Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002355.1 Hibiscus syriacus cultivar Beakdansim tig00004807_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: 56575
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:377 original size:170 final size:169
Alignment explanation
Indices: 8--829 Score: 694
Period size: 170 Copynumber: 4.8 Consensus size: 169
1 TACTTTT
* * *
8 ATATAATTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGC-CCTATAAAGTGACGCTA
1 ATATAAGTATCGACACTTTTGGAATTTAAAAGAAAAG-AGTTATAGCGCCTATAAAGTGTCG--A
* * * * *
72 CTTTAAAAAATGGATCGATCCAT-ACATATAACAGGTAAAAATATGA-TAAACCAGTCTCAAA-A
63 CTTTAAAAAATGTATCGATCCATAACATATAACA-GTAAAAATATGACAAAAACGGTCTCAAATG
* ** * *
134 ACAAAACGGTAACGCTACCGGATATGTTGAAAGTGTCGATAATTTA
127 ACAAAACAGTAAAACTA---TAGATGTTGAAAGTGTCGATAATTTA
* * * *
180 TTATAAGTATCGACCCTTTCT-GAATTTAAAAGAAAAGAGTTATAGCGCCTAAAAAGTGTCGACA
1 ATATAAGTATCGACACTTT-TGGAATTTAAAAGAAAAGAGTTATAGCGCCTATAAAGTGTCGACT
* * *
244 ATGAAAAATGTATCGATCCATAACA-ATAACAGCTAAAAATATGACAAAATCGGTCTCAAATGAC
65 TTAAAAAATGTATCGATCCATAACATATAACAG-TAAAAATATGACAAAAACGGTCTCAAATGAC
* *
308 AAAACAGAAATAACTATTAGATGTTGAAAGTGT-GATATTTTA
129 AAAACAGTAA-AACTA-TAGATGTTGAAAGTGTCGATAATTTA
* * * *
350 ATATAATTATC-ATCACTTTTGGAATTT-AAAGAAGA-AGTTATAACGCCTATAAAGTGTCAATA
1 ATATAAGTATCGA-CACTTTTGGAATTTAAAAGAAAAGAGTTATAGCGCCTATAAAGTGTC--GA
* * *
412 CTTTTTAAAAAATG--TCGATCTATAACAATATAACATGTAAAAATATGACAAAAAAGGTCTAAA
63 C--TTTAAAAAATGTATCGATCCATAAC-ATATAACA-GTAAAAATATGACAAAAACGGTCT-CA
* * *
475 AATGACAAAAACCG---GA-TATCG-TGTTGAAAGTGTCGATAATTTA
123 AATGAC-AAAACAGTAAAACTATAGATGTTGAAAGTGTCGATAATTTA
* *
518 ATATAA-TATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTAT-GCGCCTA-AAAATGTCGACA
1 ATATAAGTATCGACACTTTTGGAATTTAAAAGAAAAG-AGTTATAGCGCCTATAAAGTGTCG--A
** *
580 CTTTATGAAATGTATCGATCC--AACA-ATAACAGCTAAAAATATGACAAAATC-GTCTCAAATG
63 CTTTAAAAAATGTATCGATCCATAACATATAACAG-TAAAAATATGACAAAAACGGTCTCAAATG
** * *
641 ACAAAACAAGTAATAACTACCGGATATTTGAAAGTGTCGATACTTTA
127 ACAAAAC-AGTAA-AACTA-TAGAT-GTTGAAAGTGTCGATAATTTA
* * *
688 ATAT-AGTATCGACATTTTTGGAATTTAAAGAGAAGAAG-TTTATAGCGCCTATATA--GTCGAT
1 ATATAAGTATCGACACTTTTGGAATTTAAA-AGAA-AAGAGTTATAGCGCCTATAAAGTGTCG--
* *
749 ACTTTAAAAAAATGTATCGATCTATAACAATATAACAGT-AAAATATGATAAAAACTGGTCTCAA
62 ACTTT-AAAAAATGTATCGATCCATAAC-ATATAACAGTAAAAATATGACAAAAAC-GGTCTC-A
*
813 AATGACAAAACGGTAAA
123 AATGACAAAACAGTAAA
830 GCGCTACCGG
Statistics
Matches: 532, Mismatches: 68, Indels: 98
0.76 0.10 0.14
Matches are distributed among these distances:
161 5 0.01
162 8 0.02
163 5 0.01
164 22 0.04
165 1 0.00
166 13 0.02
167 32 0.06
168 60 0.11
169 20 0.04
170 144 0.27
171 63 0.12
172 93 0.17
173 29 0.05
174 9 0.02
175 16 0.03
176 12 0.02
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (169 bp):
ATATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAGTTATAGCGCCTATAAAGTGTCGACTT
TAAAAAATGTATCGATCCATAACATATAACAGTAAAAATATGACAAAAACGGTCTCAAATGACAA
AACAGTAAAACTATAGATGTTGAAAGTGTCGATAATTTA
Found at i:710 original size:337 final size:337
Alignment explanation
Indices: 158--822 Score: 915
Period size: 337 Copynumber: 2.0 Consensus size: 337
148 CTACCGGATA
* *
158 TGTTGAAAGTGTCGATAATTTATTATAAGTATCGACCCTTTCTGAATTTAAAAGAAAAGAGTTAT
1 TGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAAAAGAGTTAT
223 AGCGCCTAAAAAGTGTCGACAATGAAAAATGTATCGATCCATAACAATAACAGCTAAAAATATGA
66 AGCGCCTAAAAAGTGTCGACAATGAAAAATGTATCGATCCA-AACAATAACAGCTAAAAATATGA
** *
288 CAAAATCGGTCTCAAATGACAAAACAGAAATAACTATTAGATGTTGAAAGTGTGATATTTTAATA
130 CAAAATCGGTCTCAAATGACAAAACAGAAATAACTACCAGATGTTGAAAGTGTGATACTTTAATA
*
353 TAATTATCATCACTTTTGGAATTT-AA-AGAAGAAG-TTATAACGCCTATAAAGTGTCAATACTT
195 TAAGTATCATCACTTTTGGAATTTAAAGAGAAGAAGTTTATAACGCCTATAAA--GTCAATAC-T
*
415 TTTAAAAAATG-TCGATCTATAACAATATAACATGTAAAAATATGACAAAAA-AGGTCTAAAAAT
257 TTAAAAAAATGATCGATCTATAACAATATAACA-GT-AAAATATGACAAAAACAGGTCTAAAAAT
478 GACAAAAACCGGATATCG
320 GACAAAAACCGGATATCG
*
496 TGTTGAAAGTGTCGATAATTTAATATAA-TATCGACACTTT-TGGAATTTAAAAGAGAAGAAGTT
1 TGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCT-GAATTTAAAAGAAAAG-AGTT
* * *
559 AT-GCGCCTAAAAA-TGTCGACACTTTATGAAATGTATCGATCC-AACAATAACAGCTAAAAATA
64 ATAGCGCCTAAAAAGTGTCGACA-ATGA-AAAATGTATCGATCCAAACAATAACAGCTAAAAATA
* * *
621 TGACAAAATC-GTCTCAAATGACAAAACAAGTAATAACTACCGGATATTTGAAAGTGTCGATACT
127 TGACAAAATCGGTCTCAAATGACAAAAC-AGAAATAACTACCAGAT-GTTGAAAGTGT-GATACT
* * * *
685 TTAATAT-AGTATCGA-CATTTTTGGAATTTAAAGAGAAGAAGTTTATAGCGCCTATATAGTCGA
189 TTAATATAAGTATC-ATCACTTTTGGAATTTAAAGAGAAGAAGTTTATAACGCCTATAAAGTCAA
* * *
748 TACTTTAAAAAAATGTATCGATCTATAACAATATAACAGTAAAATATGATAAAAACTGGTCTCAA
253 TACTTTAAAAAAATG-ATCGATCTATAACAATATAACAGTAAAATATGACAAAAACAGGTCTAAA
813 AATGACAAAA
317 AATGACAAAA
823 CGGTAAAGCG
Statistics
Matches: 292, Mismatches: 21, Indels: 28
0.86 0.06 0.08
Matches are distributed among these distances:
335 17 0.06
336 52 0.18
337 92 0.32
338 88 0.30
339 29 0.10
340 14 0.05
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (337 bp):
TGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAAAAGAGTTAT
AGCGCCTAAAAAGTGTCGACAATGAAAAATGTATCGATCCAAACAATAACAGCTAAAAATATGAC
AAAATCGGTCTCAAATGACAAAACAGAAATAACTACCAGATGTTGAAAGTGTGATACTTTAATAT
AAGTATCATCACTTTTGGAATTTAAAGAGAAGAAGTTTATAACGCCTATAAAGTCAATACTTTAA
AAAAATGATCGATCTATAACAATATAACAGTAAAATATGACAAAAACAGGTCTAAAAATGACAAA
AACCGGATATCG
Found at i:1306 original size:17 final size:19
Alignment explanation
Indices: 1248--1313 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
1238 TTTTATTTTA
*
1248 ATATTATATGTAAAAAATG
1 ATATTATAGGTAAAAAATG
1267 ATATTATAGGTAAAAAAAT-
1 ATATTATAGGT-AAAAAATG
*
1286 ATATTAT-GGT-AGAAATG
1 ATATTATAGGTAAAAAATG
*
1303 ATATTTTAGGT
1 ATATTATAGGT
1314 TGTATAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 5 0.12
17 6 0.15
18 6 0.15
19 17 0.41
20 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (19 bp):
ATATTATAGGTAAAAAATG
Found at i:2589 original size:23 final size:22
Alignment explanation
Indices: 2536--2589 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
2526 ATGTTTTTAT
* *
2536 TTTATTTTTATATAAATGATAG
1 TTTATTATTATATAAATGATAC
*
2558 TATAGTTATTATATAAATGATAAC
1 TTTA-TTATTATATAAATGAT-AC
2582 TTTATTAT
1 TTTATTAT
2590 AAGTACAGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.12
23 19 0.73
24 4 0.15
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (22 bp):
TTTATTATTATATAAATGATAC
Found at i:2650 original size:18 final size:18
Alignment explanation
Indices: 2629--2667 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
2619 AGTCGGGCTG
2629 TGATAGTTTGTCGGCTTA
1 TGATAGTTTGTCGGCTTA
2647 TGATAGTTTGTCGGCTTA
1 TGATAGTTTGTCGGCTTA
2665 TGA
1 TGA
2668 AAGAAACGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.18, C:0.10, G:0.28, T:0.44
Consensus pattern (18 bp):
TGATAGTTTGTCGGCTTA
Found at i:2861 original size:18 final size:18
Alignment explanation
Indices: 2838--2875 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2828 GTTATTGGCA
2838 AGGAGGTAGAAGAGACAG
1 AGGAGGTAGAAGAGACAG
* *
2856 AGGAGGTAGAGGAGGCAG
