Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007972.1 Hibiscus syriacus cultivar Beakdansim tig00110409_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: 115004
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:1703 original size:297 final size:300
Alignment explanation
Indices: 1156--1742 Score: 1013
Period size: 297 Copynumber: 2.0 Consensus size: 300
1146 TTAAAATTAG
* *
1156 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGATATATTT
1 CGACACAATAATAAAAAGTGTCGATATAGGTTGTAGACCTATTCGC-CATAAAACCGATATATTT
1221 ATACCGGTTATATTACAAAATTATCTATACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
65 ATACCGGTTATATTACAAAATTATCTATACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
1286 ACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAA
130 ACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAA
1351 AAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTT-TATT
195 AAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATT
1415 ACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
260 ACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
*
1456 CGACACAA-AATAAAAAGTGTCGATATAGGTTGTAGACCTATTCG-C-TAAAACCGGTATATTTA
1 CGACACAATAATAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCCATAAAACCGATATATTTA
* *
1518 TACTGGTTATATTTCAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
66 TACCGGTTATATTACAAAATTATCTA-TACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
1583 ACTTTTTGACAAGGTATCGACACA-TTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
130 AC-TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
* * * *
1647 AAAAGTGTCGATATAGGTTGTATACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATAT
194 AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATAT
* *
1712 TATAAAATTATCTATTACATTATAATTCTGG
259 TACAAAATTATCTAGTACATTATAATTCTGG
1743 GTTCCGATGT
Statistics
Matches: 273, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
296 39 0.14
297 138 0.51
298 53 0.19
299 35 0.13
300 8 0.03
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (300 bp):
CGACACAATAATAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCCATAAAACCGATATATTTA
TACCGGTTATATTACAAAATTATCTATACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACA
CTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAA
AAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATTA
CAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
Found at i:1741 original size:182 final size:182
Alignment explanation
Indices: 1438--1919 Score: 788
Period size: 182 Copynumber: 2.7 Consensus size: 182
1428 GTACATTATA
*
1438 ATTCTGGACATAAAGTACCGACACAA-AATAAAAAGTGTCGATATAGGTTGTAGACCTATTCG--
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
1500 C-TAAAACCGGTATATTTATACTGGTTATATT-TCAAAATTATCTATTACATTATAATTCTGGGT
66 CATAAAACCGGTATATTTATACCGGTTATATTAT-AAAATTATCTATTACATTATAATTCTGGGT
1563 TCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACA-TTTTCTTCC
130 TCCGATGTGTAAATGTCGACAC-TTTTGACAAGGTATCGACACATTTTTCTTCC
*
1616 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTATACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1681 CATAAAACCGGTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTT
1746 CCGATGTGTAAATGTCGACACTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTGACAAGGTATCGACACATTTTTCTTCC
*
1798 ATTCTGGACATAAAGTACC-A-ACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* * * * *
1861 AATAAAACTGGT-T-CTTATA-CGGTTATATTACAAAATTATCTAGTACATTATAATTCTGG
66 CATAAAACCGGTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGG
1920 ACATAAAGTA
Statistics
Matches: 288, Mismatches: 10, Indels: 13
0.93 0.03 0.04
Matches are distributed among these distances:
177 38 0.13
178 31 0.11
179 35 0.12
180 51 0.18
181 23 0.08
182 109 0.38
183 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (182 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTT
CCGATGTGTAAATGTCGACACTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:2025 original size:117 final size:114
Alignment explanation
Indices: 1798--2036 Score: 372
Period size: 117 Copynumber: 2.1 Consensus size: 114
1788 TTTTTCTTCC
*
1798 ATTCTGGACATAAAGTACCAACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAA
1 ATTCTGGACATAAAGTACCAACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAA
*
1863 TAAAACTGGTTCTTATACGGTTATATTACAAAATTATCTAGTACATTATA
66 TAAAACCGGTTCTTATACGGTTATATTACAAAATTATCTA-TACATTATA
*
1913 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACC-A-ACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * *
1978 CATAAAACCGGTATATTTATACGGTTATATTTCAAAATTATCT-TACATTATA
64 AATAAAACCGGT-T-CTTATACGGTTATATTACAAAATTATCTATACATTATA
2030 ATTCTGG
1 ATTCTGG
2037 GTTCCGATGT
Statistics
Matches: 114, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
115 19 0.17
116 1 0.01
117 67 0.59
118 1 0.01
119 26 0.23
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.33
Consensus pattern (114 bp):
ATTCTGGACATAAAGTACCAACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAA
TAAAACCGGTTCTTATACGGTTATATTACAAAATTATCTATACATTATA
Found at i:2093 original size:476 final size:478
Alignment explanation
Indices: 1156--2312 Score: 2032
Period size: 476 Copynumber: 2.4 Consensus size: 478
1146 TTAAAATTAG
* *
1156 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGATATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1221 ATACCGGTTATATTACAAAATTATCTA-TACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
1285 CACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
131 CACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
1350 AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTTATT
