0.86 0.13 0.02
Matches are distributed among these distances:
121 8 0.01
122 379 0.67
123 174 0.31
124 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (122 bp):
ATTGACTTCCTTGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCTCGTGAAGAGGAACCAAT
CTTTGACTTCCTCGTGAAGAGAAGTCAATTTTTGCTATTCCTAAAGAAGAGTCAATC
Found at i:1511550 original size:29 final size:29
Alignment explanation
Indices: 1511508--1511563 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
1511498 TTGTTCCTGA
*
1511508 TTCCTCGTGAAGAGGAA-CCAATCTTTGAC
1 TTCCTCATGAAGA-GAAGCCAATCTTTGAC
*
1511537 TTCCTCATGAAGAGAAGTCAATCTTTG
1 TTCCTCATGAAGAGAAGCCAATCTTTG
1511564 TTATTCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (29 bp):
TTCCTCATGAAGAGAAGCCAATCTTTGAC
Found at i:1511760 original size:27 final size:27
Alignment explanation
Indices: 1511669--1511760 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 27
1511659 CTTCCTCGTG
* *
1511669 AGAGAAGTCAATTTTTGCTATTCCTAA
1 AGAGAAGTCAATCTTTGTTATTCCTAA
* * *
1511696 AGAAGAA-TCAATCATTGACTT-TCTCATGA
1 AG-AGAAGTCAATCTTTG--TTAT-TCCTAA
1511725 AGAGAAGTCAATCTTTGTTATTCCTAA
1 AGAGAAGTCAATCTTTGTTATTCCTAA
*
1511752 AGAGGAGTC
1 AGAGAAGTC
1511761 TTATTTCAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
27 24 0.48
28 10 0.20
29 16 0.32
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (27 bp):
AGAGAAGTCAATCTTTGTTATTCCTAA
Found at i:1512029 original size:89 final size:89
Alignment explanation
Indices: 1511759--1512761 Score: 1146
Period size: 89 Copynumber: 11.3 Consensus size: 89
1511749 TAAAGAGGAG
** * * * * * *
1511759 TCTTATTTCAGATTTCATCTTCCTG-AAGAAGTAGCAAAACAAATGAATCCTTGAGTTTGATCTC
1 TCTTATTTCAGATTTGGTCTTCCCGAAAG-AGTAGCGAAGCAAATCAAT-CTCGAGTCTGATCTC
* *
1511823 CCCAGAAGAGTGGTGGAGCAGATTCT
64 CCCAGAAGAGTAGAGGAGCAGATTCT
* * * * * * *
1511849 TCTTATTTCAGAATTAGTCTT-CCTAAAGAAGCAGCGAAGAAAATCAATCCTTGAGTCTGATATC
1 TCTTATTTCAGATTTGGTCTTCCCGAAAG-AGTAGCGAAGCAAATCAAT-CTCGAGTCTGATCTC
* * *
1511913 CCCGGAAGAGTAGAGGAACATATTCT
64 CCCAGAAGAGTAGAGGAGCAGATTCT
* * * *
1511939 TCCTATTTTATATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATATCCC
1 TCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCC
*
1512004 CAGAAGAGTAGAGGAGGAGATTCT
66 CAGAAGAGTAGAGGAGCAGATTCT
* * * * * *
1512028 TCTTATATCAGATTTGGTCTTCCCAAAAGAGTAGCGAAGCAAATAAATTTTGAGTCTGATATCCC
1 TCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCC
* * * ** *
1512093 CAAAAGAATAAAGGAATATATTCT
66 CAGAAGAGTAGAGGAGCAGATTCT
* * *
1512117 TCTTATTTCAGATTTGGTTTTCTCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATATCCC
1 TCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCC
*
1512182 CGGAAGAGTAGAGGAGCAGATTCT
66 CAGAAGAGTAGAGGAGCAGATTCT
* *
1512206 TCTTATTTCAGATTTGGTCTTCACGAAAGAGTAGCGAAACAAATCAATCTCGAG-CATGATCTCC
1 TCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTC-TGATCTCC
* * *
1512270 CC-GAACGAGTAGTGGAACATATTCT
65 CCAGAA-GAGTAGAGGAGCAGATTCT
* * *
1512295 TCTTATTTTAGATTTGGTCTTCCCGAAAGAGTAGAGAAGCAAATCAATTTCGAGAT-TGATCTCC
1 TCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAG-TCTGATCTCC
1512359 CC-GAAAGAGTAGAGGAG-ACGATTCT
65 CCAG-AAGAGTAGAGGAGCA-GATTCT
* * * * * * *
1512384 TCTTATTTCAGATTTAGTCTTCCCGAAAGTGTTGCGAACCAAATCAATTTCGAGTCTGATATCCT
1 TCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCC
*
1512449 GA-AAGAGTAGAGGAGCAGATTCT
66 CAGAAGAGTAGAGGAGCAGATTCT
* *
1512472 TCTTATTTCAGATTTAGTCTTCCCTAAAGAGTAGCGAAGCAAATCAATC-CTGAGTCTGATCTCC
1 TCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTC-GAGTCTGATCTCC
* * ** *
1512536 CC-GAAAGAATAGTGGAATAGATTTT
65 CCAG-AAGAGTAGAGGAGCAGATTCT
* *
1512561 TCTTATTTCAGATTTGGTTTTCCCGAAAGAGTAGCGAATCAAATCAATCTCGAGTCTGATCTCCC
1 TCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCC
* *
1512626 CAGAAGAGTAGTGGAGCATATTCT
66 CAGAAGAGTAGAGGAGCAGATTCT
* * * *
1512650 TCTTATCTT-ATATTTAGTCTTCTCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTTTGATCTCC
1 TCTTAT-TTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCC
* *
1512714 CCAGAAGAGTAGTGGAGCAAATTCT
65 CCAGAAGAGTAGAGGAGCAGATTCT
*
1512739 TCTTATTTGAGATTTGGTCTTCC
1 TCTTATTTCAGATTTGGTCTTCC
1512762 TAAAGAAGCA
Statistics
Matches: 781, Mismatches: 114, Indels: 37
0.84 0.12 0.04
Matches are distributed among these distances:
87 1 0.00
88 83 0.11
89 581 0.74
90 110 0.14
91 6 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (89 bp):
TCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCC
CAGAAGAGTAGAGGAGCAGATTCT
Found at i:1512364 original size:42 final size:42
Alignment explanation
Indices: 1512140--1512372 Score: 116
Period size: 42 Copynumber: 5.3 Consensus size: 42
1512130 TTGGTTTTCT
* * *
1512140 CGAAAGAGTAGCGAAGCAAATCAATCTCGAG-TCTGATATCCC
1 CGAAAGAGTAGAGAAGCAAATCAATTTCGAGAT-TGATCTCCC
* * * * * * *
1512182 CGGAAGAGTAGAGGAGCAGATTCTTCTTATTTC-AGATTTGGTCTTCA
1 CGAAAGAGTAGAGAAGCA-A---ATC-AATTTCGAGA-TTGATCTCCC
* * *
1512229 CGAAAGAGTAGCGAAACAAATCAATCTCGAGCA-TGATCTCCC
1 CGAAAGAGTAGAGAAGCAAATCAATTTCGAG-ATTGATCTCCC
* * * * * * *
1512271 CGAACGAGTAGTGGAA-CATATTCTTCTTATTT-TAGATTTGGTCTTCC
1 CGAAAGAGTAG-AGAAGCA-A---ATC-AATTTCGAGA-TTGATCTCCC
1512318 CGAAAGAGTAGAGAAGCAAATCAATTTCGAGATTGATCTCCC
1 CGAAAGAGTAGAGAAGCAAATCAATTTCGAGATTGATCTCCC
1512360 CGAAAGAGTAGAG
1 CGAAAGAGTAGAG
1512373 GAGACGATTC
Statistics
Matches: 137, Mismatches: 35, Indels: 38
0.65 0.17 0.18
Matches are distributed among these distances:
42 62 0.45
43 14 0.10
44 1 0.01
45 1 0.01
46 13 0.09
47 45 0.33
48 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (42 bp):
CGAAAGAGTAGAGAAGCAAATCAATTTCGAGATTGATCTCCC
Found at i:1512410 original size:47 final size:45
Alignment explanation
Indices: 1512290--1512512 Score: 124
Period size: 47 Copynumber: 5.0 Consensus size: 45
1512280 AGTGGAACAT
* *
1512290 ATTCTTCTTATTTTAGATTTGGTCTTCCCGAAAGAGTAGAGAAGC
1 ATTCTTCTTATTTCAGATTTAGTCTTCCCGAAAGAGTAGAGAAGC
** * * * *
1512335 A--AATC-AATTTCGAGATTGA-TCTCCCCGAAAGAGTAGAGGAGAC
1 ATTCTTCTTATTTC-AGATTTAGTCTTCCCGAAAGAGTAGAGAAG-C
* * * *
1512378 GATTCTTCTTATTTCAGATTTAGTCTTCCCGAAAGTGTTGCGAACC
1 -ATTCTTCTTATTTCAGATTTAGTCTTCCCGAAAGAGTAGAGAAGC
** * * * * *
1512424 A--AATC-AATTTC-GAGTCT-GAT-ATCCTGAAAGAGTAGAGGAGC
1 ATTCTTCTTATTTCAGA-TTTAG-TCTTCCCGAAAGAGTAGAGAAGC
* *
1512465 AGATTCTTCTTATTTCAGATTTAGTCTTCCCTAAAGAGTAGCGAAGC
1 --ATTCTTCTTATTTCAGATTTAGTCTTCCCGAAAGAGTAGAGAAGC
1512512 A
1 A
1512513 AATCAATCCT
Statistics
Matches: 123, Mismatches: 38, Indels: 34
0.63 0.19 0.17
Matches are distributed among these distances:
41 17 0.14
42 32 0.26
43 11 0.09
44 1 0.01
45 5 0.04
46 17 0.14
47 40 0.33
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (45 bp):
ATTCTTCTTATTTCAGATTTAGTCTTCCCGAAAGAGTAGAGAAGC
Found at i:1512803 original size:444 final size:445
Alignment explanation
Indices: 1511759--1512803 Score: 1388
Period size: 444 Copynumber: 2.3 Consensus size: 445
1511749 TAAAGAGGAG
* * *
1511759 TCTTATTTCAGATTTCA-TCTTC-CTG-AAGAAGTAGCAAAACAAATGAATCCTTGAGTTTGATC
1 TCTTATTTCAGATTT-AGTCTTCAC-GAAAG-AGTAGCGAAACAAATCAAT-CTCGAGTTTGATC
* * * * *
1511821 TCCCCAGAAGAGTGGTGGAGCAGATTCTTCTTATTTCAGAATTAGTCTTCCTAAAGAAGCAGCGA
62 TCCCCAGAAGAGTAGTGGAGCAAATTCTTCTTATTTCAGATTTGGTCTTCCTAAAGAAGCAGAGA
* * * * * * *
1511886 AGAAAATCAATCCTTGAGTCTGATATCCCCGGAAGAGTAGAGGAACATATTCTTCCTATTTTATA
127 AGAAAATCAA-ACTCGAGTCTGATCTCCCCGAAAGAGTAGAGGAACAGATTCTTCCTATTTCAGA
* *
1511951 TTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATATCCCCAGAAGAGTAGA
191 TTTAGTCTTCCCGAAAGAGTAGCGAACCAAATCAATCTCGAGTCTGATATCCCCAGAAGAGTAGA
* * **
1512016 GGAGGAGATTCTTCTTATATCAGATTTGGTCTTCCCAAAAGAGTAGCGAAGCAAATAAATTTTGA
256 GGAGCAGATTCTTCTTATATCAGATTTAGTCTTCCCAAAAGAGTAGCGAAGCAAATAAATCCTGA
* *
