Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007443.1 Hibiscus syriacus cultivar Beakdansim tig00020338_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: 65743
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:213 original size:18 final size:19
Alignment explanation
Indices: 186--232 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
176 TTATATTCAC
186 ATAC-AAATTAT-AATCGT
1 ATACAAAATTATAAATCGT
*
203 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
222 ATACAAAATTA
1 ATACAAAATTA
233 ACCCTACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 7 0.26
19 16 0.59
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.34
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2086 original size:21 final size:21
Alignment explanation
Indices: 2061--2125 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
2051 CCCCTTATGC
* *
2061 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
2082 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
2103 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
2124 CT
1 CT
2126 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:2858 original size:16 final size:15
Alignment explanation
Indices: 2837--2869 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
2827 CATATGTCAC
2837 TTCTGCTTCAAACACA
1 TTCTGCTTCAAAC-CA
2853 TTCTGCTTCAAACCA
1 TTCTGCTTCAAACCA
2868 TT
1 TT
2870 TGGAGGCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.06, T:0.36
Consensus pattern (15 bp):
TTCTGCTTCAAACCA
Found at i:4564 original size:20 final size:19
Alignment explanation
Indices: 4518--4578 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
4508 TCTGGTAACG
4518 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
4537 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
*
4558 TTTTACCTGG-TATATCATT
1 TTTTACC-GGTTTTATCATT
4577 TT
1 TT
4579 GGATCGATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.20, C:0.15, G:0.11, T:0.54
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:4608 original size:181 final size:182
Alignment explanation
Indices: 4304--4776 Score: 741
Period size: 181 Copynumber: 2.6 Consensus size: 182
4294 CGTACTTTCG
* *
4304 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATGTATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
4369 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTTTAAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
*
4434 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
4485 AAAGTATCGACACTTTCAATGTATCTGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATGTATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
4550 TATCATATTTTTACCTGGTATATCATTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
4615 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * *
4667 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTTAATACCGGTTT
1 AAAGTATCGACACTTTCAATGTATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
4732 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCAACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
4777 AATTTGGATC
Statistics
Matches: 266, Mismatches: 25, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
181 167 0.63
182 99 0.37
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATGTATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:5655 original size:21 final size:21
Alignment explanation
Indices: 5631--5691 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
5621 CTTTGAAAAA
5631 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
5652 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
5666 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
5687 AAATG
1 AAATG
5692 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:5722 original size:37 final size:36
Alignment explanation
Indices: 5629--5742 Score: 178
Period size: 35 Copynumber: 3.2 Consensus size: 36
5619 AACTTTGAAA
5629 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
5665 -AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
* * *
5700 AAAAATAGTTTTTCAAAGTTTGGTAGATGTTT-GTTG
1 AAAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTG
5736 AAAAATG
1 AAAAATG
5743 ATAATGGGAT
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
35 36 0.49
36 14 0.19
37 23 0.32
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.43
Consensus pattern (36 bp):
AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:10277 original size:21 final size:21
Alignment explanation
Indices: 10253--10313 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
10243 CTTTGAAAAA
10253 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
10274 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
10288 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
10309 AAATG
1 AAATG
10314 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:10298 original size:35 final size:36
Alignment explanation
Indices: 10251--10346 Score: 167
Period size: 35 Copynumber: 2.7 Consensus size: 36
10241 AACTTTGAAA
10251 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
10287 -AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
*
10322 AAAAATAGTTTTTCAAAGTTTGGTA
1 AAAAAT-GGTTTTCAAAGTTTGGTA
10347 GATTTGTTGA
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
35 35 0.61
36 5 0.09
37 17 0.30
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (36 bp):
AAAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:12044 original size:25 final size:24
Alignment explanation
Indices: 12016--12063 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
12006 TAAACTCCTT
12016 ATATATACATCA-ATATATAATGAAC
1 ATATATACAT-ATATATAT-ATGAAC
*
12041 ATATATATATATATATATATGAA
1 ATATATACATATATATATATGAA
12064 TTATGAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATATACATATATATATATGAAC
Found at i:15489 original size:4 final size:4
Alignment explanation
Indices: 15469--15548 Score: 60
Period size: 4 Copynumber: 19.2 Consensus size: 4
15459 CATGTTAGAT
*
15469 ATAA AAAA ATAAA ATAA ATAA ATAA ATTCAA CCA-AA AT-A A-AA ATAA
1 ATAA ATAA AT-AA ATAA ATAA ATAA A-T-AA --ATAA ATAA ATAA ATAA
15515 ATAAA ATAA A-ATA ATAA ATAA ATAA ATAA ATAA A
1 AT-AA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA A
15549 GCATAAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 22
0.72 0.02 0.25
Matches are distributed among these distances:
3 6 0.10
4 42 0.67
5 12 0.19
6 2 0.03
8 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:16976 original size:100 final size:103
Alignment explanation
Indices: 16787--17317 Score: 398
Period size: 109 Copynumber: 5.0 Consensus size: 103
16777 AATATTGTTC
* * ** * * * *
16787 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAAATC---AAAATGCTTGTTGACA
* * * * **
16852 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGACGTCT
63 ATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
16893 CGAGTCTAATATCCTTCACTGTGAAGTTGAAATTGACTCTG-AA-CAAAAT-CTTGTTGACAATC