196 AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTTATT
1415 ACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTACCGACACAAAATAAAAAGTGTCGAT
261 ACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTACCGACACAAAATAAAAAGTGTCGAT
1480 ATAGGTTGTAGACCTATTCGCTAAAACCGGTATATTTATACTGGTTATATTTCAAAATTATCTAT
326 ATAGGTTGTAGACCTATTCGCTAAAACCGGTATATTTATACTGGTTATATTTCAAAATTATC-AT
1545 TACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTT
390 TACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTT
1610 TCTTCCATTCTGGACATAAAGTAC
455 TCTTCCATTCTGGACATAAAGTAC
*
1634 CGACACAATATTAAAAAGTGTCGATATAGGTTGTATACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
1699 ATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
1764 CACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACC-A-ACAATATTA
131 CACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
*
1827 AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACTGGT-T-CTTATA-CGGTTATAT
196 AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTT-TAT
1889 TACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCG
260 TACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTACCGACACAAAA-TAAAAAGTGTCG
1954 ATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC-GGTTATATTTCAAAATTA
324 ATATAGGTTGTAGACCTATTCG--C-TAAAACCGGTATATTTATACTGGTTATATTTCAAAATTA
2018 TC-TTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACAC
386 TCATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACAC
2082 ATTTTCTTCCATTCTGGACATAAAGTAC
451 ATTTTCTTCCATTCTGGACATAAAGTAC
2110 CGACACAATATTAAAAAGTGTCG--ATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* * * * *
2173 ATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTTCTGATGTTTTTTCAA--T
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TGTAAATGT
* *
2236 CGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTTGACATAAAGTACCGACACAAT
128 CGACAC-TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAAT
2301 ATTAAAAAGTGT
192 ATTAAAAAGTGT
2313 GAAAACTTTG
Statistics
Matches: 653, Mismatches: 14, Indels: 24
0.95 0.02 0.03
Matches are distributed among these distances:
474 93 0.14
475 68 0.10
476 196 0.30
477 59 0.09
478 127 0.19
479 110 0.17
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (478 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTTATT
ACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTACCGACACAAAATAAAAAGTGTCGAT
ATAGGTTGTAGACCTATTCGCTAAAACCGGTATATTTATACTGGTTATATTTCAAAATTATCATT
ACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTT
CTTCCATTCTGGACATAAAGTAC
Found at i:2148 original size:294 final size:298
Alignment explanation
Indices: 1616--2212 Score: 1021
Period size: 297 Copynumber: 2.0 Consensus size: 298
1606 ATTTTCTTCC
* *
1616 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTATACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1681 CATAAAACCGGTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTATAAAATTATC-ATTACATTATAATTCTGGGTT
1746 CCGATGTGTAAATGTCGACACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAA
130 CCGATGTGTAAATGTCGACACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAA
*
1811 AGTACCAACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACTGGT-T-
195 AGTACCAACAATATTAAAAAGTGTCGA-ATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATA
*
1874 CTTATA-CGGTTATATTACAAAATTATCTAGTACATTATA
259 CTTATACCGATTATATTACAAAATTATCTAGTACATTATA
1913 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1978 CATAAAACCGGTATATTTATA-CGGTTATATT-TCAAAATTATC-TTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTAT-AAAATTATCATTACATTATAATTCTGGGTT
2040 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACA-TTTTCTTCCATTCTGGACATA
130 CCGATGTGTAAATGTCGACAC-TTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATA
*
2104 AAGTACCGACACAATATTAAAAAGTGTCG-ATAGGTTGTAGACCTATTCGCTCATAAAACCGGTA
194 AAGTACC-A-ACAATATTAAAAAGTGTCGAATAGGTTGTAGACCTATTCGCTAATAAAACCGGTA
* *
2168 TATTTATACCGATTATATTACAAAATTATCTATTACATTATA
257 TACTTATACCGATTATATTACAAAATTATCTAGTACATTATA
2210 ATT
1 ATT
2213 ATGGGTTCTG
Statistics
Matches: 286, Mismatches: 7, Indels: 14
0.93 0.02 0.05
Matches are distributed among these distances:
294 101 0.35
295 24 0.08
296 43 0.15
297 118 0.41
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (298 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTATAAAATTATCATTACATTATAATTCTGGGTTC
CGATGTGTAAATGTCGACACTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAA
GTACCAACAATATTAAAAAGTGTCGAATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACT
TATACCGATTATATTACAAAATTATCTAGTACATTATA
Found at i:2309 original size:182 final size:177
Alignment explanation
Indices: 1913--2312 Score: 624
Period size: 182 Copynumber: 2.2 Consensus size: 177
1903 GTACATTATA
*
1913 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGA-ATAGGTTGTAGACCTATTCGCT
* * *
1978 CATAAAACCGGTATATTTATACGGTTATATTTCAAAATTATCTTACATTATAATTCTGGGTTCCG
65 CATAAAACCGGTATATTTATACGATTATATTACAAAATTATCTTACATTATAATTATGGGTTCCG
*
2043 ATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTCTTCC
130 ATGTGTAAA-GTCGACACTTTTTGAAAAGGTATCGACACATTTTCTTCC
2092 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCG-ATAGGTTGTAGACCTATTCGCTC
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGAATAGGTTGTAGACCTATTCGCTC
2156 ATAAAACCGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTTC
66 ATAAAACCGGTATATTTATA-CGATTATATTACAAAATTATC--TTACATTATAATTATGGGTTC
* * *
2221 TGATGTTTTTTCAA-TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
128 CGATG---TGTAAAGTCGACACTTTTTGAAAAGGTATCGACACA-TTTTCTTCC
*
2274 ATTCTTGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