1 AGGAGGTAGAAGAGACAG
2874 AG
1 AG
2876 AAGGCAGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.50, T:0.05
Consensus pattern (18 bp):
AGGAGGTAGAAGAGACAG
Found at i:4797 original size:19 final size:18
Alignment explanation
Indices: 4751--4799 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4741 AAATGTAGGG
4751 TTAATTTTGTATAAGATT
1 TTAATTTTGTATAAGATT
** *
4769 TTTTTTTTGTATACGATT
1 TTAATTTTGTATAAGATT
4787 TATAATTTTGTAT
1 T-TAATTTTGTAT
4800 GTGAATGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (18 bp):
TTAATTTTGTATAAGATT
Found at i:5825 original size:199 final size:199
Alignment explanation
Indices: 5171--6654 Score: 2113
Period size: 199 Copynumber: 7.5 Consensus size: 199
5161 ATAAACTTAT
*
5171 GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT-ATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
5235 GGTAAATTAACAATGTAACCGGTCTAAATATACCGATTTTTAAGAAAATAAGTGTACAAAAA-TA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
*
5299 TCGACAC-TA-AAAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTCAAAACCAAGTGCACT-
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
5360 AAAA
196 AAAA
* * * *
5364 GTGTCGATATATTTATAAC-AGTGTCGATTCCAAAAACATCG-AACCCATAATTATGATATAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
5427 GGTAAATTAACAATTTAACCGGTCTAAATATATCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
* **
5492 TCAACAC-AATAAAAC-AGTGTCGATAC-TTTGGTATAGAATGTATTTCAAAACC-AGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
5553 AAAA
196 AAAA
* ** *
5557 GTATCGATACATTTATAGGAAGTGTTGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
5622 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAATAAGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
* * ** * **
5687 TCGACATAACTAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTGAACCAAATGCACGG
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
5752 AAAA
196 AAAA
* * * *
5756 TTGTCGATACACTTATAACAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATGATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
5821 GGTAAATTAACAATTTAA-CGGTCTAAATATACC-GATTTTGAGGAAAACATGTGTAC-AAAAGT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGA-GAAAACATGTGTACAAAAAGT
5883 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
130 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
5948 AAAAA
195 AAAAA
* * * * * *
5953 GTGTTGATACATTTATAAGAAGTGTCGATCCCAAAAATATTGAATCCTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* ** *
6018 GGTAAATTAGCAATGTAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTACAAAAAAGT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTAC-AAAAAGT
* ** * *
6083 ATCGACACAACTAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTTAACCAAGGGCACG
130 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
6148 AAAAA
195 AAAAA
* *
6153 GTGTCGATACATTTATAACAATTGTCGATCCC-AAAATATCGAAACCCATAATTATGAA-GTAAT
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT-AATGTAAT
* * *
6216 AGGTAAATTAACAATTTAACTGGTCTAAATATACCGGTTTTTTAGAAAACATGTGTACAAAAAGT
65 AGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGT
6281 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
130 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
6346 AAAAA
195 AAAAA
*
6351 GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
6416 GGTAAATTAACAATGTAACCAGTCTAAATATATCGGTTTATGAGAAAACATTTATACATAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
** ** * * *
6481 TCGACACAAATCCAACAAGTGTCGATACTTTTTATCCATAGTGTATTTTAAAAACCAAGTGCAC-
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTTCAAAACCAAGTGCACT
6545 AACAAA
195 AA-AAA
*
6551 GTTTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
6616 GGTAAATTAACAATGTAACAGGTATAAAAATACTGGTTT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTT
6655 AATTTGAAAA
Statistics
Matches: 1148, Mismatches: 122, Indels: 35
0.88 0.09 0.03
Matches are distributed among these distances:
191 13 0.01
192 106 0.09
193 65 0.06
194 25 0.02
195 85 0.07
196 7 0.01
197 158 0.14
198 181 0.16
199 290 0.25
200 218 0.19
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAA
Found at i:6298 original size:595 final size:588
Alignment explanation
Indices: 5171--6648 Score: 2137
Period size: 595 Copynumber: 2.5 Consensus size: 588
5161 ATAAACTTAT
5171 GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATATGTAATAG
1 GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATATGTAATAG
* * * *
5236 GTAAATTAACAATGTAACCGGTCTAAATATACCGATTTTTAAGAAAATAAGTGTACAAAAATATC
66 GTAAATTAACAATGTAACCGGTCTAAATATACCGA-TTTTGAGAAAACATGTGTACAAAAGTATC
*
5301 GACAC-TA-AAAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTCAAAACCAAGTGCACT-AA
130 GACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAA
* * * * * *
5362 AAGTGTCGATATATTTATAACAGTGTCGATTCCAAAAACATCGAACCCATAATTATGATATAATA
195 AAGTGTTGATACATTTATAAAAGTGTCGATCCCAAAAACATCGAACCCATAATTATAATGTAATA
* * **
5427 GGTAAATTAACAATTTAACCGGTCTAAATATATCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
260 GGTAAATTAACAATGTAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTACAAAAAGTA
* * *
5492 TCAACACAATAAAACAGTGTCGATACTTTGGTATAGAATGTATTTCAAAACCAGTGCACTAAAAA
325 TCAACACAATAAAACAGTGTCGATACTTTGGTACAGAATGTATTTCAAAACCAGGGCACGAAAAA
** *
5557 GTATCGATACATTTATAGGAAGTGTTGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
390 GTATCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
5622 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAATAAGTGTACAAAAAGTA
455 GGTAAATTAACAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTA
* * ** *
5687 TCGACATAACTAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTGAACCAAATGCACGG
520 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACGA
5752 AAAA
585 AAAA
* * * *
5756 TTGTCGATACACTTATAACAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATGATGTAATA
1 GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT-ATGTAATA
*
5821 GGTAAATTAACAATTTAA-CGGTCTAAATATACCGATTTTGAGGAAAACATGTGTACAAAAGTAT
65 GGTAAATTAACAATGTAACCGGTCTAAATATACCGATTTTGA-GAAAACATGTGTACAAAAGTAT
5885 CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
129 CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
* * *
5950 AAAGTGTTGATACATTTATAAGAAGTGTCGATCCCAAAAATATTGAATCCTATAATTATAATGTA
194 AAAGTGTTGATACATTTATAA-AAGTGTCGATCCCAAAAACATCGAA-CCCATAATTATAATGTA
*
6015 ATAGGTAAATTAGCAATGTAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTACAAAAA
257 ATAGGTAAATTAACAATGTAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTAC-AAAA
* * **
6080 AGTATCGACACAACTAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTTAACCAAGGGC
321 AGTATCAACACAA-TAAAAC-AGTGTCGATAC-TTTGGTACAGAATGTATTTCAAAACC-AGGGC
* * *
6145 ACGAAAAAGTGTCGATACATTTATAACAATTGTCGATCCC-AAAATATCGAAACCCATAATTATG
382 ACGAAAAAGTATCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT-
* * * *
6209 AA-GTAATAGGTAAATTAACAATTTAACTGGTCTAAATATACCGGTTTTTTAGAAAACATGTGTA
446 AATGTAATAGGTAAATTAACAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTA
6273 CAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCA
511 CAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCA
* *
6338 AGTGCACTAAAAA
576 AATGCACGAAAAA
6351 GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT-ATGTAATA
* * * * *
6416 GGTAAATTAACAATGTAACCAGTCTAAATATATCGGTTTATGAGAAAACATTTATACATAAAGTA
65 GGTAAATTAACAATGTAACCGGTCTAAATATACCGATTT-TGAGAAAACATGTGTACA-AAAGTA
** ** * * *
6481 TCGACACAAATCCAACAAGTGTCGATACTTTTTATCCATAGTGTATTTTAAAAACCAAGTGCAC-
128 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTTCAAAACCAAGTGCACT
6545 AACAAAGT-TTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAA
192 AA-AAAGTGTT-GATACATTTATAA-AAGTGTCGATCCCAAAAACATCG-AACCCATAATTATAA
* * *
6609 TGTAATAGGTAAATTAACAATGTAACAGGTATAAAAATAC
253 TGTAATAGGTAAATTAACAATGTAACCGGTCTAAATATAC
6649 TGGTTTAATT
Statistics
Matches: 796, Mismatches: 76, Indels: 29
0.88 0.08 0.03
Matches are distributed among these distances:
584 5 0.01
585 94 0.12
586 26 0.03
587 34 0.04
588 18 0.02
589 20 0.03
590 21 0.03
591 69 0.09
592 16 0.02
593 6 0.01
594 11 0.01
595 248 0.31
596 70 0.09
597 52 0.07
598 104 0.13
599 2 0.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.28
Consensus pattern (588 bp):
GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATATGTAATAG
GTAAATTAACAATGTAACCGGTCTAAATATACCGATTTTGAGAAAACATGTGTACAAAAGTATCG
ACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAA
AGTGTTGATACATTTATAAAAGTGTCGATCCCAAAAACATCGAACCCATAATTATAATGTAATAG
GTAAATTAACAATGTAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTACAAAAAGTAT
CAACACAATAAAACAGTGTCGATACTTTGGTACAGAATGTATTTCAAAACCAGGGCACGAAAAAG
TATCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
GTAAATTAACAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTAT
CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACGAA
AAA
Found at i:7018 original size:15 final size:15
Alignment explanation
Indices: 6998--7026 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6988 TCTTTCTCAA
6998 AGCTCTTCTCAACCC
1 AGCTCTTCTCAACCC
7013 AGCTCTTCTCAACC
1 AGCTCTTCTCAACC
7027 ACAACCTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.45, G:0.07, T:0.28
Consensus pattern (15 bp):
AGCTCTTCTCAACCC
Found at i:7370 original size:2 final size:2
Alignment explanation
Indices: 7363--7390 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7353 ATGGGGAAGG
7363 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
7391 CTCCGGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9918 original size:21 final size:21
Alignment explanation
Indices: 9892--9945 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
9882 TGCACGAAAA
9892 AAGTGTCGATACATTTATAAC
1 AAGTGTCGATACATTTATAAC
*
9913 AAGTGTCGATACATTTATAAT
1 AAGTGTCGATACATTTATAAC
9934 AAGTGTCGATAC
1 AAGTGTCGATAC
9946 TAAAAACATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
AAGTGTCGATACATTTATAAC
Found at i:10234 original size:179 final size:178
Alignment explanation
Indices: 9934--10497 Score: 717
Period size: 179 Copynumber: 3.1 Consensus size: 178
9924 CATTTATAAT
* *
9934 AAGTGTCGATACTAAAAACATCGAAATACATAGATATAATGTAATAGGTAAAATAACAATGTAAC
1 AAGTGTCGATACTAAAAACATTGAAACACATAGATATAATGTAATAGGTAAAATAACAATGTAAC
*
9999 CGGCCTAAATGTACCGATTTTTGAGAAAACATGTATACATAAAGTATCGACACAAATACAATAAG
66 CGGCCTAAATATACCGATTTTTGAGAAAACATGTATACATAAAGTATCGACACAAATACAATAAG
*
10064 TGTCGATACTTTTTGTCCAGCGTGTATTTTATAAACCAAGTGCACTAAC
131 TGTCGATACTTTTTGTCCAGCGTGTATTTTAAAAACCAAGTGCAC-AAC
* *
10113 AAGTGTCGATACTAAAAACATTGAAACACATAGATATAATGTAATAGGTAAAATAATAATATAAC
1 AAGTGTCGATACTAAAAACATTGAAACACATAGATATAATGTAATAGGTAAAATAACAATGTAAC
* *
10178 CGGCCTAAATATACCGGTTTTTGAGAAAACAAGTATACATAAAGTATCGACACAAATACAATAAG
66 CGGCCTAAATATACCGATTTTTGAGAAAACATGTATACATAAAGTATCGACACAAATACAATAAG
10243 TGTCGATACTTTTTGTCCAGTC-TGTATTTTAAAAACCAAGTGCACAAC
131 TGTCGATACTTTTTGTCCAG-CGTGTATTTTAAAAACCAAGTGCACAAC
* * *
10291 AAGTGTCGATACATTTAATAAGTGTCGATTCCAAAAACATCGAAACCCATA-ATTATAATATAAT
1 AAGTGTCGATAC---TAA-AA------A---C----A-TT-GAAACACATAGA-TATAATGTAAT
* * * *
10355 AGGTAAATTAACAATGTAACCGGTCTAAATATACCGATTTATGAG-AAACATGTATATATAAAGT
46 AGGTAAAATAACAATGTAACCGGCCTAAATATACCGATTTTTGAGAAAACATGTATACATAAAGT
* *
10419 ATCGACACAAATGA-AACAAGTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTG--
111 ATCGACACAAAT-ACAATAAGTGTCGATACTTTTTGTCCAGCGTGTATTTTAAAAACCAAGTGCA
10481 CAAC
175 CAAC
10485 AAAGTGTCGATAC
1 -AAGTGTCGATAC
10498 ATTTATAACA
Statistics
Matches: 340, Mismatches: 21, Indels: 32
0.87 0.05 0.08
Matches are distributed among these distances:
178 15 0.04
179 165 0.49
180 1 0.00
181 3 0.01
182 2 0.01
188 1 0.00
191 1 0.00
194 4 0.01
195 13 0.04
196 76 0.22
197 59 0.17
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (178 bp):
AAGTGTCGATACTAAAAACATTGAAACACATAGATATAATGTAATAGGTAAAATAACAATGTAAC
CGGCCTAAATATACCGATTTTTGAGAAAACATGTATACATAAAGTATCGACACAAATACAATAAG
TGTCGATACTTTTTGTCCAGCGTGTATTTTAAAAACCAAGTGCACAAC
Found at i:10513 original size:197 final size:196
Alignment explanation
Indices: 10109--11022 Score: 978
Period size: 197 Copynumber: 4.6 Consensus size: 196
10099 CCAAGTGCAC
* * * * * *
10109 TAACAAGTGTCGATACTAAAAACATTGAAACACATAGA-TATAATGTAATAGGTAAAATAATAAT
1 TAACAAGTGTCGATCCCAAAAACATCGAAACCCATA-ATTATAATGTAATAGGTAAATTAACAAT
* * *
10173 ATAACCGGCCTAAATATACCGGTTTTTGAGAAAACAAGTATACATAAAGTATCGACACAAATACA
65 GTAACCGGTCTAAATATACCGGTTTATGAGAAAAC-AGTATACATAAAGTATCGACACAAATA-A
* **
10238 ATAAGTGTCGATACTTTTTGTCCAGTCTGTATTTTAAAAACCAAGTGC-ACAACAAGTGTCGATA
128 ACAAGTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCAAC-A-AAGTGTCGATA
10302 CA-TT-
191 CATTTA
* * *
10306 TAATAAGTGTCGATTCCAAAAACATCGAAACCCATAATTATAATATAATAGGTAAATTAACAATG
1 TAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATG
* *
10371 TAACCGGTCTAAATATACCGATTTATGAG-AAACATGTATATATAAAGTATCGACACAAATGAAA
66 TAACCGGTCTAAATATACCGGTTTATGAGAAAACA-GTATACATAAAGTATCGACACAAAT-AAA
10435 CAAGTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCAACAAAGTGTCGATACAT
129 CAAGTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCAACAAAGTGTCGATACAT
10500 TTA
194 TTA
* *
10503 TAACAAGTGTCGATCCCAAAAACATCGAAACCCATCATTATAATGTAATATGTAAATTAACAATG
1 TAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATG
* * * * *
10568 TAACTGGTATAAATATATCGGTTTATGAGAAAACAATATACATAAAGTATCGACACAAATCTAAC
66 TAACCGGTCTAAATATACCGGTTTATGAGAAAACAGTATACATAAAGTATCGACACAAAT-AAAC
* * *
10633 AAGTGTCGATACTTATTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTTTTGATACA
130 AAGTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTG--CAACAAAGTGTCGATACA
10698 TTTA
193 TTTA
*
10702 TAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATG
1 TAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATG
* * * * * * * * ** **
10767 TAACCGGTTTAAATTTACCGGTTTTATGATAAAATAGGTCTAAATAATGTATCAACACTTTATTT
66 TAACCGGTCTAAATATACCGG-TTTATGAGAAAACA-GTATACATAAAGTATCGACAC-AAATAA
*** * * * * *** * * * *
10832 ATTTGTGTCGATACTTTTTATCCATAATG-AATTCCCAAACTATGTACACGCTTAAAGTGTCGAT
128 ACAAGTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCA-AC--AAAGTGTCGAT
10896 ACATTTAA
190 ACATTT-A
* * * * * * * * * *