1512081 GTCTGATATCCCCAAAAGAATAAAGGAATATATTCTTCTTATTTCAGATTTGGTTTTCTCGAAAG
321 GTCTGATATCCCCAAAAGAATAAAGGAATAGATTCTTCTTATTTCAGATTTGGTTTTCCCGAAAG
*
1512146 AGTAGCGAAGCAAATCAATCTCGAGTCTGATATCCCCGGAAGAGTAGAGGAGCAGATTCT
386 AGTAGCGAAGCAAATCAATCTCGAGTCTGATATCCCCAGAAGAGTAGAGGAGCAGATTCT
* **
1512206 TCTTATTTCAGATTTGGTCTTCACGAAAGAGTAGCGAAACAAATCAATCTCGAGCATGATCTCCC
1 TCTTATTTCAGATTTAGTCTTCACGAAAGAGTAGCGAAACAAATCAATCTCGAGTTTGATCTCCC
* * * * *
1512271 C-GAACGAGTAGTGGAACATATTCTTCTTATTTTAGATTTGGTCTTCCCGAAAG-AGTAGAGAAG
66 CAGAA-GAGTAGTGGAGCAAATTCTTCTTATTTCAGATTTGGTCTT-CCTAAAGAAGCAGAGAAG
* ** *
1512334 CAAATCAATTTCGAGAT-TGATCTCCCCGAAAGAGTAGAGGAGAC-GATTCTTCTTATTTCAGAT
129 AAAATCAAACTCGAG-TCTGATCTCCCCGAAAGAGTAGAGGA-ACAGATTCTTCCTATTTCAGAT
* * * **
1512397 TTAGTCTTCCCGAAAGTGTTGCGAACCAAATCAATTTCGAGTCTGATATCCTGA-AAGAGTAGAG
192 TTAGTCTTCCCGAAAGAGTAGCGAACCAAATCAATCTCGAGTCTGATATCCCCAGAAGAGTAGAG
* * *
1512461 GAGCAGATTCTTCTTATTTCAGATTTAGTCTTCCCTAAAGAGTAGCGAAGCAAATCAATCCTGAG
257 GAGCAGATTCTTCTTATATCAGATTTAGTCTTCCCAAAAGAGTAGCGAAGCAAATAAATCCTGAG
* * ** *
1512526 TCTGATCTCCCCGAAAGAATAGTGGAATAGATTTTTCTTATTTCAGATTTGGTTTTCCCGAAAGA
322 TCTGATATCCCCAAAAGAATAAAGGAATAGATTCTTCTTATTTCAGATTTGGTTTTCCCGAAAGA
* * * *
1512591 GTAGCGAATCAAATCAATCTCGAGTCTGATCTCCCCAGAAGAGTAGTGGAGCATATTCT
387 GTAGCGAAGCAAATCAATCTCGAGTCTGATATCCCCAGAAGAGTAGAGGAGCAGATTCT
* * *
1512650 TCTTATCTT-ATATTTAGTCTTCTCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTTTGATCTCC
1 TCTTAT-TTCAGATTTAGTCTTCACGAAAGAGTAGCGAAACAAATCAATCTCGAGTTTGATCTCC
* **
1512714 CCAGAAGAGTAGTGGAGCAAATTCTTCTTATTTGAGATTTGGTCTTCCTAAAGAAGCATTGAAGA
65 CCAGAAGAGTAGTGGAGCAAATTCTTCTTATTTCAGATTTGGTCTTCCTAAAGAAGCAGAGAAGA
* *
1512779 AAATTAAACTCGAGTCTTATCTCCC
130 AAATCAAACTCGAGTCTGATCTCCC
1512804 TGAAGAAGAG
Statistics
Matches: 518, Mismatches: 69, Indels: 25
0.85 0.11 0.04
Matches are distributed among these distances:
443 7 0.01
444 300 0.58
445 96 0.19
446 67 0.13
447 44 0.08
448 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (445 bp):
TCTTATTTCAGATTTAGTCTTCACGAAAGAGTAGCGAAACAAATCAATCTCGAGTTTGATCTCCC
CAGAAGAGTAGTGGAGCAAATTCTTCTTATTTCAGATTTGGTCTTCCTAAAGAAGCAGAGAAGAA
AATCAAACTCGAGTCTGATCTCCCCGAAAGAGTAGAGGAACAGATTCTTCCTATTTCAGATTTAG
TCTTCCCGAAAGAGTAGCGAACCAAATCAATCTCGAGTCTGATATCCCCAGAAGAGTAGAGGAGC
AGATTCTTCTTATATCAGATTTAGTCTTCCCAAAAGAGTAGCGAAGCAAATAAATCCTGAGTCTG
ATATCCCCAAAAGAATAAAGGAATAGATTCTTCTTATTTCAGATTTGGTTTTCCCGAAAGAGTAG
CGAAGCAAATCAATCTCGAGTCTGATATCCCCAGAAGAGTAGAGGAGCAGATTCT
Found at i:1514919 original size:17 final size:16
Alignment explanation
Indices: 1514890--1514931 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
1514880 ATCGCATATC
1514890 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
1514907 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
1514922 AATTATTTTA
1 AATTATTTTA
1514932 AAAGGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:1515868 original size:39 final size:39
Alignment explanation
Indices: 1515814--1515921 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 39
1515804 TGTCCACGTT
*
1515814 CTTACCCTGTGCACAAAG-CAGAGGAGCCTGCAGTAAGGA
1 CTTA-CCTGAGCACAAAGCCAGAGGAGCCTGCAGTAAGGA
* *
1515853 CTTACCTTGAGCACAAAGTC-GAGGAGCCTGCGGTAAGGA
1 CTTACC-TGAGCACAAAGCCAGAGGAGCCTGCAGTAAGGA
*
1515892 CTTAACCTAAGCACAAAGCCA-AGGAGCCTG
1 CTT-ACCTGAGCACAAAGCCAGAGGAGCCTG
1515922 TGGAAAACGG
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
38 2 0.03
39 55 0.90
40 4 0.07
ACGTcount: A:0.31, C:0.26, G:0.27, T:0.16
Consensus pattern (39 bp):
CTTACCTGAGCACAAAGCCAGAGGAGCCTGCAGTAAGGA
Found at i:1519145 original size:18 final size:20
Alignment explanation
Indices: 1519119--1519155 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
1519109 ATTTGATAAT
1519119 ATTCATTAA-TT-CTCTCCA
1 ATTCATTAACTTCCTCTCCA
*
1519137 ATTCTTTAACTTCCTCTCC
1 ATTCATTAACTTCCTCTCC
1519156 TTTTAGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 2 0.12
20 6 0.38
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTCATTAACTTCCTCTCCA
Found at i:1527506 original size:21 final size:21
Alignment explanation
Indices: 1527467--1527523 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
1527457 GATTCTGACT
**
1527467 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATAGTCCAAA
* *
1527488 TTCGCAATGCGATAGTCCAAA
1 ATCGCATTGCGATAGTCCAAA
*
1527509 ATCGTATTGCGATAG
1 ATCGCATTGCGATAG
1527524 CACTGTTCAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (21 bp):
ATCGCATTGCGATAGTCCAAA
Found at i:1527542 original size:21 final size:21
Alignment explanation
Indices: 1527515--1527628 Score: 192
Period size: 21 Copynumber: 5.4 Consensus size: 21
1527505 CAAAATCGTA
1527515 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
*
1527536 TTACGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
1527557 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
* *
1527578 TTGCGATAACACTGTTCACCA
1 TTGCGATAGCACTGTTCACCG
*
1527599 TTGCGATAACACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
1527620 TTGCGATAG
1 TTGCGATAG
1527629 TGATCAAAAT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 87 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (21 bp):
TTGCGATAGCACTGTTCACCG
Found at i:1528334 original size:21 final size:21
Alignment explanation
Indices: 1528308--1528368 Score: 122
Period size: 21 Copynumber: 2.9 Consensus size: 21
1528298 AATTCGCAAT
1528308 GTGAACAGTGCTATCGCAACG
1 GTGAACAGTGCTATCGCAACG
1528329 GTGAACAGTGCTATCGCAACG
1 GTGAACAGTGCTATCGCAACG
1528350 GTGAACAGTGCTATCGCAA
1 GTGAACAGTGCTATCGCAA
1528369 TGCGATTTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.20
Consensus pattern (21 bp):
GTGAACAGTGCTATCGCAACG
Found at i:1528384 original size:21 final size:21
Alignment explanation
Indices: 1528360--1528422 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
1528350 GTGAACAGTG
*
1528360 CTATCGCAATGCGATTTTGGA
1 CTATCGCAATGCGAATTTGGA
* * *
1528381 CTATCACATTGCGAATTCGGA
1 CTATCGCAATGCGAATTTGGA
** *
1528402 AAATCGCAACGCGAATTTGGA
1 CTATCGCAATGCGAATTTGGA
1528423 AAATCGTAAT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (21 bp):
CTATCGCAATGCGAATTTGGA
Found at i:1535537 original size:15 final size:14
Alignment explanation
Indices: 1535513--1535544 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
1535503 TGAGTCAATG
1535513 TTTAGTGAATATAT
1 TTTAGTGAATATAT
1535527 TTTAGGTGAATATAT
1 TTTA-GTGAATATAT
1535542 TTT
1 TTT
1535545 TCTCACCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (14 bp):
TTTAGTGAATATAT
Found at i:1535803 original size:23 final size:25
Alignment explanation
Indices: 1535760--1535823 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 25
1535750 TAAATTCACA
**
1535760 TATTAAAT-TAATTTTACATCTTAAC
1 TATTAAATAT-ATTTTTTATCTTAAC
1535785 -ATTAAA-ATATTTTTTATCTTAAC
1 TATTAAATATATTTTTTATCTTAAC
1535808 TTATTAAATATATTTT
1 -TATTAAATATATTTT
1535824 ATTCTTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 13 0.39
24 7 0.21
25 6 0.18
26 7 0.21
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTAAATATATTTTTTATCTTAAC
Found at i:1535825 original size:24 final size:23
Alignment explanation
Indices: 1535760--1535825 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 23
1535750 TAAATTCACA
1535760 TATTAAAT-TAATTTTACATCTTAAC
1 TATTAAATAT-ATTTT--ATCTTAAC
*
1535785 -ATTAAAATATTTTTTATCTTAAC
1 TATT-AAATATATTTTATCTTAAC
1535808 TTATTAAATATATTTTAT
1 -TATTAAATATATTTTAT
1535826 TCTTTTCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
23 8 0.23
24 15 0.43
25 11 0.31
26 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAAATATATTTTATCTTAAC
Found at i:1535835 original size:30 final size:30
Alignment explanation
Indices: 1535792--1535918 Score: 132
Period size: 30 Copynumber: 4.2 Consensus size: 30