1 CGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAAATCAAAATGCTTGTTGACAATC
16955 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * *
16993 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAATGTTTATTGACAA
1 CGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAAA--TCAAAATGCTTGTTGACAA
* *
17058 CCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
64 TCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * ** *
17098 CGAGTGGCACGATATCC-TC-CGTCGTGGAGTTGAAATCG-CGGATGAAACTGAAAAGTTG-TTC
1 CGAGT--C-CAATATCCTTCAC-T-GTGAAGTTGAAATTGAC-TCTGAAA-TCAAAA--TGCTT-
* * *
17159 GTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCT
56 GTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * ** * * **
17207 CGGGTAGCACGATATCC-TC-CGTCGTGGAGTTGAAATTGGTTCTGGAATTGGGAAGTTG-TTCG
1 CGAGT--C-CAATATCCTTCAC-T-GTGAAGTTGAAATTGACTCT-GAAAT--CAAAATGCTT-G
* *
17269 TTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
57 TTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
17316 CG
1 CG
17318 GGTAGCACGA
Statistics
Matches: 366, Mismatches: 41, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
100 82 0.22
101 6 0.02
104 6 0.02
105 54 0.15
106 37 0.10
107 11 0.03
108 27 0.07
109 137 0.37
110 3 0.01
111 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (103 bp):
CGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAAATCAAAATGCTTGTTGACAATC
AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:17203 original size:109 final size:108
Alignment explanation
Indices: 16945--17415 Score: 578
Period size: 109 Copynumber: 4.4 Consensus size: 108
16935 ACAAAATCTT
* *
16945 GTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT--C-CAATATCC
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCC
* * * *
17007 TTCG-CTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAA-TGTTT
66 TCCGTC-GTGGAGTTGAAATTGGCGCTGAAA-TTGAAAATTGTTC
* * *
17050 ATTGACAACCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCC
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCC
* * *
17115 TCCGTCGTGGAGTTGAAA-TCGCGGATGAAACTGAAAAGTTGTTC
66 TCCGTCGTGGAGTTGAAATTGGC-GCTGAAATTGAAAA-TTGTTC
* * *
17159 GTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCTCGGGTAGCACGATATCC
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCC
** * * *
17224 TCCGTCGTGGAGTTGAAATTGGTTCTGGAATTGGGAAGTTGTTC
66 TCCGTCGTGGAGTTGAAATTGGCGCTGAAATT-GAAAATTGTTC
* *
17268 GTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCC
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCC
* ** * *
17333 TCCGTCGTGGAGTTGAAATCGGTTCCGAAATTGGGAAATTGTT-
66 TCCGTCGTGGAGTTGAAATTGGCGCTGAAATT-GAAAATTGTTC
* *
17376 GTTGGCAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTG
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
17416 ACTCTAGCTA
Statistics
Matches: 324, Mismatches: 33, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
105 50 0.15
107 10 0.03
108 63 0.19
109 196 0.60
110 5 0.02
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (108 bp):
GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCC
TCCGTCGTGGAGTTGAAATTGGCGCTGAAATTGAAAATTGTTC
Found at i:17314 original size:218 final size:212
Alignment explanation
Indices: 16787--17414 Score: 640
Period size: 218 Copynumber: 3.0 Consensus size: 212
16777 AATATTGTTC
* *** * **
16787 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCT-GAAATTGGAAAATGTTCATTGACA
** * * * * **
16852 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGACGTCTCGAGT--CTA--ATATCCTTCAC-
65 ACCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGC-ACGATATCC-TC-CG
* * * *
16912 T-GTGAAGTTGAAAT-TGACTCTG-AAC---AAAA-TCTTGTTGACAATCAGCCGTCCCTTCGTT
127 TCGTGGAGTTGAAATCGGA-TC-GAAACTGGAAAATTGTTGTTGACAACCAGCCGTCCCTTCGTT
*
16970 GTGAAGTTGAACTTGTGTTGTCT
190 GTGAAGTTGAACTTATGTTGTCT
* * *
16993 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAATGTTTATTGACAA
1 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATGTTCATTGACAA
*
17058 CCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCTCCGTCGT
66 CCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCCTCCGTCGT
*
17123 GGAGTTGAAATCGCGGAT-GAAACT-GAAAAGTTGTTCGTTGACAACCAGTCGTCCCTTCGTTGT
131 GGAGTTGAAAT--CGGATCGAAACTGGAAAA-TTGTT-GTTGACAACCAGCCGTCCCTTCGTTGT
17186 GAAGTTGAACTTATGTTGTCT
192 GAAGTTGAACTTATGTTGTCT
* * * * * ** *
17207 CGGGTAGCACGATATCCTCCG-TCGTGGAGTTGAAATTGGTTCTGGAATTGGGAAGTTGTTCGTT
1 CGAGT--C-CAATATCCTCCGCT-GTGAAGTTGAAATTGGCTCTGAAATT-GGAAAATGTTCATT
*
17271 GACAACCAG-TCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCCTC
61 GACAACCAGCT-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCCTC
* * * * *
17335 CGTCGTGGAGTTGAAATCGGTTCCGAAATTGGGAAATTGTTGTTGGCAACCAACCGTCCCTTCGT
125 CGTCGTGGAGTTGAAATCGGAT-CGAAACTGGAAAATTGTTGTTGACAACCAGCCGTCCCTTCGT
17400 TGTGAAGTTGAACTT
189 TGTGAAGTTGAACTT
17415 GACTCTAGCT
Statistics
Matches: 357, Mismatches: 41, Indels: 37
0.82 0.09 0.09
Matches are distributed among these distances:
205 56 0.16
206 40 0.11
207 4 0.01
208 19 0.05
209 3 0.01
210 1 0.00
211 6 0.02
213 3 0.01
214 49 0.14
216 6 0.02
217 70 0.20
218 96 0.27
219 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (212 bp):
CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATGTTCATTGACAA
CCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTAGCACGATATCCTCCGTCGT
GGAGTTGAAATCGGATCGAAACTGGAAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAG
TTGAACTTATGTTGTCT
Found at i:18049 original size:65 final size:65
Alignment explanation
Indices: 17941--18110 Score: 297
Period size: 65 Copynumber: 2.6 Consensus size: 65
17931 GGGAGACAAA
17941 ATTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
* *
18005 GTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
* *
18070 ATTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
18111 TTGTTTCGAG
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 3 0.03
65 96 0.97
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (65 bp):
ATTTATGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAT
Found at i:18116 original size:102 final size:102
Alignment explanation
Indices: 18010--18222 Score: 372
Period size: 102 Copynumber: 2.1 Consensus size: 102
18000 TCAATGTTTA
*
18010 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
18075 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * * *
18112 TGTTTCGAGGGAAACTATCTCAAGAGAGGCAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
*
18177 TGTTTCAAGAGAAACTGTCTTAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
18214 TGTTTCAAG
1 TGTTTCAAG
18223 GGGGGAGACA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:18126 original size:37 final size:38
Alignment explanation
Indices: 18070--18147 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 38
18060 TGTTTTCAAT
* *
18070 ATTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
1 ATTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