2313 GAAAACTTTG
Statistics
Matches: 205, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
177 43 0.21
178 19 0.09
179 40 0.20
180 24 0.12
181 28 0.14
182 47 0.23
183 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (177 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGAATAGGTTGTAGACCTATTCGCTC
ATAAAACCGGTATATTTATACGATTATATTACAAAATTATCTTACATTATAATTATGGGTTCCGA
TGTGTAAAGTCGACACTTTTTGAAAAGGTATCGACACATTTTCTTCC
Found at i:3529 original size:6 final size:6
Alignment explanation
Indices: 3519--3570 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
3509 CTTGTTTGGA
* * * *
3519 TCATCA TCATCA TCATCG TCATCG TCATCT TCATCG TCATCT TCATCG
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
3567 TCAT
1 TCAT
3571 TGACCGCTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.38
Consensus pattern (6 bp):
TCATCG
Found at i:3535 original size:12 final size:12
Alignment explanation
Indices: 3519--3570 Score: 77
Period size: 12 Copynumber: 4.3 Consensus size: 12
3509 CTTGTTTGGA
* *
3519 TCATCATCATCA
1 TCATCTTCATCG
*
3531 TCATCGTCATCG
1 TCATCTTCATCG
3543 TCATCTTCATCG
1 TCATCTTCATCG
3555 TCATCTTCATCG
1 TCATCTTCATCG
3567 TCAT
1 TCAT
3571 TGACCGCTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.38
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:5405 original size:200 final size:199
Alignment explanation
Indices: 5014--5766 Score: 1200
Period size: 197 Copynumber: 3.8 Consensus size: 199
5004 AACATTAAAC
* * * *
5014 AGTGTCGATACA-TATATA-CCA-ATTCTCCCATAAAACCGGTATAC-T-TACCGGTTAGATTGC
1 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
5074 AAAATTACCTAATACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTATATATGG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTATATATGG
5139 ATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTA
131 ATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTA
5204 CAAA
196 CAAA
* * * *
5208 AGTGTCGACACATTATTTAGGCCTATTCTCTCATAAAACCGGTATACTTGTACGGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
5273 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACAC-TTTTATATATG
* * *
5338 GATCGATACTTTATTGTTGCACCATATTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
130 GATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
5403 ACAAA
195 ACAAA
*
5408 AGTGTCGATAC---ATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACGGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
5470 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACAC-TTTTATATATG
* * * *
5535 GATCGACACTTTATTGTTGCACCCTGTTTGTCATTCATTCTTGACCAAAAATATCGACACAAACT
130 GATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
5600 ACAAA
195 ACAAA
*
5605 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* * **
5670 AAAACTACCTATTACATTATACTTTTGGGTTTCGATGTTTATATGATCGACACTTTT-TATATGG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTATATATGG
*
5734 ATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 ATCGACACTTTATGGTTGCACCATGTTTGCCAT
5767 ATTGTAAATT
Statistics
Matches: 521, Mismatches: 29, Indels: 14
0.92 0.05 0.02
Matches are distributed among these distances:
194 11 0.02
195 5 0.01
196 1 0.00
197 211 0.40
198 39 0.07
199 68 0.13
200 186 0.36
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (199 bp):
AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTATATATGG
ATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTA
CAAA
Found at i:5730 original size:18 final size:19
Alignment explanation
Indices: 5707--5744 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
5697 GGTTTCGATG
5707 TTTATAT-GATCGACACTT
1 TTTATATGGATCGACACTT
5725 TTTATATGGATCGACACTT
1 TTTATATGGATCGACACTT
5744 T
1 T
5745 ATGGTTGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (19 bp):
TTTATATGGATCGACACTT
Found at i:6011 original size:18 final size:18
Alignment explanation
Indices: 5988--6032 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
5978 TCTCATTCAT
*
5988 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
6006 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
6025 AATTATAA
1 AATTATAA
6033 ATCTTATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.33
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:6024 original size:19 final size:19
Alignment explanation
Indices: 6000--6044 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
5990 TTATATTCAC
6000 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
6019 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
6038 ATACAAA
1 ATACAAA
6045 TTAACCCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:7635 original size:15 final size:14
Alignment explanation
Indices: 7596--7638 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
7586 CATCGACTTC
*
7596 CTTCCTCCTCATTT
1 CTTCCTCCTCTTTT
7610 CTTCCAT-CTCTTCTT
1 CTTCC-TCCTCTT-TT
7625 CTTCCTCCTCTTTT
1 CTTCCTCCTCTTTT
7639 ATTCTTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.05, C:0.42, G:0.00, T:0.53
Consensus pattern (14 bp):
CTTCCTCCTCTTTT
Found at i:7875 original size:32 final size:32
Alignment explanation
Indices: 7833--7893 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
7823 TTAATATCAC
*
7833 CCCTTAACACCCCAACTTCTTTCACCACTTCA
1 CCCTCAACACCCCAACTTCTTTCACCACTTCA
* * *
7865 CCCTCAACACCTCTACTTTTTTCACCACT
1 CCCTCAACACCCCAACTTCTTTCACCACT
7894 CCATTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (32 bp):
CCCTCAACACCCCAACTTCTTTCACCACTTCA
Found at i:8032 original size:33 final size:33
Alignment explanation
Indices: 7972--8037 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
7962 GACTTTAATA
*
7972 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* * * *