1535782 AACATTAAAA
* **
1535792 TATTTTTTATCTTAACTTATTAAATATATTT
1 TATTCTTT-TCTTAACTTAAAAAATATATTT
*
1535823 TATTCTTTTCTTAACCT-AAAAATATATTT
1 TATTCTTTTCTTAACTTAAAAAATATATTT
*
1535852 TATTCTTATT-TTAATTTAAAAAATATATTT
1 TATTCTT-TTCTTAACTTAAAAAATATATTT
* * * * *
1535882 TAATCTTATATTAAATTAAAAAATATAATT
1 TATTCTTTTCTTAACTTAAAAAATATATTT
1535912 TATTCTT
1 TATTCTT
1535919 ATATTGATTT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
29 23 0.28
30 52 0.63
31 7 0.09
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (30 bp):
TATTCTTTTCTTAACTTAAAAAATATATTT
Found at i:1535931 original size:30 final size:30
Alignment explanation
Indices: 1535813--1535931 Score: 150
Period size: 30 Copynumber: 4.0 Consensus size: 30
1535803 TTAACTTATT
* * **
1535813 AAATATATTTTATTCTTTTCTTAACCT-AA
1 AAATATATTTTATTCTTATATTAATTTAAA
*
1535842 AAATATATTTTATTCTTATTTTAATTTAAA
1 AAATATATTTTATTCTTATATTAATTTAAA
* *
1535872 AAATATATTTTAATCTTATATTAAATTAAA
1 AAATATATTTTATTCTTATATTAATTTAAA
* *
1535902 AAATATAATTTATTCTTATATTGATTTAAA
1 AAATATATTTTATTCTTATATTAATTTAAA
1535932 TATTTATATT
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
29 23 0.29
30 55 0.71
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (30 bp):
AAATATATTTTATTCTTATATTAATTTAAA
Found at i:1535999 original size:31 final size:29
Alignment explanation
Indices: 1535964--1536313 Score: 142
Period size: 30 Copynumber: 11.9 Consensus size: 29
1535954 TTCTTTAAAT
1535964 TTAAGATAAAAATATAATATATTTTTTGTAG
1 TTAAGATAAAAATATAATATA-TTTTT-TAG
*
1535995 TTAAGATAAAAATAAAATATATTTTTTAG
1 TTAAGATAAAAATATAATATATTTTTTAG
* * *
1536024 TT-A-A-AATAA-A-AATATACTTTTAAG
1 TTAAGATAAAAATATAATATATTTTTTAG
* * * * *
1536048 TTAAGATAAGAACAAAAGATATGTTTTAAG
1 TTAAGATAAAAATATAATATAT-TTTTTAG
* * * *
1536078 TTAAAATAAGAAT-TAAT-TATTTTAATAAAC
1 TTAAGATAAAAATATAATATATTTT--T-TAG
* * * * *
1536108 TTAAGGTAATAATATAATATATTTAATAAT
1 TTAAGATAAAAATATAATATATTT-TTTAG
* * ** *
1536138 TTAAGTTAAGAATATAA-ATTATGTAATAAG
1 TTAAGATAAAAATATAATA-TAT-TTTTTAG
* * *
1536168 TTAACATAAGAATAAAATATATATTTTTAAG
1 TTAAGATAAAAATATAATATAT-TTTTT-AG
* * * *
1536199 TTAAGATAAAGACTAAAAAATATTTTTAAG
1 TTAAGATAAA-AATATAATATATTTTTTAG
* * *
1536229 TTAAAATAAGAATAAAATATA-TTTTTAGG
1 TTAAGATAAAAATATAATATATTTTTTA-G
* * * * * *
1536258 TTAAGACAATAATAAAATAAATTTAATAAG
1 TTAAGATAAAAATATAATATATTT-TTTAG
* *
1536288 TTAATATAAAAATAAAATATATTTTT
1 TTAAGATAAAAATATAATATATTTTT
1536314 AATTTTAAGA
Statistics
Matches: 250, Mismatches: 49, Indels: 42
0.73 0.14 0.12
Matches are distributed among these distances:
24 14 0.06
25 2 0.01
26 5 0.02
27 8 0.03
28 10 0.04
29 42 0.17
30 111 0.44
31 43 0.17
32 15 0.06
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (29 bp):
TTAAGATAAAAATATAATATATTTTTTAG
Found at i:1536028 original size:24 final size:25
Alignment explanation
Indices: 1535995--1536051 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
1535985 TTTTTTGTAG
* *
1535995 TTAAGATAAAAAT-AAAATATATTT
1 TTAAGTTAAAAATAAAAATATACTT
*
1536019 TTTAGTT-AAAATAAAAATATACTT
1 TTAAGTTAAAAATAAAAATATACTT
1536043 TTAAGTTAA
1 TTAAGTTAA
1536052 GATAAGAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.19
24 21 0.78
25 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (25 bp):
TTAAGTTAAAAATAAAAATATACTT
Found at i:1536056 original size:24 final size:24
Alignment explanation
Indices: 1536003--1536056 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
1535993 AGTTAAGATA
* *
1536003 AAAAT-AAAATATATTTTTTAGTT
1 AAAATAAAAATATACTTTTAAGTT
1536026 AAAATAAAAATATACTTTTAAGTT
1 AAAATAAAAATATACTTTTAAGTT
*
1536050 AAGATAA
1 AAAATAA
1536057 GAACAAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (24 bp):
AAAATAAAAATATACTTTTAAGTT
Found at i:1536288 original size:59 final size:60
Alignment explanation
Indices: 1536161--1536315 Score: 192
Period size: 59 Copynumber: 2.6 Consensus size: 60
1536151 ATAAATTATG
* *
1536161 TAATAAGTTAACATAAGAATAAAATATATATTTTTAAGTTAAGATAAAGACTAAAAAATATT
1 TAATAAGTTAAAATAAGAAT-AAA-ATATATTTTTAAGTTAAGACAAAGACTAAAAAATATT
* *
1536223 T-TTAAGTTAAAATAAGAATAAAATATATTTTTAGGTTAAGACAATA-A-TAAAATAA-ATT
1 TAATAAGTTAAAATAAGAATAAAATATATTTTTAAGTTAAGACAA-AGACTAAAA-AATATT
* *
1536281 TAATAAGTTAATATAAAAATAAAATATATTTTTAA
1 TAATAAGTTAAAATAAGAATAAAATATATTTTTAA
1536316 TTTTAAGATG
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
58 9 0.11
59 52 0.63
60 4 0.05
61 16 0.20
62 1 0.01
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (60 bp):
TAATAAGTTAAAATAAGAATAAAATATATTTTTAAGTTAAGACAAAGACTAAAAAATATT
Found at i:1536352 original size:18 final size:18
Alignment explanation
Indices: 1536311--1536360 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
1536301 AAAATATATT
1536311 TTTAATTTTAAGATGTAAA
1 TTTAA-TTTAAGATGTAAA
* * *
1536330 ATTAATTTAATATGTGAA
1 TTTAATTTAAGATGTAAA
*
1536348 TTTAAATTAAGAT
1 TTTAATTTAAGAT
1536361 ATATAAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (18 bp):
TTTAATTTAAGATGTAAA
Found at i:1537341 original size:22 final size:25
Alignment explanation
Indices: 1537316--1537363 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1537306 TACTTTTCTT
1537316 AAATTTC-GAT-ATTT-TTTTAAAA
1 AAATTTCTGATGATTTATTTTAAAA
*
1537338 AAATTTCTTATGATTTATTTTAAAA
1 AAATTTCTGATGATTTATTTTAAAA
1537363 A
1 A
1537364 TTAATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 2 0.09
24 4 0.18
25 9 0.41
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (25 bp):
AAATTTCTGATGATTTATTTTAAAA
Found at i:1537536 original size:15 final size:15
Alignment explanation
Indices: 1537516--1537561 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
1537506 TTTAACGATG
1537516 TATAATTATTCAAAT
1 TATAATTATTCAAAT
1537531 TATAA-T-TT-AAA-
1 TATAATTATTCAAAT
1537542 -A-AATTATTCAAAT
1 TATAATTATTCAAAT
1537555 TATAATT
1 TATAATT
1537562 TAAAACTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
9 2 0.08
10 2 0.08
11 2 0.08
12 6 0.24
13 2 0.08
14 2 0.08
15 9 0.36
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
TATAATTATTCAAAT
Found at i:1537551 original size:24 final size:24
Alignment explanation
Indices: 1537519--1537566 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1537509 AACGATGTAT
1537519 AATTATTCAAATTATAATTTAAAA
1 AATTATTCAAATTATAATTTAAAA
1537543 AATTATTCAAATTATAATTTAAAA
1 AATTATTCAAATTATAATTTAAAA
1537567 CTCTCTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
AATTATTCAAATTATAATTTAAAA
Found at i:1538918 original size:26 final size:22
Alignment explanation
Indices: 1538864--1538919 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 22
1538854 TTATATTATT
1538864 TTTATTATATATTATAAAAATA
1 TTTATTATATATTATAAAAATA
*
1538886 TAATATTATATATTAGTATATAAATTA
1 T-TTATTATATATTA-TA-A-AAA-TA
1538913 TTTATTA
1 TTTATTA
1538920 CTTACATCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 12 0.44
24 2 0.07
25 1 0.04
26 8 0.30
27 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTATTATATATTATAAAAATA
Found at i:1540963 original size:21 final size:21
Alignment explanation
Indices: 1540939--1541014 Score: 93
Period size: 21 Copynumber: 3.6 Consensus size: 21
1540929 CAATTTACAA
*
1540939 TTCGCTTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* *
1540960 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCGAAG
1540983 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
1541002 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
1541015 TTATTCCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
19 9 0.20
21 28 0.61
23 9 0.20
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:1540992 original size:42 final size:42
Alignment explanation
Indices: 1540945--1541039 Score: 181
Period size: 42 Copynumber: 2.3 Consensus size: 42