* * *
18108 ATTT-TGTTTCGAGGGAAACTATCTCAAGAGAGGCAAA
1 ATTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
18145 ATT
1 ATT
18148 CATTTCAAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
37 31 0.89
38 4 0.11
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (38 bp):
ATTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
Found at i:18246 original size:90 final size:91
Alignment explanation
Indices: 18134--18417 Score: 381
Period size: 90 Copynumber: 3.0 Consensus size: 91
18124 AACTATCTCA
* *
18134 AGAGAGGCAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTTA
1 AGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCA
18199 AGGGAGACAAAATTTTGTTTCAAGGG
66 AGGGAGACAAAATTTTGTTTCAAGGG
* *
18225 -GGGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTCTCA
1 AGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCA
* **
18289 ATGGAGACGGAATTTTGTTTCAAGGG
66 AGGGAGACAAAATTTTGTTTCAAGGG
* *
18315 AAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTTAATGTTTATGTTTCAAGAG
1 -----------AGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAG
18380 AAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGG
55 AAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGG
18417 A
1 A
18418 AACTGTCTCA
Statistics
Matches: 167, Mismatches: 14, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
90 83 0.50
91 1 0.01
102 83 0.50
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (91 bp):
AGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCA
AGGGAGACAAAATTTTGTTTCAAGGG
Found at i:18248 original size:24 final size:25
Alignment explanation
Indices: 18200--18248 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
18190 ACTGTCTTAA
**
18200 GGGAGACAAAATTTTGTTTCAAGGG
1 GGGAGACAAAATTTCATTTCAAGGG
18225 GGGAGACAAAA-TTCATTTCAAGGG
1 GGGAGACAAAATTTCATTTCAAGGG
18249 AAATGTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.24
Consensus pattern (25 bp):
GGGAGACAAAATTTCATTTCAAGGG
Found at i:18318 original size:37 final size:35
Alignment explanation
Indices: 18267--18473 Score: 169
Period size: 36 Copynumber: 5.9 Consensus size: 35
18257 CCAATGTTTA
* *
18267 TGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATTT
1 TGTTTCAAGGGAAACTGTCTCAA-GGAGAC-AAATTT
* **
18304 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACT
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGACAAATTT
** * * *
18340 CATTTCAAGGGAAA-TGTTTTTAA--TG-----TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGGAGACAAATTT
*
18368 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAA-GGAGAC-AAATTT
*
18406 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGACAAATTT
18442 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGACAA
18474 TAGTGAGCAC
Statistics
Matches: 135, Mismatches: 21, Indels: 29
0.73 0.11 0.16
Matches are distributed among these distances:
28 1 0.01
29 15 0.11
30 2 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 58 0.43
37 53 0.39
38 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (35 bp):
TGTTTCAAGGGAAACTGTCTCAAGGAGACAAATTT
Found at i:18368 original size:192 final size:192
Alignment explanation
Indices: 18035--18416 Score: 665
Period size: 192 Copynumber: 2.0 Consensus size: 192
18025 TATCTCAAGA
* *
18035 GAGACGAAATTCATTTCAAGGGAAATGTTTTCAATATTTATGTTTCAAGAGAAACTGTCTCAAGG
1 GAGACAAAATTCATTTCAAGGGAAATGTTTCCAATATTTATGTTTCAAGAGAAACTGTCTCAAGG
* * *
18100 GAGACAAAATTTTGTTTCGAGGGAAACTATCTCAAGAGAGGCAAAATTCATTTCAAGGGAAATGT
66 GAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGT
*
18165 TTTCAATGTTTATGTTTCAAGAGAAACTGTCTTAAGGGAGACAAAATTTTGTTTCAAGGGGG
131 TTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGGG
* *
18227 GAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTCTCAATG
1 GAGACAAAATTCATTTCAAGGGAAATGTTTCCAATATTTATGTTTCAAGAGAAACTGTCTCAAGG
**
18292 GAGACGGAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGT
66 GAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGT
*
18357 TTTTAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGG
131 TTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGG
18417 AAACTGTCTC
Statistics
Matches: 179, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
192 179 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (192 bp):
GAGACAAAATTCATTTCAAGGGAAATGTTTCCAATATTTATGTTTCAAGAGAAACTGTCTCAAGG
GAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGT
TTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGGG
Found at i:18451 original size:36 final size:36
Alignment explanation
Indices: 18369--18473 Score: 174
Period size: 36 Copynumber: 2.9 Consensus size: 36
18359 TTAATGTTTA
* * *
18369 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAGTT
18406 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
18442 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
18474 TAGTGAGCAC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
36 37 0.57
37 28 0.43
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
Found at i:18455 original size:102 final size:102
Alignment explanation
Indices: 18227--18438 Score: 361
Period size: 102 Copynumber: 2.1 Consensus size: 102
18217 TTCAAGGGGG
* *
18227 GAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTCTCAATG
1 GAGACAAAACTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGG
**
18292 GAGACGGAATTTTGTTTCAAGGGAAACTATCTCAAGA
66 GAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGA
**
18329 GAGACAAAACTCATTTCAAGGGAAATGTTTTTAATGTTTATGTTTCAAGAGAAACTGTCTCAAGG
1 GAGACAAAACTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGG
*
18394 GAGACAAAATTTTGTTTCAAGGGAAACTGTCTCAAGA
66 GAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGA
18431 GAGACAAA
1 GAGACAAA
18439 GTTTGTTTCA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (102 bp):
GAGACAAAACTCATTTCAAGGGAAATGTTTCCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGG
GAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGA
Found at i:19358 original size:22 final size:22
Alignment explanation
Indices: 19333--19383 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
19323 TTGTGTTTGG
19333 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
19355 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
19377 TCAAAGG
1 TCAAAGG
19384 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:20043 original size:20 final size:20
Alignment explanation
Indices: 19997--20055 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
19987 GTGTCCCCTT
* *
19997 TTTTTTATTTTTGTTCTTTC
1 TTTTTTGTTCTTGTTCTTTC
20017 TTTTTTGTTCTTGTT-TTTCC
1 TTTTTTGTTCTTGTTCTTT-C
20037 TTTTTTGCTTCTT-TTCTTT
1 TTTTTTG-TTCTTGTTCTTT
20056 TTTCTTTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 3 0.09
20 23 0.68
21 8 0.24
ACGTcount: A:0.02, C:0.14, G:0.07, T:0.78
Consensus pattern (20 bp):
TTTTTTGTTCTTGTTCTTTC
Found at i:23063 original size:5 final size:5
Alignment explanation