10904 TAA-AAGTATCGACCCCAAATACATAGATACCGAAAATTATAATGTAATAGGTCACTTTACAATG
1 TAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATG
* * * * * *
10968 TAACCGGTTTAAATTTACCAGTTTTATGAGAAAATAGGTCTACATAATGTATCGA
66 TAACCGGTCTAAATATACC-GGTTTATGAGAAAACA-GTATACATAAAGTATCGA
11023 TACTTTTTAC
Statistics
Matches: 621, Mismatches: 79, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
195 14 0.02
196 78 0.13
197 238 0.38
198 7 0.01
199 100 0.16
200 22 0.04
201 155 0.25
202 7 0.01
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (196 bp):
TAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATG
TAACCGGTCTAAATATACCGGTTTATGAGAAAACAGTATACATAAAGTATCGACACAAATAAACA
AGTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCAACAAAGTGTCGATACATTT
A
Found at i:10946 original size:201 final size:199
Alignment explanation
Indices: 10291--11248 Score: 717
Period size: 199 Copynumber: 4.8 Consensus size: 199
10281 AGTGCACAAC
* * ** * * * *
10291 AAGTGTCGATACATTTA-ATAAGTGTCGATTCCAAAAACATCGAAACCCATAATTATAATATAAT
1 AAGTGTCGATACATTTATAAAAGTATCGACCCCAAATACATCGAAACCAAAAATTATAATGTAAT
* * * * * * *
10355 AGGTAAATTAACAATGTAACCGGTCTAAATATACC-GATTTATGAGAAACAT--GTATATATAAA
66 AGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAA-ATAGGTCTAAATAAT
*** * *** * * ** * *** * * *
10417 GTATCGACACAAATGAAACAAGTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGC
130 GTATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCATA-ACTA-ATCCCAAACGATGTAC
*
10482 A---ACA
193 ACGCATA
* * * * **
10486 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATCATTATAATGTAA
1 AAGTGTCGATACATTTATAA-AAGTATCGACCCCAAATACATCGAAACCAAAAATTATAATGTAA
* * * * * * * * * * *
10551 TATGTAAATTAACAATGTAACTGGTATAAATATATCGG-TTTATGAGAAAACA-ATATACATAAA
65 TAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAATAAT
** * * * * * ** * *** * *
10614 GTATCGACACAAATCTAACA--AGTGTCGATACTTATTGTCCAGAGTGTATTTTAAAAACCAAGT
130 GTATCGACAC-TTTTTAA-ATTTGTGTCGATACTTTTTATCCATA-ACTA-ATCCCAAACGATGT
* * *
10677 GCAC-AACA
191 ACACGCATA
* * * * * * *
10685 AAGTTTTGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAA-AAGTATCGACCCCAAATACATCGAAACCAAAAATTATAATGTAA
*
10750 TAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGATAAAATAGGTCTAAATAAT
65 TAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAATAAT
* * *
10815 GTATCAACACTTTATT-TATTTGTGTCGATACTTTTTATCCATAA-TGAATTCCCAAACTATGTA
130 GTATCGACACTTT-TTAAATTTGTGTCGATACTTTTTATCCATAACT-AA-TCCCAAACGATGTA
*
10878 CACGCTTA
192 CACGCATA
* * *
10886 AAGTGTCGATACATTTAATAAAAGTATCGACCCCAAATACATAGATACCGAAAATTATAATGTAA
1 AAGTGTCGATACATTT-ATAAAAGTATCGACCCCAAATACATCGAAACCAAAAATTATAATGTAA
* * * *
10951 TAGGTCACTTTACAATGTAACCGGTTTAAATTTACCAGTTTTATGAGAAAATAGGTCTACATAAT
65 TAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAATAAT
* * * * * * * *
11016 GTATCGATACTTTTTACATTTGTGTCGATA-ATTATGTCCATAACTAATGCCAACCGATGTCCAC
130 GTATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCATAACTAATCCCAAACGATGTACAC
11080 GCATA
195 GCATA
* *
11085 AAGTTTCGATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCAAAAATTATAATGTAA
1 AAGTGTCGATACATTTAT-AAAAGTATCGACCCCAAATACATCGAAACCAAAAATTATAATGTAA
* * * * *
11150 TAGGTTAATTTACAATGTAACCGGTTGAAATTTACTGGTGTAAT-AGAAAATAGGTC-AACATAA
65 TAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAA-ATAA
* *
11213 TGTGTCGACACTTTTTAAATTCGTGTCGATACTTTT
129 TGTATCGACACTTTTTAAATTTGTGTCGATACTTTT
11249 AAAATTACGC
Statistics
Matches: 648, Mismatches: 93, Indels: 40
0.83 0.12 0.05
Matches are distributed among these distances:
195 17 0.03
196 2 0.00
197 149 0.23
198 50 0.08
199 214 0.33
200 39 0.06
201 173 0.27
202 4 0.01
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (199 bp):
AAGTGTCGATACATTTATAAAAGTATCGACCCCAAATACATCGAAACCAAAAATTATAATGTAAT
AGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAATAATG
TATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCATAACTAATCCCAAACGATGTACACG
CATA
Found at i:11174 original size:199 final size:201
Alignment explanation
Indices: 10485--11244 Score: 734
Period size: 199 Copynumber: 3.8 Consensus size: 201
10475 CAAGTGCAAC
* * * * * * **
10485 AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATCATTATAATGTA
1 AAAGTTTCGATACATTTATAAAAAGTATCGACCCCAAATACATCGAAACCAAAAATTATAATGTA
* * * * * * * * *
10550 ATATGTAAATTAACAATGTAACTGGTATAAATATATCGG-TTTATGAGAAAACA-ATATACATAA
66 ATAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAA
* ** * * * * * * *** * *
10613 AGTATCGACACAAATCTAACA--AGTGTCGATAC-TTATTGTCCAGAGTGTATTTTAAAAACCAA
131 TGTATCGACAC-TTTTTAA-ATTTGTGTCGATACATTA-TATCCATAATG-AATTCCCAAACGAT
* * *
10675 GTGCAC-AAC
192 GTACACGCAT
* * * * * * *
10684 AAAGTTTTGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
1 AAAGTTTCGATACATTTATAAAAAGTATCGACCCCAAATACATCGAAACCAAAAATTATAATGTA
* *
10749 ATAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGATAAAATAGGTCTAAATAA
66 ATAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAA
* * * * *
10814 TGTATCAACACTTTATT-TATTTGTGTCGATACTTTTTATCCATAATGAATTCCCAAACTATGTA
131 TGTATCGACACTTT-TTAAATTTGTGTCGATACATTATATCCATAATGAATTCCCAAACGATGTA
*
10878 CACGCTT
195 CACGCAT
* * * *
10885 AAAGTGTCGATACATTTA-ATAAAAGTATCGACCCCAAATACATAGATACCGAAAATTATAATGT
1 AAAGTTTCGATACATTTATA-AAAAGTATCGACCCCAAATACATCGAAACCAAAAATTATAATGT
* * *
10949 AATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCAGTTTTATGAGAAAATAGGTCTACATA
65 AATAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACATA
* * * * *
11014 ATGTATCGATACTTTTTACATTTGTGTCGATA-ATTATGTCCATAACT-AA-TGCCAACCGATGT
130 ATGTATCGACACTTTTTAAATTTGTGTCGATACATTATATCCATAA-TGAATTCCCAAACGATGT
*
11076 CCACGCAT
194 ACACGCAT
*
11084 AAAGTTTCGATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCAAAAATTATAATGTA
1 AAAGTTTCGATACATTTATAAAAAGTATCGACCCCAAATACATCGAAACCAAAAATTATAATGTA
* * * * * *
11149 ATAGGTTAATTTACAATGTAACCGGTTGAAATTTACTGGTGTAAT-AGAAAATAGGTCAACATAA
66 ATAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAA
* *
11213 TGTGTCGACACTTTTTAAATTCGTGTCGATAC
131 TGTATCGACACTTTTTAAATTTGTGTCGATAC
11245 TTTTAAAATT
Statistics
Matches: 472, Mismatches: 77, Indels: 24
0.82 0.13 0.04
Matches are distributed among these distances:
198 45 0.10
199 209 0.44
200 42 0.09
201 174 0.37
202 2 0.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (201 bp):
AAAGTTTCGATACATTTATAAAAAGTATCGACCCCAAATACATCGAAACCAAAAATTATAATGTA
ATAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAA
TGTATCGACACTTTTTAAATTTGTGTCGATACATTATATCCATAATGAATTCCCAAACGATGTAC
ACGCAT
Found at i:11240 original size:21 final size:21
Alignment explanation
Indices: 11214--11254 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11204 TCAACATAAT
*
11214 GTGTCGACACTTTTTAAATTC
1 GTGTCGACACTTTTAAAATTC
*
11235 GTGTCGATACTTTTAAAATT
1 GTGTCGACACTTTTAAAATT
11255 ACGCGTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (21 bp):
GTGTCGACACTTTTAAAATTC
Found at i:15379 original size:23 final size:23
Alignment explanation
Indices: 15353--15410 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
15343 GGTTAAATGT
*
15353 CTATTTTATTATATAAGCGCTAC