1540935 ACAATTCGCT
*
1540945 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1540987 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1541029 TTGCGATAGTC
1 TTGCGATAGTC
1541040 CAAAATCGCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:1541030 original size:21 final size:21
Alignment explanation
Indices: 1540964--1541035 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
1540954 TCGAAGTTCG
1540964 CGTTGCGATTTATTCCAAGTT
1 CGTTGCGATTTATTCCAAGTT
* *
1540985 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAGTT
*
1541004 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAGTT
1541027 CGTTGCGAT
1 CGTTGCGAT
1541036 AGTCCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 9 0.21
21 25 0.60
23 8 0.19
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAGTT
Found at i:1541850 original size:63 final size:63
Alignment explanation
Indices: 1541781--1541934 Score: 272
Period size: 63 Copynumber: 2.4 Consensus size: 63
1541771 TTTGGAATAA
* *
1541781 ATCGCAACGTGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACT
* *
1541844 ATCGCAACACGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACT
1541907 ATCGCAACGCGAACTTGGACTATCGCAA
1 ATCGCAACGCGAACTTGGACTATCGCAA
1541935 TGCGAATATG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 86 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (63 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACT
Found at i:1541939 original size:21 final size:21
Alignment explanation
Indices: 1541753--1541940 Score: 199
Period size: 21 Copynumber: 9.0 Consensus size: 21
1541743 CCTTGCGATT
*
1541753 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* *
1541772 TTGGAATAAATCGCAACGTGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
1541795 TTCGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
1541814 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
1541837 TTGGACTATCGCAACACGAAC
1 TTGGACTATCGCAACGCGAAC
*
1541858 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
1541877 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
1541900 TTGGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
1541921 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
1541941 TATGTAAATC
Statistics
Matches: 142, Mismatches: 15, Indels: 22
0.79 0.08 0.12
Matches are distributed among these distances:
19 25 0.18
21 88 0.62
23 29 0.20
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:1544545 original size:10 final size:11
Alignment explanation
Indices: 1544523--1544548 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1544513 TTTATTTTTA
1544523 TTTTCATCTTT
1 TTTTCATCTTT
1544534 TTTTCATCTTT
1 TTTTCATCTTT
1544545 TTTT
1 TTTT
1544549 TTCGTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCATCTTT
Found at i:1544548 original size:12 final size:13
Alignment explanation
Indices: 1544504--1544551 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 13
1544494 ACTATCCTTT
*
1544504 TCTTTTATTTTTA
1 TCTTTTATTTTCA
1544517 T-TTTTATTTTCA
1 TCTTTTATTTTCA
1544529 TC-TTT-TTTTCA
1 TCTTTTATTTTCA
*
1544540 TCTTTTTTTTTC
1 TCTTTTATTTTC
1544552 GTTGCTTCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
11 8 0.26
12 17 0.55
13 6 0.19
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.77
Consensus pattern (13 bp):
TCTTTTATTTTCA
Found at i:1545166 original size:2 final size:2
Alignment explanation
Indices: 1545159--1545187 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1545149 ATTGGTTTAT
1545159 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1545188 TGTGGTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1549946 original size:121 final size:121
Alignment explanation
Indices: 1549731--1550040 Score: 379
Period size: 121 Copynumber: 2.6 Consensus size: 121
1549721 AAACTAGAAA
* * *
1549731 GCTCATTCGCTATGAAGTTGAGCTTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAAGGG
1 GCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGG
* ** * *
1549796 TTGCACTGCTGCTTTTGGGTACGAGATCCTTCATTATAAAGTTAAAATCATGGATG
66 TTGCACTGCTGATGGTGGGCACGAGATCCTTCATCATAAAGTTAAAATCATGGATG
* * **
1549852 GCTCATTCGTTGTGAAGTTGAGCATTGAATTAGATATCCGCCGTCGTGAAGTTGAAATCCAAGGG
1 GCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGG
* * * * * * * * *
1549917 TTGCATTGTTGATGGTGGGCATGATATCCTTCGTCGTGAAGTTGAAATCGTGGATG
66 TTGCACTGCTGATGGTGGGCACGAGATCCTTCATCATAAAGTTAAAATCATGGATG
* ** *
1549973 GCTTC-TTCGTTGTGAAGTTGAGCTTTGAATTGGATATCATTCGTTATGAAGTTGAAATCCAATG
1 GC-TCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGG
1550037 GTTG
65 GTTG
1550041 TTTCACCAAA
Statistics
Matches: 159, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
121 157 0.99
122 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (121 bp):
GCTCATTCGTTGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGG
TTGCACTGCTGATGGTGGGCACGAGATCCTTCATCATAAAGTTAAAATCATGGATG
Found at i:1550070 original size:60 final size:60
Alignment explanation
Indices: 1549994--1550155 Score: 238
Period size: 60 Copynumber: 2.7 Consensus size: 60
1549984 GTGAAGTTGA
* * * *
1549994 GCTTTGAATTGGATATCATTCGTTATGAAGTTGAAATCCAATGGT-TGTTTCACCAAATTG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAT-GTATATTTCACCAAATTG
*
1550054 GTTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA-GTACTATTTCACCAAATTG
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATGTA-TATTTCACCAAATTG
*
1550114 GCTTTGAGTTAGATATCCTTCGTTGTGAAGTTGAAATCCAAT
1 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAT
1550156 CTCGAATATT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
58 2 0.02
60 90 0.98
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.38
Consensus pattern (60 bp):
GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATGTATATTTCACCAAATTG
Found at i:1551477 original size:2 final size:2
Alignment explanation
Indices: 1551470--1551526 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1551460 AACTTTATTG
1551470 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1551512 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
1551527 TTTTTGTTGG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1564586 original size:78 final size:78
Alignment explanation
Indices: 1564457--1564615 Score: 309
Period size: 78 Copynumber: 2.0 Consensus size: 78
1564447 TCTCTATATT
1564457 TTTCGCATACTTTCTTTATTTTCTTTTAAAATTTTGTTTTCAAATATGCTAAGTATGACTTTGGT
1 TTTCGCATACTTTCTTTATTTTCTTTTAAAATTTTGTTTTCAAATATGCTAAGTATGACTTTGGT
1564522 CATGCTTAGCTAA
66 CATGCTTAGCTAA
1564535 TTTCGCATACTTTCTTTATTTTCTTTTAAAATTTTGTTTTCAAATATGCTAAGTATGACTTTGGT
1 TTTCGCATACTTTCTTTATTTTCTTTTAAAATTTTGTTTTCAAATATGCTAAGTATGACTTTGGT
*
1564600 CATGCTTAGTTAA
66 CATGCTTAGCTAA
1564613 TTT
1 TTT
1564616 TCTTTTAAGC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.52
Consensus pattern (78 bp):
TTTCGCATACTTTCTTTATTTTCTTTTAAAATTTTGTTTTCAAATATGCTAAGTATGACTTTGGT
CATGCTTAGCTAA
Found at i:1564968 original size:13 final size:13
Alignment explanation
Indices: 1564950--1564982 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
1564940 TTAAAGTAAA
1564950 GATCTGTTTCGAT
1 GATCTGTTTCGAT
1564963 GATCTGTTTCGAT
1 GATCTGTTTCGAT
1564976 GATCTGT
1 GATCTGT
1564983 GGAATTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.45
Consensus pattern (13 bp):
GATCTGTTTCGAT
Found at i:1565073 original size:13 final size:14
Alignment explanation
Indices: 1565052--1565081 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1565042 ATCTCTTTTA
1565052 TTTATTTTTTATCT
1 TTTATTTTTTATCT
1565066 TTTA-TTTTTATCT
1 TTTATTTTTTATCT
1565079 TTT
1 TTT
1565082 TATCTCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTTTTATCT
Found at i:1565144 original size:15 final size:15