8005 TCACTCCTCAACACCTCTACTTTTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
8038 CCATCTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.32
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:8096 original size:21 final size:21
Alignment explanation
Indices: 8071--8135 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
8061 CCCCTTATGC
* *
8071 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
8092 CTCTCAAGTTTCTATTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
8113 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
8134 CT
1 CT
8136 TGATTGTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:8110 original size:147 final size:143
Alignment explanation
Indices: 7823--8112 Score: 526
Period size: 147 Copynumber: 2.0 Consensus size: 143
7813 CGTCACCATC
7823 TTAATATCACCCCTTAACACCCCAACTTCTTTCACCACTTCACCCTCAACACCTCTACTTTTTTC
1 TTAATATCACCCCTTAACACCCCAACTTCTTTCACCACTTCACCCTCAACACCTCTACTTTTTTC
7888 ACCACTCCATTATTTTTTTCCACTACCCCCTTATGCCTCTCAAGTGTATCTTCAACTCTCTCAAG
66 ACCACTCCATTATTTTTTTCCACTACCCCCTTATGCCTCTCAAGTGTATCTTCAACTCTCTCAAG
*
7953 TTTCTCTTCGACT
131 TTTCTATTCGACT
7966 TTAATATCACCCCTTAACACCCCAACTTCTTTCACCACTTCACTCCTCAACACCTCTACTTTTTT
1 TTAATATCACCCCTTAACACCCCAACTTCTTTCACCACTTCAC-CCTCAACACCTCTACTTTTTT
*
8031 CACCACTCCATCTATTTTTCCTTCCACTACCCCCTTATGCCTCTCAAGTGTATCTTCGACTCTCT
65 CACCACTCCAT-TATTTTT--TTCCACTACCCCCTTATGCCTCTCAAGTGTATCTTCAACTCTCT
8096 CAAGTTTCTATTCGACT
127 CAAGTTTCTATTCGACT
8113 CTATCAAGTT
Statistics
Matches: 141, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
143 43 0.30
144 32 0.23
145 7 0.05
147 59 0.42
ACGTcount: A:0.21, C:0.38, G:0.04, T:0.37
Consensus pattern (143 bp):
TTAATATCACCCCTTAACACCCCAACTTCTTTCACCACTTCACCCTCAACACCTCTACTTTTTTC
ACCACTCCATTATTTTTTTCCACTACCCCCTTATGCCTCTCAAGTGTATCTTCAACTCTCTCAAG
TTTCTATTCGACT
Found at i:10568 original size:20 final size:18
Alignment explanation
Indices: 10522--10568 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
10512 TCCGGTAACA
10522 TTTTACCGGTTTTATTAT
1 TTTTACCGGTTTTATTAT
10540 TTTGATACCGGTTTTATCATAT
1 TTT--TACCGGTTTTAT--TAT
10562 TTTTACC
1 TTTTACC
10569 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
20 16 0.64
22 6 0.24
ACGTcount: A:0.19, C:0.15, G:0.11, T:0.55
Consensus pattern (18 bp):
TTTTACCGGTTTTATTAT
Found at i:10612 original size:181 final size:182
Alignment explanation
Indices: 10308--10781 Score: 691
Period size: 181 Copynumber: 2.6 Consensus size: 182
10298 CGTACTTACG
* * *
10308 AAAGTATCAACACTTTCAATATATCCGGTATCGTTTTATCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
10373 TATCATATTTTTGCCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTATAAAGTATCGACACATTAT
*
10438 AGG-TGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCTTTATA-T
131 AGGAT-CTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
10489 AAAGTATCGACACTTTCAATATATCCGGTAACATTTTACCGGTTTTATTATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
10554 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTATAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTATAAAGTATCGACACATTAT
* * * *
10619 AGGATTTAAAACTGCTTCTCTTTTAAATTTACGAAGTGTCGATCCTTATATT
131 AGGATCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * **
10671 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
10736 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTA
10782 ATTTGGATCG
Statistics
Matches: 262, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 162 0.62
182 100 0.38
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTATAAAGTATCGACACATTAT
AGGATCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:11695 original size:5 final size:5
Alignment explanation
Indices: 11685--11718 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
11675 ATTTAATCAC
*
11685 AATTT AATTT AATTT AATTT AA-TA AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT
11719 TTAAATTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:11725 original size:13 final size:14
Alignment explanation
Indices: 11685--11718 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11675 ATTTAATCAC
*
11685 AATTTAATTTAATTT
1 AATTTAA-TAAATTT
11700 AATTTAATAAATTT
1 AATTTAATAAATTT
11714 AATTT
1 AATTT
11719 TTAAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTAATAAATTT
Found at i:12807 original size:14 final size:14
Alignment explanation
Indices: 12790--12832 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
12780 TTGTCTATAT
* *
12790 GCAGAGATTCTTTC
1 GCAGGGATTATTTC
*
12804 GCAGGGATTATTTT
1 GCAGGGATTATTTC
12818 GCAGGGATTAATTTC
1 GCAGGGATT-ATTTC
12833 CATTACAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (14 bp):
GCAGGGATTATTTC
Found at i:13508 original size:17 final size:18
Alignment explanation
Indices: 13486--13527 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
13476 TATTTAATTG
13486 AATTAAAATAATG-ATTA
1 AATTAAAATAATGTATTA
*
13503 AATTAATATAATGTATTA
1 AATTAAAATAATGTATTA
13521 ATATTAA
1 A-ATTAA
13528 GAGAAAATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.55
18 5 0.23
19 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
AATTAAAATAATGTATTA
Found at i:13824 original size:20 final size:20
Alignment explanation
Indices: 13776--13825 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
13766 AATTGGGAAA
*
13776 ATCGCAATACGATACTGACT
1 ATCGCAATGCGATACTGACT
*
13796 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
13816 ATCGCAATGC
1 ATCGCAATGC
13826 TATAATACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:14414 original size:20 final size:19
Alignment explanation
Indices: 14389--14440 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
14379 GAGAATGAAA