Indices: 23053--23121 Score: 65
Period size: 5 Copynumber: 14.4 Consensus size: 5
23043 TAGATATAAA
* * **
23053 AAAAT AAAAT AAAAT AAAAT -AAAT -AAAT -AAAT AAATT CAACC AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
23100 AAAA- ATAAAT AAAAT AAAAT AA
1 AAAAT A-AAAT AAAAT AAAAT AA
23122 TAAATAAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
4 13 0.24
5 40 0.74
6 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:23078 original size:4 final size:4
Alignment explanation
Indices: 23048--23137 Score: 62
Period size: 4 Copynumber: 21.2 Consensus size: 4
23038 CATGTTAGAT
*
23048 ATAA AAAA ATAAA ATAAA ATAAA ATAA ATAA ATAA ATAA ATTCAA CCA-AA
1 ATAA ATAA AT-AA AT-AA AT-AA ATAA ATAA ATAA ATAA A-T-AA --ATAA
23098 AT-A A-AA ATAA ATAAA ATAA A-ATA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA ATA-A ATAA ATAA ATAA ATAA A
23138 GCATAAAAAT
Statistics
Matches: 73, Mismatches: 2, Indels: 22
0.75 0.02 0.23
Matches are distributed among these distances:
3 6 0.08
4 42 0.58
5 22 0.30
6 2 0.03
8 1 0.01
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:23179 original size:23 final size:22
Alignment explanation
Indices: 23096--23205 Score: 66
Period size: 23 Copynumber: 4.8 Consensus size: 22
23086 AATTCAACCA
*
23096 AAATA-AAAATAAATAAAATA-
1 AAATATAAAATAAATAAAGTAT
*
23116 AAATAATAAATAAATAAATAAAGCAT
1 AAAT-AT--A-AAATAAATAAAGTAT
* * *
23142 AAAAATGATAGTAAATAATAGTAT
1 AAATAT-AAAATAAATAA-AGTAT
23166 AAATATAAAATAAA-AAAGGTA-
1 AAATATAAAATAAATAAA-GTAT
*
23187 ATATATATAAATAAATAAA
1 AAATATA-AAATAAATAAA
23206 ATACACATAA
Statistics
Matches: 69, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
20 4 0.06
21 8 0.12
22 12 0.17
23 17 0.25
24 11 0.16
25 14 0.20
26 3 0.04
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (22 bp):
AAATATAAAATAAATAAAGTAT
Found at i:26180 original size:68 final size:68
Alignment explanation
Indices: 26095--26223 Score: 224
Period size: 68 Copynumber: 1.9 Consensus size: 68
26085 TATTGGAGGT
26095 AGAGACGAACACATGATTTTATATAAGAA-GAAAGAAGTTCAACTTATAAACTTTTAGGGGATGA
1 AGAGACGAACACATGATTTTATATAA-AACGAAAGAAGTTCAACTTATAAACTTTTAGGGGATGA
26159 AAAC
65 AAAC
* *
26163 AGAGACGTACACATGATTTTATATAAAACGAAAGAAGTTCAATTTATAAACTTTTAGGGGA
1 AGAGACGAACACATGATTTTATATAAAACGAAAGAAGTTCAACTTATAAACTTTTAGGGGA
26224 CGGAAACATA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
67 2 0.03
68 56 0.97
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (68 bp):
AGAGACGAACACATGATTTTATATAAAACGAAAGAAGTTCAACTTATAAACTTTTAGGGGATGAA
AAC
Found at i:26433 original size:2 final size:2
Alignment explanation
Indices: 26426--26453 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26416 TCTATCCTTT
26426 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
26454 GTAATGATAA
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):
TA
Found at i:27224 original size:9 final size:9
Alignment explanation
Indices: 27210--27262 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
27200 CTGCTGGAAA
*
27210 ACCGGTTTG
1 ACCGGTTCG
27219 ACCGGTTCCG
1 ACCGGTT-CG
*
27229 ACTGGTTCG
1 ACCGGTTCG
*
27238 ACCGGTCCG
1 ACCGGTTCG
*
27247 AACCGGTTTG
1 -ACCGGTTCG
27257 ACCGGT
1 ACCGGT
27263 CAGACCTGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 22 0.61
10 14 0.39
ACGTcount: A:0.13, C:0.30, G:0.32, T:0.25
Consensus pattern (9 bp):
ACCGGTTCG
Found at i:27263 original size:19 final size:19
Alignment explanation
Indices: 27209--27263 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
27199 GCTGCTGGAA
27209 AACCGGTTTGACCGGTTCCG
1 AACCGGTTTGACCGG-TCCG
* *
27229 -ACTGGTTCGACCGGTCCG
1 AACCGGTTTGACCGGTCCG
27247 AACCGGTTTGACCGGTC
1 AACCGGTTTGACCGGTC
27264 AGACCTGACC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.24
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCCG
Found at i:34570 original size:14 final size:14
Alignment explanation
Indices: 34548--34588 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
34538 GTCTGAACCG
34548 GACTGACCCGACCC
1 GACTGACCCGACCC
*
34562 GACTAACCCGACCC
1 GACTGACCCGACCC
34576 GACTGACCCGACC
1 GACTGACCCGACC
34589 GTTGACCGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.24, C:0.49, G:0.20, T:0.07
Consensus pattern (14 bp):
GACTGACCCGACCC
Found at i:36393 original size:77 final size:77
Alignment explanation
Indices: 36177--36378 Score: 395
Period size: 77 Copynumber: 2.6 Consensus size: 77
36167 TGTTTAATGG
36177 CAAATTAAATATAATGCTACAAAAGCAAATCCCGAAGATTACTTCAATCAATTGTTTATATAAAT
1 CAAATTAAATATAATGCTACAAAAGCAAATCCCGAAGATTACTTCAATCAATTGTTTATATAAAT
36242 AAGTATCTAATA
66 AAGTATCTAATA
*
36254 TAAATTAAATATAATGCTACAAAAGCAAATCCCGAAGATTACTTCAATCAATTGTTTATATAAAT
1 CAAATTAAATATAATGCTACAAAAGCAAATCCCGAAGATTACTTCAATCAATTGTTTATATAAAT
36319 AAGTATCTAATA
66 AAGTATCTAATA
36331 CAAATTAAATATAATGCTACAAAAGCAAATCCCGAAGATTACTTCAAT
1 CAAATTAAATATAATGCTACAAAAGCAAATCCCGAAGATTACTTCAAT
36379 AAATATATAA
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 123 1.00
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (77 bp):
CAAATTAAATATAATGCTACAAAAGCAAATCCCGAAGATTACTTCAATCAATTGTTTATATAAAT
AAGTATCTAATA
Found at i:38819 original size:13 final size:13
Alignment explanation
Indices: 38801--38828 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38791 ACCGGGAATG
38801 ACATTCCCGGCCA
1 ACATTCCCGGCCA
38814 ACATTCCCGGCCA
1 ACATTCCCGGCCA
38827 AC
1 AC
38829 CTAAGGGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.46, G:0.14, T:0.14
Consensus pattern (13 bp):
ACATTCCCGGCCA
Found at i:39494 original size:6 final size:6
Alignment explanation
Indices: 39483--39519 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
39473 CTAAATAACA
39483 CACACG CACACG CACACG CACACG CACGCACG CACAC
1 CACACG CACACG CACACG CACACG CA--CACG CACAC
39520 ATACGCAGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 23 0.79
8 6 0.21
ACGTcount: A:0.32, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
CACACG
Found at i:39974 original size:19 final size:19
Alignment explanation
Indices: 39935--39992 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
39925 TTAGATTAAT
* *
39935 ATATTTT-ATAA-TAATTT
1 ATATTTTAATAATTAAATA
39952 ATATTTTAATAATTAAATA
1 ATATTTTAATAATTAAATA
* *
39971 ATATATTAGTAATATAAA-A
1 ATATTTTAATAAT-TAAATA
39990 ATA
1 ATA
39993 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 7 0.21
18 4 0.12
19 19 0.56
20 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATATTTTAATAATTAAATA
Found at i:40424 original size:23 final size:23
Alignment explanation
Indices: 40398--40459 Score: 124
Period size: 23 Copynumber: 2.7 Consensus size: 23
40388 AATAACATAT
40398 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
40421 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
40444 TAGGTAGCGCTTATAT
1 TAGGTAGCGCTTATAT
40460 TTACCTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:40738 original size:25 final size:25