Alignment explanation
Indices: 1565116--1565189 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
1565106 CCCTTTTATC
*
1565116 TTTATTACTATTATTA
1 TTTATTA-TTTTATTA
1565132 TTTATTATTTTATTA
1 TTTATTATTTTATTA
1565147 TTT-TTCATTTT-TTAA
1 TTTATT-ATTTTATT-A
* *
1565162 ATTATAATTTT-TTA
1 TTTATTATTTTATTA
1565176 -TT-TTATTTTATTA
1 TTTATTATTTTATTA
1565189 T
1 T
1565190 ATCTTTTCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
12 6 0.12
13 5 0.10
14 5 0.10
15 25 0.51
16 8 0.16
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATTATTTTATTA
Found at i:1565196 original size:22 final size:21
Alignment explanation
Indices: 1565109--1565196 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 21
1565099 GAAAAACCCC
*
1565109 TTTTATCTTTATTACTATTATTA
1 TTTTAT-TTTATTA-TATTTTTA
*
1565132 TTTATTATTTTATTAT-TTTTCA
1 -TT-TTATTTTATTATATTTTTA
**
1565154 TTTT-TTAAATTATAATTTTTTA
1 TTTTATTTTATTAT-A-TTTTTA
1565176 TTTTATTTTATTATATCTTTT
1 TTTTATTTTATTATAT-TTTT
1565197 CAACTTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
19 7 0.14
20 2 0.04
21 3 0.06
22 18 0.35
23 8 0.16
24 9 0.18
25 4 0.08
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTATTTTATTATATTTTTA
Found at i:1569147 original size:113 final size:110
Alignment explanation
Indices: 1569022--1569251 Score: 415
Period size: 113 Copynumber: 2.1 Consensus size: 110
1569012 TGTTAATTAA
*
1569022 TGATTTTTATTCATAGATGGATTTTATTATCCTAAAATAAAATATTGGGTGAAAATATTAAAAGA
1 TGATTTTTATTCATAGATGGATTTTATTATCCTAAAATAAAATATTGGATGAAAATATTAAAAG-
*
1569087 AAAAAAAAAATAAAGACTAAAATGAATGTTCTGATAAACATTGGGTGT
65 --AAAAAAAATAAAGACTAAAATGAATGTTCTGATAAACATTCGGTGT
1569135 TGATTTTTATTCATAGATGGATTTTATTATCCTAAAATAAAATATTGGATGAAAATATTAAAAGA
1 TGATTTTTATTCATAGATGGATTTTATTATCCTAAAATAAAATATTGGATGAAAATATTAAAAGA
1569200 AAAAAAATAAAGACTAAAATGAATGTTCTGATAAACATTCGGTGT
66 AAAAAAATAAAGACTAAAATGAATGTTCTGATAAACATTCGGTGT
1569245 TGATTTT
1 TGATTTT
1569252 GATATTATGT
Statistics
Matches: 115, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
110 52 0.45
113 63 0.55
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (110 bp):
TGATTTTTATTCATAGATGGATTTTATTATCCTAAAATAAAATATTGGATGAAAATATTAAAAGA
AAAAAAATAAAGACTAAAATGAATGTTCTGATAAACATTCGGTGT
Found at i:1569854 original size:14 final size:14
Alignment explanation
Indices: 1569835--1569870 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
1569825 AGAGTCAGAT
1569835 TTAGGAGTTTGATA
1 TTAGGAGTTTGATA
1569849 TTAGGAGTTTGATA
1 TTAGGAGTTTGATA
1569863 TTAGGAGT
1 TTAGGAGT
1569871 CTAGTGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.42
Consensus pattern (14 bp):
TTAGGAGTTTGATA
Found at i:1570169 original size:35 final size:35
Alignment explanation
Indices: 1570120--1570206 Score: 122
Period size: 35 Copynumber: 2.5 Consensus size: 35
1570110 CCTTAGGACC
1570120 GTAAGGAATTACCAGCTGATCAGTGCTGAACCTAT
1 GTAAGGAATTACCAGCTGATCAGTGCTGAACCTAT
* * *
1570155 GTAAGG-ATTAACCAGCCGATCGGTGTTGAACCTAT
1 GTAAGGAATT-ACCAGCTGATCAGTGCTGAACCTAT
*
1570190 ATAAGGAATTACCAGCT
1 GTAAGGAATTACCAGCT
1570207 TGATTAGAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
34 3 0.07
35 39 0.87
36 3 0.07
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (35 bp):
GTAAGGAATTACCAGCTGATCAGTGCTGAACCTAT
Found at i:1571226 original size:26 final size:27
Alignment explanation
Indices: 1571174--1571227 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
1571164 TTCTAAGTCA
* **
1571174 TAAGGGTATTTAGGTCATTTTGGAGCT
1 TAAGGCTATTTAGGTCATTTCAGAGCT
*
1571201 TAAGGCTATTTA-GTCATTTCATAGCT
1 TAAGGCTATTTAGGTCATTTCAGAGCT
1571227 T
1 T
1571228 GAGGATATCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (27 bp):
TAAGGCTATTTAGGTCATTTCAGAGCT
Found at i:1582443 original size:20 final size:20
Alignment explanation
Indices: 1582418--1582458 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1582408 AATAATCACA
*
1582418 TAAAAATCATAATTTAATATT
1 TAAAAA-CACAATTTAATATT
1582439 TAAAAACACAATTTAATATT
1 TAAAAACACAATTTAATATT
1582459 GTACTAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAACACAATTTAATATT
Found at i:1583061 original size:12 final size:12
Alignment explanation
Indices: 1583044--1583070 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1583034 CAATGCATGT
1583044 ATAAATAAAGAA
1 ATAAATAAAGAA
1583056 ATAAATAAAGAA
1 ATAAATAAAGAA
1583068 ATA
1 ATA
1583071 CATGGTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (12 bp):
ATAAATAAAGAA
Found at i:1583099 original size:13 final size:13
Alignment explanation
Indices: 1583081--1583107 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1583071 CATGGTTGAA
1583081 CAGTCTTCATATG
1 CAGTCTTCATATG
1583094 CAGTCTTCATATG
1 CAGTCTTCATATG
1583107 C
1 C
1583108 GCGTCTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:1585536 original size:13 final size:14
Alignment explanation
Indices: 1585518--1585547 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1585508 AAAGAGTAAT
1585518 AAAATA-TATTTTA
1 AAAATACTATTTTA
1585531 AAAATACTATTTTA
1 AAAATACTATTTTA
1585545 AAA
1 AAA
1585548 CTTTTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAATACTATTTTA
Found at i:1586976 original size:30 final size:32
Alignment explanation
Indices: 1586922--1586991 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 32
1586912 GATTTAGTTA
* * *
1586922 GTGACCAAATTATAAGATTTTGAAAAGTTT-G
1 GTGACCAAAGTATAAGACTTTGAAAAATTTAG
1586953 GTGACCAAAGTATAA-ACTTTGAAAAATTTAG
1 GTGACCAAAGTATAAGACTTTGAAAAATTTAG
1586984 G-GACCAAA
1 GTGACCAAA
1586992 ATGGTAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 19 0.54
31 16 0.46
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (32 bp):
GTGACCAAAGTATAAGACTTTGAAAAATTTAG
Found at i:1587816 original size:30 final size:31
Alignment explanation
Indices: 1587782--1587841 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1587772 AGAAAATTCA
* * *
1587782 GGGACC-ATTCTATAATTTTTGAAAAGTTGG
1 GGGACCAATTCAAAAATTTTGGAAAAGTTGG
1587812 GGGACCAATTCAAAAATTTTGGAAAAGTTG
1 GGGACCAATTCAAAAATTTTGGAAAAGTTG
1587842 TGAATAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (31 bp):
GGGACCAATTCAAAAATTTTGGAAAAGTTGG
Found at i:1589491 original size:18 final size:18
Alignment explanation
Indices: 1589434--1589492 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
1589424 AATATGTTAC
*
1589434 ATGATAATGATATTGATA
1 ATGATAATGATGTTGATA
* ** *
1589452 TTGATAATGATAG-AAATC
1 ATGATAATGAT-GTTGATA
1589470 ATGATAATGATGTTGATA
1 ATGATAATGATGTTGATA
1589488 ATGAT
1 ATGAT
1589493 GGTATATGTG
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
17 1 0.03
18 29 0.97
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (18 bp):
ATGATAATGATGTTGATA
Found at i:1594116 original size:103 final size:103
Alignment explanation
Indices: 1593788--1594108 Score: 606
Period size: 103 Copynumber: 3.1 Consensus size: 103
1593778 GTCGAGGGTC
1593788 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1593853 TTGATCCTTGGCATATGTATATGATTATTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
1593891 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1593956 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
1593994 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
1594059 TTGATCCTTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
1594097 TATGTGGTCCTT
1 TATGTGGTCCTT
1594109 ATGGACATTA
Statistics
Matches: 213, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 213 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:1594155 original size:23 final size:23
Alignment explanation
Indices: 1594125--1594184 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
1594115 ATTATTATAT
*
1594125 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGA
*