14389 ATCGCAACGCGGAAATAACT
1 ATCGCAACGC-GAAATAACT
**
14409 ATCGCAACGCGAAATAAAA
1 ATCGCAACGCGAAATAACT
14428 ATCGC-ACGCGAAA
1 ATCGCAACGCGAAA
14441 CCAAAATCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 8 0.27
19 12 0.40
20 10 0.33
ACGTcount: A:0.44, C:0.25, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATAACT
Found at i:14438 original size:18 final size:19
Alignment explanation
Indices: 14386--14451 Score: 80
Period size: 18 Copynumber: 3.5 Consensus size: 19
14376 TTCGAGAATG
14386 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
14406 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
14425 AAAATCGC-ACGCGAAACC
1 AAAATCGCAACGCGAAATA
14443 AAAATCGCA
1 AAAATCGCA
14452 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
18 16 0.41
19 12 0.31
20 11 0.28
ACGTcount: A:0.47, C:0.26, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:14469 original size:19 final size:19
Alignment explanation
Indices: 14447--14497 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
14437 GAAACCAAAA
*
14447 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
14466 TCGCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
14485 TCGCGTTGCGATT
1 TCGCGTTGCGATT
14498 CTCTCGTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:14538 original size:14 final size:14
Alignment explanation
Indices: 14488--14547 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
14478 TTTCATTTCG
14488 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
14502 CGTCGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
14521 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
14535 CGTTGCGATTCTC
1 CGTTGCGATTCTC
14548 ATTATCTCGT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 23 0.62
16 2 0.05
17 2 0.05
19 10 0.27
ACGTcount: A:0.10, C:0.28, G:0.23, T:0.38
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:14550 original size:33 final size:33
Alignment explanation
Indices: 14469--14564 Score: 120
Period size: 33 Copynumber: 2.9 Consensus size: 33
14459 TTTCATTTCG
* *
14469 CGTTGTGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTCTCATTTCGCGTTGCGATTCTCT
* **
14502 CGTCGCGATAGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTCTCATTTCGCGTTGCGATTCTCT
* *
14535 CGTTGCGATTCTCATTATCTCGTTGTGATT
1 CGTTGCGATTCTCATT-TCGCGTTGCGATT
14565 TTCATTTCAA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 42 0.79
34 11 0.21
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTCTCATTTCGCGTTGCGATTCTCT
Found at i:14557 original size:20 final size:20
Alignment explanation
Indices: 14532--14570 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14522 GTTGCGATTC
14532 TCTCGTTGCGATTCTCATTA
1 TCTCGTTGCGATTCTCATTA
* *
14552 TCTCGTTGTGATTTTCATT
1 TCTCGTTGCGATTCTCATT
14571 TCAACCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.21, G:0.15, T:0.51
Consensus pattern (20 bp):
TCTCGTTGCGATTCTCATTA
Found at i:16741 original size:21 final size:21
Alignment explanation
Indices: 16717--16867 Score: 58
Period size: 21 Copynumber: 7.2 Consensus size: 21
16707 TCATTCCTCG
16717 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** *
16738 AGAGGCCACTGTCATCC-CTCA
1 AGAGTCCCCTCCCA-CCGTTCA
* * * *
16759 AGAGTCCACTCCTATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
* ** *
16780 AGAGGCCCCTATCATTCC--TCG
1 AGAGTCCCCTCCCA--CCGTTCA
16801 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
16822 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
16843 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
16864 AGAG
1 AGAG
16868 CCCGATTCAC
Statistics
Matches: 86, Mismatches: 37, Indels: 15
0.62 0.27 0.11
Matches are distributed among these distances:
19 2 0.02
20 2 0.02
21 78 0.91
22 3 0.03
23 1 0.01
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:16741 original size:42 final size:42
Alignment explanation
Indices: 16665--16867 Score: 203
Period size: 42 Copynumber: 4.8 Consensus size: 42
16655 GACTCGCCTG
* * * * * * *
16665 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
16707 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * * * * * *
16749 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
16791 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
16833 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
16868 CCCGATTCAC
Statistics
Matches: 132, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
41 4 0.03
42 126 0.95
43 2 0.02
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:16846 original size:84 final size:84
Alignment explanation
Indices: 16662--16837 Score: 352
Period size: 84 Copynumber: 2.1 Consensus size: 84
16652 CCCGACTCGC
16662 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
16727 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
16746 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
16811 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
16830 CTGTCATC
1 CTGTCATC
16838 GTTGAAGAGG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:16867 original size:84 final size:84
Alignment explanation
Indices: 16662--16867 Score: 297
Period size: 84 Copynumber: 2.5 Consensus size: 84
16652 CCCGACTCGC
* * * *
16662 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
16727 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* * * *
16746 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
16811 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
** *
16830 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
16868 CCCGATTCAC
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
84 110 0.96
85 4 0.04
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:18234 original size:14 final size:14