1 CTATTATATTATATAAGCGCTAC
15376 CTATTATATTATATAAGCGCTAC
1 CTATTATATTATATAAGCGCTAC
* *
15399 CTAATATGTTAT
1 CTATTATATTAT
15411 TGTGCTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (23 bp):
CTATTATATTATATAAGCGCTAC
Found at i:15436 original size:87 final size:87
Alignment explanation
Indices: 15276--15437 Score: 261
Period size: 87 Copynumber: 1.9 Consensus size: 87
15266 AAATAGGTCA
15276 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
**
15341 CCGGTTAAATGTCTATTTTATT
66 CCAATTAAATGTCTATTTTATT
* * *
15363 ATATAAGCGCTACCTATTATATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
**
15428 TTAATTAAAT
66 CCAATTAAAT
15438 AATATAACAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCAATTAAATGTCTATTTTATT
Found at i:21223 original size:14 final size:14
Alignment explanation
Indices: 21201--21231 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21191 TCAACAACCG
21201 GTGACATAAGAGGA
1 GTGACATAAGAGGA
*
21215 GTGATATAAGAGGA
1 GTGACATAAGAGGA
21229 GTG
1 GTG
21232 TGTTTGTGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.39, T:0.19
Consensus pattern (14 bp):
GTGACATAAGAGGA
Found at i:21816 original size:23 final size:23
Alignment explanation
Indices: 21769--21818 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
21759 AATAACATAT
**
21769 TAGGTAGCACTTATATAATGTAA
1 TAGGTAGCACTTATATAATACAA
**
21792 TAGGTAGCGTTTATATAATACAA
1 TAGGTAGCACTTATATAATACAA
21815 TAGG
1 TAGG
21819 CATTTAACCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (23 bp):
TAGGTAGCACTTATATAATACAA
Found at i:21873 original size:23 final size:23
Alignment explanation
Indices: 21847--21894 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
21837 ATCAAGTACA
21847 ATAA-CAAATTAGGTAGCGCTTAT
1 ATAATCAAA-TAGGTAGCGCTTAT
**
21870 ATAATGTAATAGGTAGCGCTTAT
1 ATAATCAAATAGGTAGCGCTTAT
21893 AT
1 AT
21895 TGACCTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAATCAAATAGGTAGCGCTTAT
Found at i:21878 original size:87 final size:87
Alignment explanation
Indices: 21732--21894 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
21722 TATGTTATAT
*
21732 CATTTAACCAGAAATATTATCAAGCACAATAACATATTAGGTAGCACTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATTATCAAGCACAATAACAAATTAGGTAGCACTTATATAATGTAATAGGT
*
21797 AGCGTTTATATAATACAATAGG
66 AGCGCTTATATAATACAATAGG
* * *
21819 CATTTAACCGGAAATATTATCAAGTACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATTATCAAGCACAATAACAAATTAGGTAGCACTTATATAATGTAATAGGT
21884 AGCGCTTATAT
66 AGCGCTTATAT
21895 TGACCTATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (87 bp):
CATTTAACCAGAAATATTATCAAGCACAATAACAAATTAGGTAGCACTTATATAATGTAATAGGT
AGCGCTTATATAATACAATAGG
Found at i:22388 original size:200 final size:196
Alignment explanation
Indices: 21889--22412 Score: 576
Period size: 200 Copynumber: 2.6 Consensus size: 196
21879 TAGGTAGCGC
* * * * *
21889 TTATATTGACCTATTTTCTCATAAAACCGGTAAATTTAAACCGGTTACATTATAAATTGACCTAT
1 TTATGTTGACCTA-TTTCTCAT-AAACCGGTATATTT-TACCGGTTACATTGTAAATTTACCTAT
* * ** * *
21954 TACATTATAAATATCGGTTTCGATG-TTTTCGGAATCGATACAATTTT-AAATGTATCGACACTT
63 TACATTATAATTATCGGTATCTTTGATTTTCGGGATCGATAC-TTTTTAAAATGTATCGACACTT
* * * * * *
22017 TATGCGTGCAACTCGTTTGTGCTTTATTTTGGAAAAAAGTATCGACATATATTTAAAGAGTGTCG
127 TATGCGTACAACTCGTTTGTCCTTTATTTTGGAAAAAAGTATCGACACAAATTAAAAAAGTGTCG
22082 ATACA
192 ATACA
* * * * * *
22087 TAATGTAGACCTATTTGCTAATTAACCGGTATATTTTAACTGGTTACATTGTAAATTTACCTGTT
1 TTATGTTGACCTATTT-CTCATAAACCGGTATATTTT-ACCGGTTACATTGTAAATTTACCTATT
* *
22152 ACATAATAATTATC-G-AT-TTTGATGTTTCGAGGATCGAAACTTTTTACAAATGTATCGACACT
64 ACATTATAATTATCGGTATCTTTGAT-TTTCG-GGATCGATACTTTTTA-AAATGTATCGACACT
* *
22214 TTATGCGTACACCTCGTTTG-CCATTTTATTTTGGAAAAATGTATCGACACAAATTAAAAAAGTG
126 TTATGCGTACAACTCGTTTGTCC--TTTATTTTGGAAAAAAGTATCGACACAAATTAAAAAAGTG
*
22278 TCGATACT
189 TCGATACA
* *
22286 TTATGTTGACCTATTCTCTCATGAACCCGGTATATTTCTACCGGTTACATTGGAAATTTACCTAT
1 TTATGTTGACCTATT-TCTCAT-AAACCGGTATATTT-TACCGGTTACATTGTAAATTTACCTAT
* *
22351 TACATTATAATTATCGGTCTCTTTGATTTT-GGGATCGATACTTGTTATAAATGTATCGACAC
63 TACATTATAATTATCGGTATCTTTGATTTTCGGGATCGATACTTTTTA-AAATGTATCGACAC
22413 AAAATCTAAC
Statistics
Matches: 270, Mismatches: 41, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
194 2 0.01
195 2 0.01
196 10 0.04
197 59 0.22
198 47 0.17
199 59 0.22
200 78 0.29
201 3 0.01
202 4 0.01
203 6 0.02
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (196 bp):
TTATGTTGACCTATTTCTCATAAACCGGTATATTTTACCGGTTACATTGTAAATTTACCTATTAC
ATTATAATTATCGGTATCTTTGATTTTCGGGATCGATACTTTTTAAAATGTATCGACACTTTATG
CGTACAACTCGTTTGTCCTTTATTTTGGAAAAAAGTATCGACACAAATTAAAAAAGTGTCGATAC
A
Found at i:26029 original size:177 final size:176
Alignment explanation
Indices: 25792--26151 Score: 657
Period size: 177 Copynumber: 2.0 Consensus size: 176
25782 ACACAAATGT
25792 ATAAAGTATCGATACATTATGTATACTTTTTTTTAATAACCGGTATATTTAGACCGGTTACATTG
1 ATAAAGTATCGATACATTATGTATACTTTTTTTTAATAACCGGTATATTTAGACCGGTTACATTG
*
25857 TTATGTTACCTATTACATTATAATTACGGGTTTCAATGTTTTTGGGATCGACACTTGTTATAAAT
66 TTATGTTACCTATTACATTATAATTACGGGTTTCAATGTTTTTGGGATCAACACTTGTTATAAAT
25922 GTATAGACACTTTTTCGTGAACTTGTTTGAAAAATTTATTATGGAC
131 GTATAGACACTTTTTCGTGAACTTGTTTGAAAAATTTATTATGGAC
25968 ATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
1 ATAAAGTATCGATACATTATGTATA-CTTTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
* * *
26033 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCAACACTTGTTATAAA
65 GTTATGTTACCTATTACATTATAATTACGGGTTTCAATGTTTTTGGGATCAACACTTGTTATAAA
* *
26098 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGAC
130 TGTATAGACACTTTTTCGTGAACTTGTTTGAAAAATTTATTATGGAC
26145 ATAAAGT
1 ATAAAGT
26152 GTCAACACAA
Statistics
Matches: 177, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
176 25 0.14
177 152 0.86
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (176 bp):
ATAAAGTATCGATACATTATGTATACTTTTTTTTAATAACCGGTATATTTAGACCGGTTACATTG
TTATGTTACCTATTACATTATAATTACGGGTTTCAATGTTTTTGGGATCAACACTTGTTATAAAT
GTATAGACACTTTTTCGTGAACTTGTTTGAAAAATTTATTATGGAC
Found at i:26244 original size:200 final size:199
Alignment explanation
Indices: 25968--26682 Score: 863
Period size: 198 Copynumber: 3.6 Consensus size: 199
25958 TATTATGGAC
*
25968 ATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAAC-CGGTATATTTAGACCGGTTACAT
1 ATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACATGGTATATTTAGACCGGTTACAT
* *
26032 TGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCAACACTTGTTATAA
66 TGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAA
** * *
26097 ATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCAACACAA
131 ATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATACATTATGGACATAAAGTATCGACACAA
26162 ATGT
196 ATGT
*
26166 ATAAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACAT-GTATATTTAGACCAGTTAC
1 ATAAAGTATCGATACATTATGTATACC-TT-TTTTTTAATAACATGGTATATTTAGACCGGTTAC
* *
26230 ATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATATTTTTGGGATCGACACTTGTTAT
64 ATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTAT
* * * * *
26295 AAATATATCAACATTTTTTTCGTGCACTTGGTTTGG-AAATACATTCTGGACAT---GTATCGAC
129 AAATGTATCGACA-CTTTTTCGTGAACTT-GTTTGGAAAATACATTATGGACATAAAGTATCGAC
*
26356 ACAAATGA
192 ACAAATGT
* * * * * * * * * *
26364 ATAAAGTGTCGAAACA-TATTGTAGACATATTTTCTCATAAAACTGGTAAATTTAAACCGGTTAC
1 ATAAAGTATCGATACATTA-TGTATACCTTTTTTTTAATAACA-TGGTATATTTAGACCGGTTAC
* * * * * * * *
26428 ATTATAAAGTGACCTATTGCATTATAGTTACGGGTTTCGATGTTTTTGGGATCGACACTTGATAT
64 ATTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTAT
* *
26493 AAATGTATCGACACTTATTT-GTGAATTTGTTTTGGTTGGAAAATACATTATGGACACAAAGTAT
129 AAATGTATCGACACTT-TTTCGTGAACTTG---T--TTGGAAAATACATTATGGACATAAAGTAT
26557 CGACACAAATGT
188 CGACACAAATGT
* * * * *
26569 ATAAAGTGTCGATACTTTATGTATACCTCTTTTCTCATAA-ATCGGTATATTTAGACCGGTTACA
1 ATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACAT-GGTATATTTAGACCGGTTACA
* *
26633 TTGTTATTTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGA
65 TTGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
26683 CCCTTATCAT
Statistics
Matches: 438, Mismatches: 59, Indels: 34
0.82 0.11 0.06
Matches are distributed among these distances:
196 11 0.03
197 12 0.03
198 145 0.33
199 3 0.01
200 104 0.24
201 31 0.07
202 21 0.05
203 1 0.00
204 61 0.14
205 47 0.11
206 2 0.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (199 bp):
ATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACATGGTATATTTAGACCGGTTACAT
TGTTATGTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAA
ATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATACATTATGGACATAAAGTATCGACACAA
ATGT
Found at i:28163 original size:6 final size:6
Alignment explanation
Indices: 28119--28176 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
28109 CTTGTTTGGA
* * * * * *
28119 TCATCA TCATCA TCATCA TCATCT TCTTCT TCTTCT TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
28167 TCATCT TCAT
1 TCATCT TCAT
28177 TGACCGCTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.19, C:0.33, G:0.02, T:0.47
Consensus pattern (6 bp):
TCATCT
Found at i:29328 original size:15 final size:15
Alignment explanation
Indices: 29308--29360 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
29298 TGATTTCCTC
*
29308 AGAAGAGCTGGTTTG
1 AGAAGAGCTGGGTTG
*
29323 AGAAGAGGTGGGTTG
1 AGAAGAGCTGGGTTG
* *
29338 AGAAGAGATAGGTTG
1 AGAAGAGCTGGGTTG
*
29353 CGAAGAGC
1 AGAAGAGC
29361 CCCGATTCTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.43, T:0.19
Consensus pattern (15 bp):
AGAAGAGCTGGGTTG
Found at i:30168 original size:185 final size:187
Alignment explanation
Indices: 29853--30982 Score: 1543
Period size: 198 Copynumber: 5.8 Consensus size: 187
29843 AAAACGTATC
*
29853 GACACAAATTAAA-AGAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCAGTGTATTTA
1 GACACAAATTAAATA-AGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATTTA
* **
29917 GACCGGTTAGATTCATAATTTATCTATTACATTATAATTATGGGTCTCGATGTTTTTGATATCGA
65 GACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGA
*
29982 TACTTGTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCT-G-
130 TACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTAGA
* *
30038 GACACAAATTAAATAAGTGTTGATACTTTATGTACACATGTTTTCTCATAAACCGGTGTATTTAG
1 GACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATTTAG
30103 ACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGAT
66 ACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGAT
* * *
30168 ACTTTTTATAAATATATCGATACATTTCCATGCACTTGGTAAGGAAATCATTATGGACACAAAGT
131 ACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCA-T-T-----C-TAG-
30233 A
187 A
* * * *
30234 TCGAAACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGATGTATTT
1 --GACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATTT
* *
30299 AGACCGATTAGATTCATAATTTACATATTACATTATAATTATGGGTCTCGAT-TGTTTTGGGATC
64 AGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGT-TTTTGGGATC
* *
30363 GATATTTTTTATAAATGTATCGACATATTTCCATGCACTTGGTAAGGAAATCATTCTAGACACAA
128 GATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTAG------
30428 A
187 A
* *
30429 GTATCGACAAAAATTAAATAAGTGTTGATACTTTATGTACACCTGTTTTCTCATAGACCGGTGTA
1 G-A-C-AC--AAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTA
* *
30494 TTTAGATCGGTTAGATTCATAATTTACCTATTACATTGTAATTATGGGTCTCGATGTTTTTGGGA
61 TTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGA
*
30559 TCGATACTTTTTATAAATGTATCGACACATTTACATGCACTTGGTAAGGAAATCATTCTGGACAC
126 TCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCT------
30624 AAAGTA
185 --AG-A
* *
30630 TTGACACAAATTAAATAAGTGTCGATACTTTATGTACACATGTTTTCTCATAAACTGGTGTATTT
1 --GACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATTT
* *
30695 AGACCAGTTATATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCG
64 AGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCG
*
30760 ATACTTTTTATAAATGTATCAACACATTT-CATGCACTTGGTAAGGAAATCATTCTGGACACAAA
129 ATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCT--------A
30824 GTA
186 G-A
30827 TCGACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAA-CGGTGTATTT
1 --GACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATTT
*
30891 AGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTTGATGTTTTTGGGATCG
64 AGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCG
30956 ATACTTTTTATAAATGTATCGACACAT
129 ATACTTTTTATAAATGTATCGACACAT
30983 ATGTTTATCA
Statistics
Matches: 855, Mismatches: 54, Indels: 61
0.88 0.06 0.06
Matches are distributed among these distances:
185 169 0.20
186 2 0.00
187 1 0.00
190 2 0.00
191 1 0.00
192 1 0.00
193 1 0.00
194 2 0.00
195 1 0.00
196 100 0.12
197 92 0.11
198 474 0.55
199 1 0.00
200 2 0.00
201 2 0.00
202 1 0.00
203 1 0.00
206 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.38
Consensus pattern (187 bp):
GACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATTTAG
ACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGAT
ACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTAGA
Found at i:30395 original size:198 final size:198
Alignment explanation
Indices: 30041--30982 Score: 1595
Period size: 198 Copynumber: 4.8 Consensus size: 198
30031 CATTCTGGAC
* *
30041 ACAAATTAAATAAGTGTTGATACTTTATGTACACATGTTTTCTCATAAACCGGTGTATTTAGACC
1 ACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATTTAGACC
30106 GGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGATACT
66 GGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGATACT
* * *
30171 TTTTATAAATATATCGATACATTTCCATGCACTTGGTAAGGAAATCATTATGGACACAAAGTATC
131 TTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTGGACACAAAGTATC
30236 GAA
196 GAA
* * *
30239 ACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGATGTATTTAGACC
1 ACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATTTAGACC
* * *
30304 GATTAGATTCATAATTTACATATTACATTATAATTATGGGTCTCGAT-TGTTTTGGGATCGATAT
66 GGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGT-TTTTGGGATCGATAC
* *
30368 TTTTTATAAATGTATCGACATATTTCCATGCACTTGGTAAGGAAATCATTCTAGACACAAAGTAT
130 TTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTGGACACAAAGTAT
30433 CGACA
195 CGA-A
* * *
30438 A-AAATTAAATAAGTGTTGATACTTTATGTACACCTGTTTTCTCATAGACCGGTGTATTTAGATC
1 ACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATTTAGACC
*
30502 GGTTAGATTCATAATTTACCTATTACATTGTAATTATGGGTCTCGATGTTTTTGGGATCGATACT
66 GGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGATACT
* *
30567 TTTTATAAATGTATCGACACATTTACATGCACTTGGTAAGGAAATCATTCTGGACACAAAGTATT
131 TTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTGGACACAAAGTATC
*
30632 GAC
196 GAA
* *
30635 ACAAATTAAATAAGTGTCGATACTTTATGTACACATGTTTTCTCATAAACTGGTGTATTTAGACC
1 ACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATTTAGACC
* *
30700 AGTTATATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGATACT
66 GGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGATACT
*
30765 TTTTATAAATGTATCAACACATTT-CATGCACTTGGTAAGGAAATCATTCTGGACACAAAGTATC
131 TTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTGGACACAAAGTATC
*
30829 GAC
196 GAA
30832 ACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAA-CGGTGTATTTAGACC
1 ACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATTTAGACC
*
30896 GGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTTGATGTTTTTGGGATCGATACT
66 GGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGATACT
30961 TTTTATAAATGTATCGACACAT
131 TTTTATAAATGTATCGACACAT
30983 ATGTTTATCA
Statistics
Matches: 696, Mismatches: 44, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
196 97 0.14
197 92 0.13
198 504 0.72
199 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (198 bp):
ACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTCTCATAAACCGGTGTATTTAGACC
GGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGATACT
TTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAATCATTCTGGACACAAAGTATC
GAA
Found at i:30623 original size:396 final size:391
Alignment explanation
Indices: 29833--30982 Score: 1819
Period size: 396 Copynumber: 2.9 Consensus size: 391
29823 TGACCATTTA
*
29833 CATTCTAGACA-AAACGTATCGACACAAATTAAAAGAGTGTCGATACTTTATGTACACCTGTTTT
1 CATTCTGGACACAAA-GTATCGACACAAATTAAAA-AGTGTCGATACTTTATGTACACCTGTTTT
*
29897 CTCATAAACC-AGTGTATTTAGACCGGTTAGATTCATAATTTATCTATTACATTATAATTATGGG
64 CTCATAAACCGA-TGTATTTAGACCGATTAGATTCATAATTTA-CTATTACATTATAATTATGGG
** *
29961 TCTCGATGTTTTTGATATCGATACTTGTTATAAATGTATCGACACATTTCCATGCACTTGGTAAG
127 TCTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAG
*
30026 GAAATCATTCTG-------G-A-C-AC-AAATTAAATAAGTGTTGATACTTTATGTACACATGTT
192 GAAATCATTCTGACACAAAGTATCGACAAAATTAAATAAGTGTTGATACTTTATGTACACCTGTT
30080 TTCTCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGG
257 TTCTCAT-AACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGG
* * *
30145 GTCTCGATGTTTTTGGGATCGATACTTTTTATAAATATATCGATACATTTCCATGCACTTGGTAA
321 GTCTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTACATGCACTTGGTAA
30210 GGAAAT
386 GGAAAT
* * *
30216 CATTATGGACACAAAGTATCGAAACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTC
1 CATTCTGGACACAAAGTATCGACACAAATT-AAAAAGTGTCGATACTTTATGTACACCTGTTTTC
30281 TCATAAACCGATGTATTTAGACCGATTAGATTCATAATTTACATATTACATTATAATTATGGGTC
65 TCATAAACCGATGTATTTAGACCGATTAGATTCATAATTTAC-TATTACATTATAATTATGGGTC
* *
30346 TCGAT-TGTTTTGGGATCGATATTTTTTATAAATGTATCGACATATTTCCATGCACTTGGTAAGG
129 TCGATGT-TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGG
30410 AAATCATTCTAGACACAAAGTATCGACAAAAATTAAATAAGTGTTGATACTTTATGTACACCTGT
193 AAATCATTCT-GACACAAAGTATCGAC-AAAATTAAATAAGTGTTGATACTTTATGTACACCTGT
* *
30475 TTTCTCATAGACCGGTGTATTTAGATCGGTTAGATTCATAATTTACCTATTACATTGTAATTATG
256 TTTCTCATA-ACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATG
30540 GGTCTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTACATGCACTTGGTA
320 GGTCTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTACATGCACTTGGTA
30605 AGGAAAT
385 AGGAAAT
* *
30612 CATTCTGGACACAAAGTATTGACACAAATTAAATAAGTGTCGATACTTTATGTACACATGTTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTAAA-AAGTGTCGATACTTTATGTACACCTGTTTTC
* * *
30677 TCATAAACTGGTGTATTTAGACC-AGTTATATTCATAATTTACCTATTACATTATAATTATGGGT
65 TCATAAACCGATGTATTTAGACCGA-TTAGATTCATAATTTA-CTATTACATTATAATTATGGGT
*
30741 CTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCAACACATTT-CATGCACTTGGTAAGG
128 CTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGG
*
30805 AAATCATTCTGGACACAAAGTATCGACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGT
193 AAATCATTCT-GACACAAAGTATCGACA-AAATTAAATAAGTGTTGATACTTTATGTACACCTGT
*
30870 TTTCTCATAAACGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGG
256 TTTCTCATAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGG
*
30935 GTCTTGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACAT
321 GTCTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACAT
30983 ATGTTTATCA
Statistics
Matches: 710, Mismatches: 33, Indels: 37
0.91 0.04 0.05
Matches are distributed among these distances:
382 2 0.00
383 180 0.25
384 8 0.01
391 1 0.00
392 1 0.00
393 1 0.00
394 103 0.15
395 90 0.13
396 322 0.45
397 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (391 bp):
CATTCTGGACACAAAGTATCGACACAAATTAAAAAGTGTCGATACTTTATGTACACCTGTTTTCT
CATAAACCGATGTATTTAGACCGATTAGATTCATAATTTACTATTACATTATAATTATGGGTCTC
GATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGAAA
TCATTCTGACACAAAGTATCGACAAAATTAAATAAGTGTTGATACTTTATGTACACCTGTTTTCT
CATAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTCTC
GATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTACATGCACTTGGTAAGGAAA
T
Found at i:31339 original size:19 final size:19
Alignment explanation
Indices: 31315--31364 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
31305 TTACATTCGC
*
31315 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
31334 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
31353 ATACAAAATTAA
1 ATACAAAATTAA
31365 CCCTACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:34640 original size:17 final size:17
Alignment explanation
Indices: 34618--34653 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
34608 GAATCATTAG
34618 GATTAATATCTTTTCAT
1 GATTAATATCTTTTCAT
34635 GATTAATATCTTTTCAT
1 GATTAATATCTTTTCAT
34652 GA
1 GA
34654 AATATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (17 bp):
GATTAATATCTTTTCAT
Found at i:35645 original size:22 final size:23
Alignment explanation
Indices: 35617--35672 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
35607 AACCTGAATT
35617 TATAATAAAAT-TAATCATTTTA
1 TATAATAAAATATAATCATTTTA
* *
35639 TATAATAACTATATCATCATTTTA
1 TATAATAA-AATATAATCATTTTA
*
35663 TATAAAAAAA
1 TATAATAAAA
35673 ACAAAAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (23 bp):
TATAATAAAATATAATCATTTTA
Found at i:36513 original size:25 final size:26
Alignment explanation
Indices: 36446--36507 Score: 110
Period size: 25 Copynumber: 2.5 Consensus size: 26
36436 GTGATGTAAG
36446 ATTCC-TTTTGAGCATCACTCATCGA
1 ATTCCATTTTGAGCATCACTCATCGA
36471 ATTCCA-TTTGAGCATCACTCATCGA
1 ATTCCATTTTGAGCATCACTCATCGA
36496 ATTCCATTTTGA
1 ATTCCATTTTGA
36508 CCTCACATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