1594148 GGCACTACGGTGCAATTCTATGA
1 GGCACTACGGTGCAATTCTACGA
*
1594171 GGCACTTCGGTGCA
1 GGCACTACGGTGCA
1594185 TTTATATAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGA
Found at i:1597732 original size:11 final size:11
Alignment explanation
Indices: 1597716--1597745 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
1597706 CAATAAGATA
1597716 AAGGAATTAAG
1 AAGGAATTAAG
1597727 AAGGAATTAAG
1 AAGGAATTAAG
1597738 AAGGAATT
1 AAGGAATT
1597746 TGTAATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.27, T:0.20
Consensus pattern (11 bp):
AAGGAATTAAG
Found at i:1599439 original size:100 final size:101
Alignment explanation
Indices: 1599239--1599552 Score: 429
Period size: 99 Copynumber: 3.2 Consensus size: 101
1599229 AGGGTCTATA
1599239 TGGTCCTTCAGGAC--ATATGTATTCTTTGGAACATGTGTGAAGTC-GGTGAGACAA-ACTTGAT
1 TGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACAATACTTGAT
1599300 CCTTGGCATATG-ATATGATTCTTAAGGAATGATATG
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATA-G
*
1599336 TGGTCCTTCGGGACATATATGTATTC-TTGGAACATGTGTGAAGTCTGGTGAGACAATACTTGAT
1 TGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACAATACTTGAT
1599400 CCTTGGCATATGTATATGATTCTTAAGGAATGATAG
66 CCTTGGCATATGTATATGATTCTTAAGGAATGATAG
* * *
1599436 TGGTTCTTCCGGACATATA--TATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATACTTGA
1 TGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACA-ATACTTGA
* * * *
1599499 CCCCTAGTATATGTAT-TGATTCTTAAGG-ATGAT--
65 TCCTTGGCATATGTATATGATTCTTAAGGAATGATAG
1599532 TGGTCCTT-ATGGACATTATAT
1 TGGTCCTTCA-GGACA-TATAT
1599553 ATGGCACTAC
Statistics
Matches: 197, Mismatches: 10, Indels: 19
0.87 0.04 0.08
Matches are distributed among these distances:
96 12 0.06
97 17 0.09
98 29 0.15
99 60 0.30
100 57 0.29
101 22 0.11
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (101 bp):
TGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACAATACTTGAT
CCTTGGCATATGTATATGATTCTTAAGGAATGATAG
Found at i:1599485 original size:99 final size:100
Alignment explanation
Indices: 1599239--1599554 Score: 429
Period size: 100 Copynumber: 3.2 Consensus size: 100
1599229 AGGGTCTATA
*
1599239 TGGTCCTTCAGGACATATGTATTCTTTGGAACATGTGTGAAGTC-GGTGAGACAA-ACTTGATCC
1 TGGTCCTTCAGGACATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACAATACTTGATCC
1599302 TTGGCATATG-ATATGATTCTTAAGGAATGATATG
66 TTGGCATATGTATATGATTCTTAAGGAATGATATG
*
1599336 TGGTCCTTCGGGACATATATGTATTC-TTGGAACATGTGTGAAGTCTGGTGAGACAATACTTGAT
1 TGGTCCTTCAGGACATATA--TATTCTTTGGAACATGTGTGAAGTCTGGTGAGACAATACTTGAT
1599400 CCTTGGCATATGTATATGATTCTTAAGGAATGATA-G
64 CCTTGGCATATGTATATGATTCTTAAGGAATGATATG
* * * *
1599436 TGGTTCTTCCGGACATATATATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATACTTGACC
1 TGGTCCTTCAGGACATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACA-ATACTTGATC
* * *
1599501 CCTAGTATATGTAT-TGATTCTTAAGG-ATG--AT-
65 CTTGGCATATGTATATGATTCTTAAGGAATGATATG
1599532 TGGTCCTT-ATGGACATTATATAT
1 TGGTCCTTCA-GGACA-TATATAT
1599555 GGCACTACGA
Statistics
Matches: 198, Mismatches: 11, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
96 13 0.07
97 24 0.12
98 27 0.14
99 55 0.28
100 57 0.29
101 22 0.11
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (100 bp):
TGGTCCTTCAGGACATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACAATACTTGATCC
TTGGCATATGTATATGATTCTTAAGGAATGATATG
Found at i:1599603 original size:23 final size:22
Alignment explanation
Indices: 1599555--1599605 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1599545 CATTATATAT
*
1599555 GGCACTACGATGCAATCTACGC
1 GGCACTACGATGCAATCTACGA
* *
1599577 GGCACTACGGTGCAATTCTATGA
1 GGCACTACGATGCAA-TCTACGA
1599600 GGCACT
1 GGCACT
1599606 TCGGCATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.22
Consensus pattern (22 bp):
GGCACTACGATGCAATCTACGA
Found at i:1600451 original size:38 final size:36
Alignment explanation
Indices: 1600369--1600451 Score: 85
Period size: 38 Copynumber: 2.2 Consensus size: 36
1600359 GTGTCATATG
* * * *
1600369 TTATTATATGTGACATGATCTACATGATTATATGTA
1 TTATAATATGTGACATGAACTACATGAATATATGAA
* *
1600405 TATGTAATATGTGATATTGAACTACATGAATATATGAAA
1 T-TATAATATGTGACA-TGAACTACATGAATATATG-AA
1600444 TTATAATA
1 TTATAATA
1600452 CAAGTTATGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
36 1 0.03
37 11 0.30
38 23 0.62
39 2 0.05
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (36 bp):
TTATAATATGTGACATGAACTACATGAATATATGAA
Found at i:1601009 original size:22 final size:22
Alignment explanation
Indices: 1600979--1601039 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
1600969 GGGTCTACGC
*
1600979 GGTCCTTCGGGACAAATACAGA
1 GGTCATTCGGGACAAATACAGA
*
1601001 GGTCATTCGGGACAAATACATA
1 GGTCATTCGGGACAAATACAGA
*
1601023 GGTCATTCGGGAAAAAT
1 GGTCATTCGGGACAAAT
1601040 TTCACATGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.21
Consensus pattern (22 bp):
GGTCATTCGGGACAAATACAGA
Found at i:1601350 original size:6 final size:6
Alignment explanation
Indices: 1601339--1601397 Score: 66
Period size: 6 Copynumber: 9.8 Consensus size: 6
1601329 AATGTATTAC
* * * *
1601339 ATGATA ATGATA TTGATA ATGATA TTGATA TTGATA ATGATA GA-GATC
1 ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA -ATGATA
1601387 ATGATA ATGAT
1 ATGATA ATGAT
1601398 GTTGGTATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
5 1 0.02
6 43 0.96
7 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (6 bp):
ATGATA
Found at i:1601362 original size:18 final size:18
Alignment explanation
Indices: 1601339--1601397 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
1601329 AATGTATTAC
1601339 ATGATAATGATATTGATA
1 ATGATAATGATATTGATA
*
1601357 ATGATATTGATATTGATA
1 ATGATAATGATATTGATA
1601375 ATGATAGA-GATCA-TGATA
1 ATGATA-ATGAT-ATTGATA
1601393 ATGAT
1 ATGAT
1601398 GTTGGTATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
18 36 0.97
19 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (18 bp):
ATGATAATGATATTGATA
Found at i:1601409 original size:18 final size:18
Alignment explanation
Indices: 1601346--1601409 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
1601336 TACATGATAA
*
1601346 TGATATTGATAATGATAT
1 TGATATTGATAATGATGT
1601364 TGATATTGATAATGATAG-
1 TGATATTGATAATGAT-GT
*
1601382 AGATCA-TGATAATGATGT
1 TGAT-ATTGATAATGATGT
*
1601400 TGGTATTGAT
1 TGATATTGAT
1601410 GGTATATGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.05
18 35 0.92
19 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.41
Consensus pattern (18 bp):
TGATATTGATAATGATGT
Found at i:1603603 original size:130 final size:129
Alignment explanation
Indices: 1603370--1603718 Score: 520
Period size: 130 Copynumber: 2.7 Consensus size: 129
1603360 ATTAGTTTTT
* **
1603370 GAATTATTATACGACCTTGCGGTGACCTGATCCGGGGTACAATCCACATTATTATGGTTCGGACT
1 GAATTATTATACGACCTTGTGGTGACC-GATCCGGGGTATGATCCACATTATTATGGTTCGGACT
*
1603435 CTGTTAACATCTAACCGCTAACTTTTAACCACTAACTTTTTATTTATGTATTTTATTTTATGTTC
65 CTGTTAACATCTAACCGCTAACTTTTAACCACTAACTTTTTATTTATGTATTTTAGTTTATGTTC
* ** * * *
1603500 GAATTATTATACAACCTTGTGGTGACTCGATATGGGGTATGATACGCATTATTATGGTTCAGACT
1 GAATTATTATACGACCTTGTGGTGAC-CGATCCGGGGTATGATCCACATTATTATGGTTCGGACT
*
1603565 CTGTTAACATCTAATCGCTAACTTTTAACCACTAACTTTTTATTTATGTATTTTAGTTTATGTTC
65 CTGTTAACATCTAACCGCTAACTTTTAACCACTAACTTTTTATTTATGTATTTTAGTTTATGTTC
*
1603630 GAATTATTATACGACCTTGTGGTGACCCGATCCGGGGTATGATCCACATTATTACGGTAT-GGAC
1 GAATTATTATACGACCTTGTGGTGA-CCGATCCGGGGTATGATCCACATTATTATGGT-TCGGAC
*
1603694 TCTGCTAACATTTCTAACCGCTAAC
64 TCTGTTAACA--TCTAACCGCTAAC
1603719 CGCTAACTTT
Statistics
Matches: 194, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
130 179 0.92
131 3 0.02
132 12 0.06