Alignment explanation
Indices: 18215--18250 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
18205 ATTATTTAAT
18215 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
18229 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
18243 TGATTTGT
1 TGATTTGT
18251 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:18431 original size:19 final size:19
Alignment explanation
Indices: 18409--18559 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
18399 CGAAATTAAA
18409 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
18428 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
18443 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
18461 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
18475 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
18494 TTCGCATTGTGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
18509 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
18527 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
18546 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
18560 AGACATTAAG
Statistics
Matches: 93, Mismatches: 23, Indels: 31
0.63 0.16 0.21
Matches are distributed among these distances:
14 27 0.29
16 6 0.06
17 6 0.06
19 44 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:18455 original size:33 final size:32
Alignment explanation
Indices: 18413--18539 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
18403 ATTAAATTCG
18413 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
18446 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
18479 CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
18512 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
18540 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:18491 original size:66 final size:66
Alignment explanation
Indices: 18406--18538 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
18396 ACGCGAAATT
*
18406 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
18471 G
66 G
* *
18472 AAATTAGCGTTGCGATTTTCATTTCGCATTGTGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
18537 G
66 G
18538 A
1 A
18539 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:20848 original size:12 final size:12
Alignment explanation
Indices: 20831--20855 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20821 TCTTCGGGGA
20831 CTTTTTCTTCTT
1 CTTTTTCTTCTT
20843 CTTTTTCTTCTT
1 CTTTTTCTTCTT
20855 C
1 C
20856 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:21064 original size:24 final size:24
Alignment explanation
Indices: 21030--21083 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
21020 CTGAAACATC
*
21030 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
21054 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
21078 ATCAAA
1 ATCAAA
21084 TTTCAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:21893 original size:20 final size:21
Alignment explanation
Indices: 21868--21919 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
21858 TTTTCCTAAT
*
21868 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
21888 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
21909 TCGCAATGCGA
1 TCGCAATGCGA
21920 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:21993 original size:20 final size:20
Alignment explanation
Indices: 21904--21995 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
21894 TGCGAATTTG
* *
21904 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
21924 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
21944 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
21965 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
21985 GAAAATCGCAA
1 GAAAATCGCAA
21996 TCATCTTCAA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:22284 original size:20 final size:20
Alignment explanation
Indices: 22209--22276 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
22199 CAACGGGGAA
22209 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
22229 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
22249 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
22269 ATCGCAAC
1 ATCGCAAC
22277 TAGAAAATCG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:22288 original size:34 final size:34
Alignment explanation
Indices: 22193--22296 Score: 109
Period size: 40 Copynumber: 2.9 Consensus size: 34
22183 ATTCATTTGA
** *
22193 CTATCGCAACGGGGAAATCGCAACGCGAAAATGG
1 CTATCGCAACAAGAAAATCGCAACGCGAAAATGG
22227 CTATCGCAATTCGAAATGAAAAATCGCAACGCGAAAATGG
1 CTATCGCAA--C--AA-G-AAAATCGCAACGCGAAAATGG
* *
22267 CTATCGCAACTAGAAAATCGCAATGCGAAA
1 CTATCGCAACAAGAAAATCGCAACGCGAAA
22297 TGAAAATTGC
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
34 25 0.42
35 1 0.02
36 2 0.03
38 1 0.02
39 1 0.02
40 29 0.49
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (34 bp):
CTATCGCAACAAGAAAATCGCAACGCGAAAATGG
Found at i:22327 original size:14 final size:14
Alignment explanation
Indices: 22308--22361 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
22298 GAAAATTGCA
22308 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
22322 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
22339 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
22355 TTGCGAT
1 TTGCGAT
22362 AGTCAGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:22327 original size:33 final size:34
Alignment explanation
Indices: 22290--22360 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 34
22280 AAAATCGCAA
22290 TGCGAAATGAAAATT-GCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATTCGCATTGCGATTTTCTCGT
* *** *
22323 TGCG-ATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATTCGCATTGCGATTTTCTCGT
22356 TGCGA