Alignment explanation
Indices: 40697--40757 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
40687 TATTTTATAA
*
40697 AATAAT-ATTTAGAATTTTTAATTT
1 AATAATAATATAGAATTTTTAATTT
40721 AATAATAATATAGAATTTTTAATTT
1 AATAATAATATAGAATTTTTAATTT
40746 AATAATAATATA
1 AATAATAATATA
40758 TATCGTAACG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 6 0.17
25 29 0.83
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (25 bp):
AATAATAATATAGAATTTTTAATTT
Found at i:40938 original size:23 final size:23
Alignment explanation
Indices: 40912--40974 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
40902 ATATAACCAC
40912 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
40935 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
40958 TACCTATTACATCATAT
1 TACCTATTACATTATAT
40975 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:41366 original size:23 final size:23
Alignment explanation
Indices: 41340--41402 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
41330 ATATAACCAC
41340 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
41363 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
41386 TACCTATTACATCATAT
1 TACCTATTACATTATAT
41403 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:41797 original size:23 final size:23
Alignment explanation
Indices: 41771--41833 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
41761 ATATAACCAC
41771 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
41794 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
41817 TACCTATTACATCATAT
1 TACCTATTACATTATAT
41834 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:42228 original size:23 final size:23
Alignment explanation
Indices: 42202--42264 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
42192 ATATAACCAC
42202 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
42225 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
42248 TACCTATTACATCATAT
1 TACCTATTACATTATAT
42265 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:42597 original size:430 final size:431
Alignment explanation
Indices: 40731--44609 Score: 7342
Period size: 430 Copynumber: 9.0 Consensus size: 431
40721 AATAATAATA
40731 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
1 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
*
40796 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
66 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
* *
40861 AAAAGTATGGACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTA
131 AAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
40926 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
196 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
* *
40991 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGAAATTTATGTTTC
261 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
41056 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
326 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
41121 AAAAATTATTTGATTGTTTTGATATTTTAT-AAA-A-TATT
391 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
* *
41159 TATAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGAAGCCTATAA
1 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
*
41224 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
66 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
41289 AAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
131 AAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
41354 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
196 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
*
41419 GAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
261 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
41484 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
326 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
41549 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
391 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
41590 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
1 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
41655 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
66 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
*
41720 AAAAGTATGAACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTA
131 AAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
41785 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
196 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
*
41850 GAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
261 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
41915 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
326 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
*
41980 AAAAATTATTTTATTGTTTTGATATTTTATAAAATATTATT
391 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
42021 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
1 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
42086 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
66 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
* *
42151 AAAGGTATGAACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTA
131 AAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
42216 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
196 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
* *
42281 GAAAGTGTCCATATTTTTTATAAAAAGAATCGATACTTCTTTTAAAGTTATGT-ATTTATGTTTC
261 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
42345 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
326 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
42410 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
391 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
42451 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
1 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
* *
42516 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAATCTTAAATTAATGTTTTCCATAGTGAA
66 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
* * *
42581 AAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTAAAATATAAACACTACCTATTACATTA
131 AAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
42646 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
196 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
42711 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
261 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
42776 AA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
326 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
*
42840 AAAAATTATTTTATTGTTTTGATATTTTATAAAATATTATT
391 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
*
42881 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATCA
1 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
42946 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
66 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
*
43011 AAAAGTATGAACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTA
131 AAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
43076 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
196 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
*
43141 GAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
261 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
43206 AA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-
326 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
43269 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
391 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
43310 TAGAATTTTTAATTTAATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
1 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
*
43373 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCATAGTGAA
66 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
* *
43438 AAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTAAAATATAACCACTACCTATTACATTA
131 AAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
43503 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
196 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
43568 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
261 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
43633 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
326 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
43698 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
391 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
43739 TAGAATTTTTAATTTAATAAT-A-ATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAA
1 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
43801 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
66 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
43866 AAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
131 AAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
43931 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
196 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
43996 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
261 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
44061 AA--TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
326 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
*
44124 AAAAATTATTTTATTGTTTTGATATTTTATAAAATATTATT
391 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
44165 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
1 TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
*
44230 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTTCACAGTGAA
66 TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
*
44295 AAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
131 AAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
44360 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATT
196 TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
44424 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
261 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
*
44489 AA-TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
326 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
44553 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
391 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
*
44594 TAGAA-TTTAAATTTAA
1 TAGAATTTTTAATTTAA
44610 CAAAATTAAC
Statistics
Matches: 3392, Mismatches: 49, Indels: 20
0.98 0.01 0.01
Matches are distributed among these distances:
426 122 0.04
427 298 0.09
428 867 0.26
429 448 0.13
430 903 0.27
431 754 0.22
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (431 bp):
TAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
TTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAA
AAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTA
TATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATT
GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC
AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
Found at i:42650 original size:23 final size:23
Alignment explanation
Indices: 42622--42694 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
42612 ATACTTTAAA
42622 ATATAAACACTACCTATTACATT
1 ATATAAACACTACCTATTACATT
42645 ATATAAACGA-TACCTATTACATT
1 ATATAAAC-ACTACCTATTACATT
* * *
42668 ATATAAGCGCTACCTATTACATC
1 ATATAAACACTACCTATTACATT
42691 ATAT
1 ATAT
42695 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
23 44 0.98
24 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACACTACCTATTACATT
Found at i:43088 original size:23 final size:23
Alignment explanation
Indices: 43062--43124 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
43052 ATATAACCAC
43062 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
43085 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
43108 TACCTATTACATCATAT
1 TACCTATTACATTATAT
43125 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:43506 original size:23 final size:23
Alignment explanation
Indices: 43479--43551 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
43469 ATACTTTAAA
43479 ATATAACCACTACCTATTACATT
1 ATATAACCACTACCTATTACATT
*
43502 ATATAAACGA-TACCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* * *
43525 ATATAAGCGCTACCTATTACATC
1 ATATAACCACTACCTATTACATT
43548 ATAT
1 ATAT
43552 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
22 2 0.05
23 37 0.86
24 4 0.09
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:43943 original size:23 final size:23
Alignment explanation
Indices: 43917--43979 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
43907 ATATAACCAC
43917 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
43940 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
43963 TACCTATTACATCATAT
1 TACCTATTACATTATAT
43980 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:44372 original size:23 final size:23
Alignment explanation
Indices: 44346--44408 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
44336 ATATAACCAC
44346 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
44369 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
44392 TACCTATTACATCATAT
1 TACCTATTACATTATAT
44409 TTTACCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:44882 original size:39 final size:39
Alignment explanation
Indices: 44828--44914 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
44818 TCAAGTTGTA
*
44828 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
44867 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
44906 GATTTTGAT
1 GATTTTGAT
44915 GAGCATCAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:45168 original size:24 final size:24
Alignment explanation
Indices: 45141--45188 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
45131 AATGGAGCCG
*
45141 AAATATATATTGAAATTCAAACTC
1 AAATATAAATTGAAATTCAAACTC
* *
45165 AAATTTAAATTTAAATTCAAACTC
1 AAATATAAATTGAAATTCAAACTC
45189 CAATTACATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATATAAATTGAAATTCAAACTC
Found at i:45606 original size:25 final size:25
Alignment explanation
Indices: 45572--45621 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
45562 ATTATTTTTC
*
45572 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
45597 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
45622 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:45931 original size:23 final size:23
Alignment explanation
Indices: 45905--45967 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
45895 ATATAACCAC
45905 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
45928 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
45951 TACCTATTACATCATAT
1 TACCTATTACATTATAT
45968 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:46442 original size:39 final size:39
Alignment explanation
Indices: 46388--46474 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
46378 TCAAGTTGTA
*
46388 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
46427 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
46466 GATTTTGAT
1 GATTTTGAT
46475 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:46733 original size:18 final size:18
Alignment explanation
Indices: 46710--46746 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
46700 CGAAATATAT
46710 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
46728 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
46746 A
1 A
46747 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:47166 original size:25 final size:25
Alignment explanation
Indices: 47132--47181 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
47122 ATTATTTTTC
*
47132 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
47157 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
47182 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:47490 original size:23 final size:23
Alignment explanation
Indices: 47464--47526 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
47454 ATATAACCAC
47464 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
47487 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
47510 TACCTATTACATCATAT
1 TACCTATTACATTATAT
47527 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:47927 original size:25 final size:25
Alignment explanation
Indices: 47870--47935 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
47860 CACTCAAAAG
*
47870 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
47895 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
47920 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
47936 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:50749 original size:183 final size:183
Alignment explanation
Indices: 50409--50750 Score: 544
Period size: 183 Copynumber: 1.9 Consensus size: 183
50399 TAAAATTACT
*
50409 GACACTTTTTAAAATTGTATCGACATATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
1 GACACTTTTTAAAATTGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
* * *
50474 TTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
66 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCAGTATATTTATACCGGATA
* *
50539 TATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTATAAATGTC
131 CATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTATAAATGTC
* *
50592 GACACTTTTTGACAA-TGTATCGACACATTTTTCTTCCAATTTGGACATAAAGTACCGACACAAT
1 GACACTTTTT-AAAATTGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
50656 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCAGTATATTTATACC-GAT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCAGTATATTTATACCGGAT
* * **
50720 AGCATTGCAAATTTACCTATTTTATTATAAT
130 A-CATTACAAAATTACCTATTACATTATAAT
50751 ATGTTGAAAG
Statistics
Matches: 145, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
182 3 0.02
183 139 0.96
184 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (183 bp):
GACACTTTTTAAAATTGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCAGTATATTTATACCGGATA
CATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTATAAATGTC
Found at i:52338 original size:3 final size:3
Alignment explanation
Indices: 52330--52422 Score: 78
Period size: 3 Copynumber: 31.0 Consensus size: 3
52320 ACTTGTTTGG
* * * * *
52330 ATC ATC ATC TTC ATC ATC CTC ATC ATC ATC GTC ATC ATC TTC ATC GTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * * * *
52378 AGC TTT ATC GTC ATC ATC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
52423 GTCAGTTTCA
Statistics
Matches: 66, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:52347 original size:12 final size:12
Alignment explanation
Indices: 52330--52426 Score: 104
Period size: 12 Copynumber: 8.1 Consensus size: 12
52320 ACTTGTTTGG
*
52330 ATCATCATCTTC
1 ATCATCATCGTC
* *
52342 ATCATCCTCATC
1 ATCATCATCGTC
* *
52354 ATCATCGTCATC
1 ATCATCATCGTC
*
52366 ATCTTCATCGTC
1 ATCATCATCGTC
* * *
52378 AGCTTTATCGTC
1 ATCATCATCGTC
52390 ATCATCATCGTC
1 ATCATCATCGTC
52402 ATCATCATCGTC
1 ATCATCATCGTC
*
52414 ATCTTCATCGTC
1 ATCATCATCGTC
52426 A
1 A
52427 GTTTCATCTT
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 73 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:52433 original size:24 final size:24
Alignment explanation
Indices: 52364--52434 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
52354 ATCATCGTCA
52364 TCATCTTCATCGTCAGCTTT-ATCG
1 TCATCTTCATCGTCAG-TTTCATCG
* *
52388 TCATCATCATCGTCA-TCATCATCG
1 TCATCTTCATCGTCAGT-TTCATCG
52412 TCATCTTCATCGTCAGTTTCATC
1 TCATCTTCATCGTCAGTTTCATC
52435 TTCTGCGACC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.03
23 1 0.03
24 37 0.93
25 1 0.03
ACGTcount: A:0.20, C:0.31, G:0.10, T:0.39
Consensus pattern (24 bp):
TCATCTTCATCGTCAGTTTCATCG
Found at i:54262 original size:199 final size:199
Alignment explanation
Indices: 53903--54876 Score: 1715
Period size: 199 Copynumber: 4.9 Consensus size: 199
53893 TTTAAATTAG
* *
53903 TATCGACACAAACT-AAAACGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
53967 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
54032 CGACACTTTTTATATATGGATCAACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
54097 AAAA
196 AAAA
* * *
54101 TATCGACACAAACTAAAATAGTGTCGACAGATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
54166 CTTGTACCGGTTAGATGGAAAAATTATATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
54231 TGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
54296 AAAA
196 AAAA
* * *
54300 TATCGAAACAAACTAAAAAAATGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
54365 CTTGTACCGGTTAGATTG-AAAATTACATATTACATTATAC-TTTGGGTTCGATG-TTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
54427 CGACACTTTTTATATATGGATCGACACTTTATGGTTACACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
54492 AAAA
196 AAAA
54496 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
54561 CTTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
54626 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
54691 AAAA
196 AAAA