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (129 bp):
GAATTATTATACGACCTTGTGGTGACCGATCCGGGGTATGATCCACATTATTATGGTTCGGACTC
TGTTAACATCTAACCGCTAACTTTTAACCACTAACTTTTTATTTATGTATTTTAGTTTATGTTC
Found at i:1603945 original size:14 final size:14
Alignment explanation
Indices: 1603928--1603963 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1603918 ATTTTATTTA
*
1603928 TTTAATTTCAGTCC
1 TTTAATTTCAGTAC
*
1603942 TTTAATTTCATTAC
1 TTTAATTTCAGTAC
1603956 TTTAATTT
1 TTTAATTT
1603964 ATATTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTAATTTCAGTAC
Found at i:1609437 original size:2 final size:2
Alignment explanation
Indices: 1609430--1609478 Score: 55
Period size: 2 Copynumber: 24.5 Consensus size: 2
1609420 GTATTTGCAT
* **
1609430 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA CG TA TA GT- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
1609472 TA TA TA T
1 TA TA TA T
1609479 TATTTATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
1 1 0.03
2 37 0.95
3 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1611077 original size:28 final size:29
Alignment explanation
Indices: 1610982--1611077 Score: 131
Period size: 29 Copynumber: 3.3 Consensus size: 29
1610972 TGTTGCATTT
*
1610982 ATTCCCCGTTCTGACATTACATGAGATTT
1 ATTCCCCGTTCTGACATTACATGAGATTA
* *
1611011 ATTCCCCGTTCTGACACTACATGTGATTA
1 ATTCCCCGTTCTGACATTACATGAGATTA
* * *
1611040 ATTCCTCGTTCTGACATTGCATG-GGTTA
1 ATTCCCCGTTCTGACATTACATGAGATTA
1611068 ATTCCCCGTT
1 ATTCCCCGTT
1611078 TTGTTCTGTT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 13 0.22
29 46 0.78
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.38
Consensus pattern (29 bp):
ATTCCCCGTTCTGACATTACATGAGATTA
Found at i:1620774 original size:20 final size:20
Alignment explanation
Indices: 1620737--1620774 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1620727 TTTATCAGAT
*
1620737 ATGGAACTATTGATGAGCTG
1 ATGGAACTATTGAAGAGCTG
1620757 ATGGAACT-TGTGAAGAGC
1 ATGGAACTAT-TGAAGAGC
1620775 CTCCATGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (20 bp):
ATGGAACTATTGAAGAGCTG
Found at i:1622159 original size:245 final size:245
Alignment explanation
Indices: 1621729--1622220 Score: 984
Period size: 245 Copynumber: 2.0 Consensus size: 245
1621719 TGTACTGATG
1621729 GAAAATTCCTCTGTACACAAGCAAGATGCAAAATAGTGGTTCTTTGTCACAAGTTTTCAGTCGAA
1 GAAAATTCCTCTGTACACAAGCAAGATGCAAAATAGTGGTTCTTTGTCACAAGTTTTCAGTCGAA
1621794 TCCTCCATATTTGAGAATTTACACCATCTCCTTTTTCAAAAAAGAAAAAAAGAGAAGAAAGTTTC
66 TCCTCCATATTTGAGAATTTACACCATCTCCTTTTTCAAAAAAGAAAAAAAGAGAAGAAAGTTTC
1621859 TTTGTTCTCACTGTATGGCCTATTTTTACAAAAGGTTTGTGAAAAGAAGAAAAGTATCTTTTTCA
131 TTTGTTCTCACTGTATGGCCTATTTTTACAAAAGGTTTGTGAAAAGAAGAAAAGTATCTTTTTCA
1621924 GATGATGGATTCTCTTGGCATAGCTATTAATAGTCGTCTTGCATCAAAAT
196 GATGATGGATTCTCTTGGCATAGCTATTAATAGTCGTCTTGCATCAAAAT
1621974 GAAAATTCCTCTGTACACAAGCAAGATGCAAAATAGTGGTTCTTTGTCACAAGTTTTCAGTCGAA
1 GAAAATTCCTCTGTACACAAGCAAGATGCAAAATAGTGGTTCTTTGTCACAAGTTTTCAGTCGAA
1622039 TCCTCCATATTTGAGAATTTACACCATCTCCTTTTTCAAAAAAGAAAAAAAGAGAAGAAAGTTTC
66 TCCTCCATATTTGAGAATTTACACCATCTCCTTTTTCAAAAAAGAAAAAAAGAGAAGAAAGTTTC
1622104 TTTGTTCTCACTGTATGGCCTATTTTTACAAAAGGTTTGTGAAAAGAAGAAAAGTATCTTTTTCA
131 TTTGTTCTCACTGTATGGCCTATTTTTACAAAAGGTTTGTGAAAAGAAGAAAAGTATCTTTTTCA
1622169 GATGATGGATTCTCTTGGCATAGCTATTAATAGTCGTCTTGCATCAAAAT
196 GATGATGGATTCTCTTGGCATAGCTATTAATAGTCGTCTTGCATCAAAAT
1622219 GA
1 GA
1622221 CATTCCGTTG
Statistics
Matches: 247, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
245 247 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (245 bp):
GAAAATTCCTCTGTACACAAGCAAGATGCAAAATAGTGGTTCTTTGTCACAAGTTTTCAGTCGAA
TCCTCCATATTTGAGAATTTACACCATCTCCTTTTTCAAAAAAGAAAAAAAGAGAAGAAAGTTTC
TTTGTTCTCACTGTATGGCCTATTTTTACAAAAGGTTTGTGAAAAGAAGAAAAGTATCTTTTTCA
GATGATGGATTCTCTTGGCATAGCTATTAATAGTCGTCTTGCATCAAAAT
Found at i:1625641 original size:16 final size:16
Alignment explanation
Indices: 1625595--1625642 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
1625585 AACTTAGTTA
1625595 AAATATTAT-TATAAAT
1 AAATATTATATA-AAAT
*
1625611 AAGTATTA-A-AAAAT
1 AAATATTATATAAAAT
1625625 AAATATTATATAAAAT
1 AAATATTATATAAAAT
1625641 AA
1 AA
1625643 TAATGTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 11 0.41
15 2 0.07
16 14 0.52
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATATTATATAAAAT
Found at i:1625785 original size:23 final size:24
Alignment explanation
Indices: 1625741--1625786 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1625731 AATCTTATTA
*
1625741 ATTTAATCTTTATTCTTTTAAATT
1 ATTTAATCTTTATTCTTATAAATT
*
1625765 ATTTATTCTTTA-TCTTATAAAT
1 ATTTAATCTTTATTCTTATAAAT
1625787 GTTATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTTAATCTTTATTCTTATAAATT
Found at i:1630695 original size:16 final size:16
Alignment explanation
Indices: 1630671--1630708 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1630661 TCCGATTTGT
*
1630671 TATTGACCTGA-TCTGA
1 TATTTACCTGACT-TGA
1630687 TATTTACCTGACTTGA
1 TATTTACCTGACTTGA
1630703 TATTTA
1 TATTTA
1630709 TCTAACTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (16 bp):
TATTTACCTGACTTGA
Found at i:1631162 original size:27 final size:27
Alignment explanation
Indices: 1631131--1631216 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 27
1631121 GGAAATTTAT
1631131 AGGGAAATTGGGAAATTTTGGGAATAG
1 AGGGAAATTGGGAAATTTTGGGAATAG
*
1631158 AGGGAAATTAGG-AA-TTT----AT--
1 AGGGAAATTGGGAAATTTTGGGAATAG
**
1631177 A-GGAAATTGAAAAATTTTGGGAATAG
1 AGGGAAATTGGGAAATTTTGGGAATAG
1631203 AGGGAAATTGGGAA
1 AGGGAAATTGGGAA
1631217 GATGGAACCA
Statistics
Matches: 44, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
18 7 0.16
19 3 0.07
20 3 0.07
21 2 0.05
24 2 0.05
25 3 0.07
26 3 0.07
27 21 0.48
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.26
Consensus pattern (27 bp):
AGGGAAATTGGGAAATTTTGGGAATAG
Found at i:1631192 original size:45 final size:46
Alignment explanation
Indices: 1631124--1631216 Score: 152
Period size: 45 Copynumber: 2.0 Consensus size: 46
1631114 TTTATTTGGA
**
1631124 AATTTATAGGGAAATTGGGAAATTTTGGGAATAGAGGGAAATTAGG
1 AATTTATAGGGAAATTGAAAAATTTTGGGAATAGAGGGAAATTAGG
*
1631170 AATTTATA-GGAAATTGAAAAATTTTGGGAATAGAGGGAAATTGGG
1 AATTTATAGGGAAATTGAAAAATTTTGGGAATAGAGGGAAATTAGG
1631215 AA
1 AA
1631217 GATGGAACCA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 36 0.82
46 8 0.18
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (46 bp):
AATTTATAGGGAAATTGAAAAATTTTGGGAATAGAGGGAAATTAGG
Found at i:1631580 original size:15 final size:15
Alignment explanation
Indices: 1631525--1631572 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
1631515 TACATGCGTA
*
1631525 TATATACTTATAT-CA
1 TATATA-TTATATACT
1631540 TATAGT-TTATATACT
1 TATA-TATTATATACT
1631555 TATATATTATATACT
1 TATATATTATATACT
1631570 TAT
1 TAT
1631573 GCTATATAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 7 0.24
15 21 0.72
16 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (15 bp):
TATATATTATATACT
Found at i:1633224 original size:112 final size:112
Alignment explanation
Indices: 1633015--1633563 Score: 913
Period size: 112 Copynumber: 4.9 Consensus size: 112
1633005 TTATCGGTTT
* * *
1633015 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACATGT-AAAAAATGATAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
1633079 GATCTATAAATGACAAAACAGGTAAAGCACTACCGGATATATTGAAA
66 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
1633126 GTGACGATACTTTATAAAAATATATTGATCTATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
1633191 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
66 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
1633238 GTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