25 30 0.86
26 5 0.14
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (26 bp):
ATTCCATTTTGAGCATCACTCATCGA
Found at i:37791 original size:20 final size:20
Alignment explanation
Indices: 37763--37810 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
37753 TAGCTTTTTT
*
37763 TACCAGTTTTATCAT-TTCGA
1 TACCTGTTTTATCATATTC-A
* *
37783 TACCTGTTTTGTCATATTCT
1 TACCTGTTTTATCATATTCA
37803 TACCTGTT
1 TACCTGTT
37811 ATATTTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.50
Consensus pattern (20 bp):
TACCTGTTTTATCATATTCA
Found at i:37800 original size:184 final size:180
Alignment explanation
Indices: 37550--38200 Score: 824
Period size: 184 Copynumber: 3.6 Consensus size: 180
37540 ATTAAAGTAC
* * * * *
37550 CGACACTTTCAACATAACCGGTAGCGCTTTACTGGTTTTGTCATTTCGATACCGGTTTTTTCATA
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCGGTTTTGTCATA
* *
37615 TTTTTACCTATTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGCGCT
66 TTTTTACCTGTTATATTGTTATGGATCGATACATTTT-ATAAAGTATCGACACTTTATAGGCGCT
* *
37680 ATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTAT
130 ATAACTTATTCTCTTTTAAATT-CAAAAGTGTCGATACTTATATTAATTTAT
** * *
37732 CGACACTTTCAATATATCCGGTAGCTTTTTTTACCAGTTTTATCATTTCGATACCTGTTTTGTCA
1 CGACACTTTCAATATATCCGGTAGC--GCTTTACCGGTTTTATCATTTCGATACCGGTTTTGTCA
*
37797 TATTCTTACCTGTTATATT-TCTATGGATCGATACATTTGTATAAAGTATCGACACTTTATAGGC
64 TATTTTTACCTGTTATATTGT-TATGGATCGATACATTT-TATAAAGTATCGACACTTTATAGGC
**
37861 GCTATAACTTATTCTCTTTTAAATTCAAAAAGTGTCGATACTTATATTAACGTAT
127 GCTATAACTTATTCTCTTTTAAATTC-AAAAGTGTCGATACTTATATTAATTTAT
* * * *
37916 CGACACTTTCAATATATCTGGTAGCTCTTTACCGATTTTATCATTTCG-TGACCAGTTTTGTCAT
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAT-ACCGGTTTTGTCAT
* * * *
37980 ACTTATACATGTTATATTGTTATGGATCGATACGTTTTTATAAAGTATCGACACTTTATAGGCGC
65 ATTTTTACCTGTTATATTGTTATGGATCGATAC-ATTTTATAAAGTATCGACACTTTATAGGCGC
* * * *
38045 TATTACTTATTCTCTTTTAAATTCCAAAAATGTCAATACTTAT-TTAAATCTAAT
129 TATAACTTATTCTCTTTTAAATT-CAAAAGTGTCGATACTTATATT-AAT-TTAT
* * * * * * *
38099 CGATACTTTCAATATATCCAGTAGCGGTTTATCGGTTTTATCATAAT-GAAACCGGTTTTATCAT
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCAT-TTCGATACCGGTTTTGTCAT
* *
38163 ATTTTTACCTGTTATATTGCTATGGAGCGATACATTTT
65 ATTTTTACCTGTTATATTGTTATGGATCGATACATTTT
38201 TCATTTGTAT
Statistics
Matches: 407, Mismatches: 49, Indels: 26
0.84 0.10 0.05
Matches are distributed among these distances:
181 3 0.01
182 154 0.38
183 87 0.21
184 162 0.40
185 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (180 bp):
CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCGGTTTTGTCATA
TTTTTACCTGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTATAGGCGCTA
TAACTTATTCTCTTTTAAATTCAAAAGTGTCGATACTTATATTAATTTAT
Found at i:41055 original size:31 final size:30
Alignment explanation
Indices: 41017--41095 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
41007 TAAAACTTGT
* *
41017 AATATAGTCCCTAAATATTTAGTCCATTTGC
1 AATATAGTCCCT-AACATTTAGTACATTTGC
**
41048 AATATAGTCCCCTAACATTTAGTATGTTTGC
1 AATATAGT-CCCTAACATTTAGTACATTTGC
* *
41079 AATATGGTCCCCAACAT
1 AATATAGTCCCTAACAT
41096 AACTGTTGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 8 0.20
31 29 0.71
32 4 0.10
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (30 bp):
AATATAGTCCCTAACATTTAGTACATTTGC
Found at i:44383 original size:60 final size:60
Alignment explanation
Indices: 44309--44483 Score: 178
Period size: 60 Copynumber: 2.9 Consensus size: 60
44299 CTTCAATTAG
* * * *
44309 GATTT-TATTTTAAATTTGTCTCTAAATTTTTAAATATTCTAATTTCATCCTCAAAATAT
1 GATTTCTATTCTAAATTAGTCTCTAAACTTTTGAATATTCTAATTTCATCCTCAAAATAT
* * *
44368 GATTTCTATTCTAAATTAGT-TCTTAAACTTTTGAACATTCTAATTTTAT-CTCTAAACTAT
1 GATTTCTATTCTAAATTAGTCTC-TAAACTTTTGAATATTCTAATTTCATCCTC-AAAATAT
** * * * *
44428 GACCCTCT-TCCTAAATTGGTCCCCAAACTTTTGAATATTCTAATTTCATCCTCAAA
1 GA-TTTCTATTCTAAATTAGTCTCTAAACTTTTGAATATTCTAATTTCATCCTCAAA
44484 TTCATCCAAA
Statistics
Matches: 95, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
59 10 0.11
60 78 0.82
61 7 0.07
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.45
Consensus pattern (60 bp):
GATTTCTATTCTAAATTAGTCTCTAAACTTTTGAATATTCTAATTTCATCCTCAAAATAT
Found at i:44714 original size:60 final size:60
Alignment explanation
Indices: 44614--44780 Score: 176
Period size: 60 Copynumber: 2.8 Consensus size: 60
44604 CATATAGCTT
* * * * * * *
44614 GGGATGATATTAGAATGTTCAAAAAGTTTACGAACCAATTTAGAATGAAAGTCATCGTTTG
1 GGGATGAAATTAAAATATTC-AAAAGTTTACGGACCAATTTAGAATGAAAGCCATAGTTTA
* * *
44675 GGGATGAAATTAAAATATTCAAAAGTTTGA-GGACTAATTTAGAATTATAGCCATAGTTTA
1 GGGATGAAATTAAAATATTCAAAAGTTT-ACGGACCAATTTAGAATGAAAGCCATAGTTTA
* * * *
44735 GGGATGAAATT-AAATATTTAAAATTTTAGGGACCAATTTAAAATGA
1 GGGATGAAATTAAAATATTCAAAAGTTTACGGACCAATTTAGAATGA
44781 GAATCATACT
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
58 1 0.01
59 28 0.31
60 42 0.47
61 18 0.20
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.32
Consensus pattern (60 bp):
GGGATGAAATTAAAATATTCAAAAGTTTACGGACCAATTTAGAATGAAAGCCATAGTTTA
Found at i:46928 original size:123 final size:123
Alignment explanation
Indices: 46752--46998 Score: 469
Period size: 123 Copynumber: 2.0 Consensus size: 123
46742 AATAGATAAG
46752 TGGTAATTCTTGTAGTTTACCTTTTTTTTCCTCGTTAAACCCCCCCCCCCCC-TTTTCTTGGGCA
1 TGGTAATTCTTGTAGTTTACCTTTTTTTTCCTCGTTAAACCCCCCCCCCCCCTTTTTCTTGGGCA
46816 TATTTCTTCAGAGAAAAAAAAAGTGTTTCCTTTGGAGAATCCAAGTTAACTCGCCGCGT
66 TATTTCTTCAGAGAAAAAAAAA-TGTTTCCTTTGGAGAATCCAAGTTAACTCGCCGCGT
*
46875 TGGTAATTCTTGTAGTTTACCTTTTTTTTTCTCGTTAAACCCCCCCCCCCCCTTTTTCTTGGGCA
1 TGGTAATTCTTGTAGTTTACCTTTTTTTTCCTCGTTAAACCCCCCCCCCCCCTTTTTCTTGGGCA
46940 TATTTCTTCAGAGAAAAAAAAATGTTTCCTTTGGAGAATCCAAGTTAACTCGCCGCGT
66 TATTTCTTCAGAGAAAAAAAAATGTTTCCTTTGGAGAATCCAAGTTAACTCGCCGCGT
46998 T
1 T
46999 TACTCAGAAA
Statistics
Matches: 122, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
123 88 0.72
124 34 0.28
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.38
Consensus pattern (123 bp):
TGGTAATTCTTGTAGTTTACCTTTTTTTTCCTCGTTAAACCCCCCCCCCCCCTTTTTCTTGGGCA
TATTTCTTCAGAGAAAAAAAAATGTTTCCTTTGGAGAATCCAAGTTAACTCGCCGCGT
Found at i:47062 original size:24 final size:24
Alignment explanation
Indices: 47017--47074 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
47007 AAGTAAGAAC
*
47017 CTTCTTTCTTTTTATATATGTTTT
1 CTTCTTTATTTTTATATATGTTTT
*
47041 CTTCATTTATTTTTAT-TTTGTTTGT
1 CTTC-TTTATTTTTATATATGTTT-T
47066 -TTCTTTATT
1 CTTCTTTATT
47075 GTTGCTTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 6 0.20
24 13 0.43
25 11 0.37
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.72
Consensus pattern (24 bp):
CTTCTTTATTTTTATATATGTTTT
Found at i:52500 original size:16 final size:16
Alignment explanation
Indices: 52479--52511 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
52469 ATTTCAATAA
52479 AATGTGATAGAAGTAT
1 AATGTGATAGAAGTAT
52495 AATGTGATAGAAGTAT
1 AATGTGATAGAAGTAT
52511 A
1 A
52512 GAATCTGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.30
Consensus pattern (16 bp):
AATGTGATAGAAGTAT
Done.