* *
54695 TATCGACACAAACTAAAATAGTGTCGACACATTAGTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
54760 CTTGTACCGGTTAGATTGAAAAATTACATATTATATTATACTTTTGGGTT-TAGGGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA-TGTTTTTGGGA
* *
54824 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCATGTTGTCCAT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCAT
54877 ATTGTAAATT
Statistics
Matches: 742, Mismatches: 29, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
196 156 0.21
197 34 0.05
198 49 0.07
199 503 0.68
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAA
Found at i:54656 original size:395 final size:398
Alignment explanation
Indices: 53903--54876 Score: 1717
Period size: 395 Copynumber: 2.5 Consensus size: 398
53893 TTTAAATTAG
* *
53903 TATCGACACAAACT-AAAACGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
53967 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
54032 CGACACTTTTTATATATGGATCAACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
* * *
54097 AAAATATCGACACAAACTAAAATAGTGTCGACAGATTATTTAGACATATTCTCTCATAAAACTGG
196 AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
54162 TATACTTGTACCGGTTAGATGGAAAAATTATATATTACATTATACTTTTGGGTTCGATGTTTTTG
261 TATACTTGTACCGGTTAGATGGAAAAATTATATATTACATTATACTTTTGGGTTCGATGTTTTTG
*
54227 GGATTGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
54292 AACAAAAA
391 AACAAAAA
* * *
54300 TATCGAAACAAACTAAAAAAATGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
54365 CTTGTACCGGTTAGATTG-AAAATTACATATTACATTATAC-TTTGGGTTCGATG-TTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
54427 CGACACTTTTTATATATGGATCGACACTTTATGGTTACACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
54492 AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
*
54557 TATACTTGTACCGGTTAGATTGAAAAATTACT-TATTACATTATACTTTTGGGTTCGATGTTTTT
261 TATACTTGTACCGGTTAGATGGAAAAATTA-TATATTACATTATACTTTTGGGTTCGATGTTTTT
54621 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
54686 GAACAAAAA
390 GAACAAAAA
* *
54695 TATCGACACAAACTAAAATAGTGTCGACACATTAGTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
54760 CTTGTACCGGTTAGATTGAAAAATTACATATTATATTATACTTTTGGGTT-TAGGGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA-TGTTTTTGGGA
* *
54824 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCATGTTGTCCAT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCAT
54877 ATTGTAAATT
Statistics
Matches: 548, Mismatches: 23, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
395 346 0.63
396 36 0.07
397 44 0.08
398 122 0.22
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (398 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TATACTTGTACCGGTTAGATGGAAAAATTATATATTACATTATACTTTTGGGTTCGATGTTTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
AACAAAAA
Found at i:55035 original size:19 final size:19
Alignment explanation
Indices: 54989--55037 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
54979 TTATATTCAC
*
54989 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
* *
55008 ATACAAAATTATACATCTT
1 ATACAAAATTATAAATCGT
55027 ATACAAAATTA
1 ATACAAAATTA
55038 ACCCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:55626 original size:4 final size:4
Alignment explanation
Indices: 55617--55641 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
55607 AATGTCCTTT
55617 CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA C
55642 CAATCTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:56870 original size:33 final size:33
Alignment explanation
Indices: 56833--56898 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
56823 CATCTTAATA
*
56833 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
56866 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
56899 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:56956 original size:21 final size:21
Alignment explanation
Indices: 56931--56974 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
56921 CCCCTTATGC
56931 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
56952 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
56973 CT
1 CT
56975 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:59204 original size:17 final size:17
Alignment explanation
Indices: 59182--59227 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
59172 ATATATCCGG
59182 TATCATATTACCGGTTT
1 TATCATATTACCGGTTT
*
59199 TATCATTTTGATACCGGTTT
1 TATCA-TAT--TACCGGTTT
59219 TATCATATT
1 TATCATATT
59228 TTACCTGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 6 0.25
18 2 0.08
19 2 0.08
20 14 0.58
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.50
Consensus pattern (17 bp):
TATCATATTACCGGTTT
Found at i:59412 original size:20 final size:19
Alignment explanation
Indices: 59368--59412 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
59358 CCGGTAACGA
59368 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
59387 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCAT-TT
59408 TTTAC
1 TTTAC
59413 ATGGTATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.56
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:59957 original size:229 final size:229
Alignment explanation
Indices: 59462--60181 Score: 1320
Period size: 227 Copynumber: 3.1 Consensus size: 229
59452 ACTTTTATAC
*
59462 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAAATT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
59527 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
59592 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
* * *
59657 TATAATAATAAATATGTTTTCCACAGTGAAATAA
196 GATAATAATAAATATATTTTTCACAGTGAAATAA
*
59691 GTATGGACACTTTTATAAAAATGATATATACTTTTTTAAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
59756 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATT-ATTT-AGAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
*
59819 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
59884 GATAATAATAAATATATTTTTCACAGTGAAATAA
196 GATAATAATAAATATATTTTTCACAGTGAAATAA
59918 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATT
1 GTATGGACACTTTTATAAAAATGATATATAC-TTTTTTTAAAGTTATGTAATTTATGTTTCAATT
*
59983 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAA
65 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
60048 ATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
130 ATTATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
60113 AAGATAATAATAAATATA-TTTTCACAGTGAAATAA
194 AAGATAATAATAAATATATTTTTCACAGTGAAATAA
*
60148 GTATGGACACTTTTATAAAAATGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
60182 ACAATATAAC
Statistics
Matches: 475, Mismatches: 12, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
227 147 0.31
228 74 0.16
229 107 0.23
230 77 0.16
231 70 0.15
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (229 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
GATAATAATAAATATATTTTTCACAGTGAAATAA
Done.