1633302 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
66 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
1633349 CTGTCGATACTTTATAAAAATATATCGATCCATAACAAATATAACAGGTAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAAC-AATATAACAGGTAAAAAAATGACAAAAC
* *
1633414 CGATCTATAAATAACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
65 CGATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
1633462 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATTGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
1633527 GATCTATAAATAACAAAACAGGTAAAGCGCTACCGGA
66 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGA
1633564 AAAGTTGATG
Statistics
Matches: 414, Mismatches: 21, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
111 138 0.33
112 181 0.44
113 95 0.23
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:1633773 original size:182 final size:182
Alignment explanation
Indices: 1633459--1633915 Score: 686
Period size: 182 Copynumber: 2.5 Consensus size: 182
1633449 AGATATATTG
* *
1633459 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA-ATTGACAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATTCATAACAATATAACATGTAAAAATA-TGACAA
* ** * * **
1633523 AACCGATCTATAAATAACAAAACAGGTAAAGCGCTACCGGAAAAGTTGATGGTGTCGATATTTTA
65 AACCGATATCGAAATAACAAAACCGGTAAAGAGCTACCGGAAAAGTTGAAAGTGTCGATATTTTA
* *
1633588 TTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTACAGCG-CTAAT
130 TTATAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTACAGCGTC-AAT
*
1633641 AAAGTGCCGATACTTTATAAAAATGTATCGATTCATAACAATATAACATGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATTCATAACAATATAACATGTAAAAATATGACAAA
* * *
1633706 ACCGATATCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATATTTTAT
66 ACCGATATCGAAATAACAAAACCGGTAAAGAGCTACCGGAAAAGTTGAAAGTGTCGATATTTTAT
*
1633771 TATAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGTCAAT
131 TATAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTACAGCGTCAAT
*
1633823 AAAGTGTCGATATTTTATAAAAATGTATCGA-TCAATAACAATATAACATGTAAAAATATGACAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATTC-ATAACAATATAACATGTAAAAATATGACAA
* * *
1633887 AATCGATTTCGAAATAACAAAATCGGTAA
65 AACCGATATCGAAATAACAAAACCGGTAA
1633916 TAAAAAAGTG
Statistics
Matches: 250, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
181 2 0.01
182 246 0.98
183 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATTCATAACAATATAACATGTAAAAATATGACAAA
ACCGATATCGAAATAACAAAACCGGTAAAGAGCTACCGGAAAAGTTGAAAGTGTCGATATTTTAT
TATAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTACAGCGTCAAT
Found at i:1635681 original size:2 final size:2
Alignment explanation
Indices: 1635674--1635727 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
1635664 AACATGCTAC
1635674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1635716 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1635728 TTTGAGCAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1640273 original size:2 final size:2
Alignment explanation
Indices: 1640266--1640321 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
1640256 AGCTCATGCG
1640266 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1640307 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1640322 ACTCAATAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1643660 original size:30 final size:35
Alignment explanation
Indices: 1643625--1643702 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
1643615 TTAATTTTGA
1643625 AAAATTATTATAA-ATAAAA-A-AATATATA-TTT
1 AAAATTATTATAATATAAAATAGAATATATATTTT
*
1643656 -AAATTCTTAATAATATAAAATTGAGAATATATATTTT
1 AAAATTATT-ATAATATAAAA-T-AGAATATATATTTT
1643693 AAAATTATTA
1 AAAATTATTA
1643703 CATCAGGTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
30 7 0.19
31 4 0.11
32 6 0.16
35 1 0.03
36 8 0.22
37 4 0.11
38 7 0.19
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (35 bp):
AAAATTATTATAATATAAAATAGAATATATATTTT
Found at i:1648297 original size:11 final size:11
Alignment explanation
Indices: 1648281--1648314 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1648271 GGTTTGTAGT
1648281 TATTATTATTA
1 TATTATTATTA
1648292 TATTATTATTA
1 TATTATTATTA
1648303 T-TTATTTATTA
1 TATTA-TTATTA
1648314 T
1 T
1648315 TTTTTTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 3 0.14
11 19 0.86
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATTATTATTA
Found at i:1648299 original size:14 final size:14
Alignment explanation
Indices: 1648280--1648315 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1648270 CGGTTTGTAG
1648280 TTATTATTA-TTAT
1 TTATTATTATTTAT
1648293 ATTATTATTATTTAT
1 -TTATTATTATTTAT
1648308 TTATTATT
1 TTATTATT
1648316 TTTTTGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTATTATTTAT
Found at i:1648328 original size:3 final size:3
Alignment explanation
Indices: 1648322--1648373 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
1648312 TATTTTTTTG
* *
1648322 ATA ATA ATA ATA AT- ATA TATA ATA ATT ATA ATT ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
1648367 ATA ATA A
1 ATA ATA A
1648374 ACAAATAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:1649107 original size:223 final size:226
Alignment explanation
Indices: 1648646--1649711 Score: 1742
Period size: 223 Copynumber: 4.8 Consensus size: 226
1648636 TCTTGATGAG
*
1648646 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT-TTCATTATGAACTTTTTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT-ATTATGAACTTTCTCT
* * * *
1648710 GG-AAAGGCTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAA---TTCTCATTATGA
65 GGCAAA-GCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGA
* * *
1648771 ACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTTTCTCTGGCAAAGCTAATCCAT
129 ATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCAT
1648836 CAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
194 CAAGTGATGGATTCAGGCAAAAGGTTGAACAAA
*
1648869 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1648934 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
1648999 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCA
* *
1649064 AGCGATGGATTCAAGCAAAAGGTTGAACAAA
196 AGTGATGGATTCAGGCAAAAGGTTGAACAAA
1649095 TTC-T-TC-TTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1649157 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
*
1649222 TTCTTCTTCCTTCTTCAGAGGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCA
1649287 AGTGATGGATTCAGGCAAAAGGTTGAACAAA
196 AGTGATGGATTCAGGCAAAAGGTTGAACAAA
* *
1649318 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAGGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
*
1649383 GCAAAGCTAATCCATCAAGTGATGGATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
1649448 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCA
*
1649513 AGTGATGTATTCAGGCAAAAGGTTGAACAAA
196 AGTGATGGATTCAGGCAAAAGGTTGAACAAA
* * * ****
1649544 TTC-T-TC-TTATGAACTTCTTCTTCCTTCTTCAGAGGAGTTTTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
* * * * * *
1649606 GAAAAGATAATCCATCAAGTGATAGATT-TGAACAAAAGGTTGGACAAATTCTTCTCATTATGAA
66 GCAAAGCTAATCCATCAAGTGATGGATTCAG-GCAAAAGGTTGAACAAATTCTTCTCATTATGAA
* *
1649670 TTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
130 TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACT
1649712 CGAACTGGTA
Statistics
Matches: 798, Mismatches: 36, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
223 461 0.58
224 10 0.01
225 4 0.01
226 323 0.40
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (226 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
GCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTAATCCATCA
AGTGATGGATTCAGGCAAAAGGTTGAACAAA
Done.