1 TGCGA
22361 TAGTCAGTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
32 5 0.16
33 26 0.84
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (34 bp):
TGCGAAATGAAAATTCGCATTGCGATTTTCTCGT
Found at i:22507 original size:14 final size:14
Alignment explanation
Indices: 22488--22524 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
22478 CATCAATTAA
22488 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
22502 ACAAATCATCTTTT
1 ACAAATCAACATTT
22516 ACAAATCAA
1 ACAAATCAA
22525 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:24458 original size:14 final size:15
Alignment explanation
Indices: 24426--24522 Score: 60
Period size: 14 Copynumber: 6.3 Consensus size: 15
24416 AATGCGAAAT
*
24426 GAAAATCACAACGAC
1 GAAAATCGCAACGAC
*
24441 -AAAATCGCAATGCGAAAA
1 GAAAATCGCAA--CG--AC
24459 GAAAATCGCAACGAC
1 GAAAATCGCAACGAC
24474 -AAAATCGCAATGCGA-
1 GAAAATCGCAA--CGAC
*
24489 AATGAAATCGCAACGAC
1 GA--AAATCGCAACGAC
24506 -AAAATCGCAACG-C
1 GAAAATCGCAACGAC
24519 GAAA
1 GAAA
24523 CACAAATCAC
Statistics
Matches: 67, Mismatches: 3, Indels: 25
0.71 0.03 0.26
Matches are distributed among these distances:
13 1 0.01
14 33 0.49
15 1 0.01
16 10 0.15
17 2 0.03
18 10 0.15
19 10 0.15
ACGTcount: A:0.51, C:0.23, G:0.18, T:0.09
Consensus pattern (15 bp):
GAAAATCGCAACGAC
Found at i:24465 original size:19 final size:19
Alignment explanation
Indices: 24441--24501 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 19
24431 TCACAACGAC
24441 AAAATCGCAATGCGAAAAG
1 AAAATCGCAATGCGAAAAG
*
24460 AAAATCGCAA--CG---AC
1 AAAATCGCAATGCGAAAAG
*
24474 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAAAG
24493 -AAATCGCAA
1 AAAATCGCAA
24502 CGACAAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
14 11 0.32
16 2 0.06
17 2 0.06
18 9 0.26
19 10 0.29
ACGTcount: A:0.51, C:0.20, G:0.18, T:0.11
Consensus pattern (19 bp):
AAAATCGCAATGCGAAAAG
Found at i:24502 original size:32 final size:33
Alignment explanation
Indices: 24411--24522 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
24401 GGAAATGGCT
*
24411 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
24444 ATCGCAATGCGAAAAGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
24477 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
24509 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
24523 CACAAATCAC
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 29 0.39
33 46 0.61
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:24570 original size:14 final size:14
Alignment explanation
Indices: 24551--24608 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
24541 TTTCATTTCA
24551 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
24565 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
24581 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
24597 CGTTGCGATTTT
1 CGTTGCGATTTT
24609 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:24615 original size:33 final size:33
Alignment explanation
Indices: 24538--24624 Score: 140
Period size: 32 Copynumber: 2.7 Consensus size: 33
24528 ATCACATTGT
* *
24538 GATTTTCATTTCACGTTGCGATTTTGTCGTTGC
1 GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
24571 GA-TTTCATTTCGCATTGCGATTTTGTCGTTGC
1 GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
*
24603 GATTTTCATTTCGCATTACGAT
1 GATTTTCATTTCGCATTGCGAT
24625 AGCCATTTCC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
32 30 0.60
33 20 0.40
ACGTcount: A:0.15, C:0.18, G:0.20, T:0.47
Consensus pattern (33 bp):
GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
Found at i:24631 original size:19 final size:20
Alignment explanation
Indices: 24609--24652 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
24599 TTGCGATTTT
24609 CATTT-CGCATTACGATAGC
1 CATTTCCGCATTACGATAGC
* * *
24628 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTACGATAGC
24648 CATTT
1 CATTT
24653 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTACGATAGC
Found at i:24646 original size:20 final size:20
Alignment explanation
Indices: 24621--24663 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
24611 TTTCGCATTA
24621 CGATAGCCATTTCCGCGTTG
1 CGATAGCCATTTCCGCGTTG
* * *
24641 CGATAGTCATTTTCGTGTTG
1 CGATAGCCATTTCCGCGTTG
24661 CGA
1 CGA
24664 AAGTAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (20 bp):
CGATAGCCATTTCCGCGTTG
Found at i:25165 original size:18 final size:18
Alignment explanation
Indices: 25139--25183 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
25129 GTCGATCAGA
25139 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGTGAGG
*
25157 TGATAGCTCTGGGTGAGG
1 TGATGGCTCTGGGTGAGG
25175 TGATGGCTC
1 TGATGGCTC
25184 CCGAAGTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.44, T:0.29
Consensus pattern (18 bp):
TGATGGCTCTGGGTGAGG
Found at i:26551 original size:20 final size:20
Alignment explanation
Indices: 26503--26561 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
26493 AATAGTTTCT
** *
26503 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
26523 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
26543 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
26562 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:26841 original size:20 final size:22
Alignment explanation
Indices: 26816--26865 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
26806 CTCTGAGAGA
26816 TGGAGAT-AGACGGATTTC-TC
1 TGGAGATGAGACGGATTTCGTC
*
26836 TGGAGATGGGGACGGATTTCGTC
1 TGGAGAT-GAGACGGATTTCGTC
26859 -GGAGATG
1 TGGAGATG
26866 GGTGAGAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.27
21 1 0.04
22 16 0.62
23 2 0.08
ACGTcount: A:0.22, C:0.12, G:0.40, T:0.26
Consensus pattern (22 bp):
TGGAGATGAGACGGATTTCGTC
Found at i:26852 original size:22 final size:22
Alignment explanation
Indices: 26824--26867 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
26814 GATGGAGATA
26824 GACGGATTTC-TCTGGAGATGGG
1 GACGGATTTCGTC-GGAGATGGG
26846 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
26868 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.18, C:0.14, G:0.43, T:0.25
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:27081 original size:20 final size:20
Alignment explanation
Indices: 27056--27104 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
27046 ATTATGTATT
27056 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
27076 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
27096 ATCTCGTTG
1 ATCGCGTTG
27105 TGATTTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:27141 original size:20 final size:20
Alignment explanation
Indices: 27116--27169 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
27106 GATTTTGTAT
27116 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
27136 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
27156 TATCGCATTGCGAT
1 TATCGCATTGCGAT
27170 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:27171 original size:61 final size:61
Alignment explanation
Indices: 27035--27172 Score: 186
Period size: 61 Copynumber: 2.3 Consensus size: 61
27025 CGCTTTGAAA
* * * *
27035 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * * *
27096 ATCTCGTTGTGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
27157 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
27173 CCCAATTCGC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:27188 original size:61 final size:61
Alignment explanation
Indices: 27035--27190 Score: 152
Period size: 61 Copynumber: 2.6 Consensus size: 61
27025 CGCTTTGAAA
* ** * * *
27035 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * ** * * * * *
27096 ATCTCGTTGTGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
27157 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAA
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAA
27191 TTACTTATTC
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
61 74 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:27280 original size:21 final size:21
Alignment explanation
Indices: 27240--27280 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27230 ACTGTAGACC
** *
27240 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
27261 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
27281 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:27809 original size:21 final size:18
Alignment explanation
Indices: 27779--27817 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
27769 CACGGAATGT
27779 AAGATTATCAGTGGGAATAA
1 AAGATTATCA--GGGAATAA
27799 AAGATTTATCAGGGAATAA
1 AAGA-TTATCAGGGAATAA
27818 GATTATTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.26
Consensus pattern (18 bp):
AAGATTATCAGGGAATAA
Found at i:28970 original size:22 final size:21
Alignment explanation
Indices: 28923--28972 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
28913 TTTTAATCAA
*
28923 AATATTTAAAATATATTTATT
1 AATATTTAAAATATATATATT
*
28944 AATATTTATAATAATATAATATT
1 AATATTTAAAAT-ATAT-ATATT
28967 -ATATTT
1 AATATTT
28973 TTTTAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.44
22 10 0.40
23 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTTAAAATATATATATT
Found at i:28979 original size:24 final size:24
Alignment explanation
Indices: 28927--28982 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
28917 AATCAAAATA
*
28927 TTTAA-AATATATTTATTAATATT
1 TTTAATAATATATATATTAATATT
* *
28950 TATAATAATATA-ATATTATATTTT
1 TTTAATAATATATATATTA-ATATT
28974 TTTAATAAT
1 TTTAATAAT
28983 GTCTAACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTAATAATATATATATTAATATT
Found at i:32060 original size:20 final size:20
Alignment explanation
Indices: 32016--32296 Score: 190
Period size: 20 Copynumber: 13.9 Consensus size: 20
32006 AATGACCAAC
32016 AAAATCGCAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
*
32035 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* **
32055 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
32075 AAAATCGCAACG-G--TCAAAAG
1 AAAATCGCAACGCGATTC---AG
32095 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* * **
32117 AGAATCGCAATGCGAGCCA-
1 AAAATCGCAACGCGATTCAG
*
32136 AAGAATCGCAATGCGATTCCA-
1 AA-AATCGCAACGCGATT-CAG
* *
32157 AGAATCGCAATGCGATCTTC-G
1 AAAATCGCAACGCGA--TTCAG
*
32178 AAGAATCGCAATGCGATTCA-
1 AA-AATCGCAACGCGATTCAG
*
32198 AAGAATCGCAACGCGATTGAG
1 AA-AATCGCAACGCGATTCAG
32219 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
32239 ATAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
*
32259 AAAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
*
32279 AAAATCGCAATGCGATTC
1 AAAATCGCAACGCGATTC
32297 CAAGAATCGC
Statistics
Matches: 217, Mismatches: 23, Indels: 43
0.77 0.08 0.15
Matches are distributed among these distances:
18 2 0.01
19 20 0.09
20 153 0.71
21 11 0.05
22 28 0.13
23 1 0.00
25 1 0.00
26 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:32146 original size:62 final size:62
Alignment explanation
Indices: 32077--32253 Score: 170
Period size: 62 Copynumber: 2.9 Consensus size: 62
32067 TTGAAAAGAA
32077 AATCGCAACGGTCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAG
1 AATCGCAACGGTCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAG
* * * * **
32139 AATCGCAATGCGATTC-CAAG--AATCGCAATGCGATCTTCGAAGAATCGCAATGCGATTCAAAG
1 AATCGCAA--CG-GTCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAG
** * *
32201 AATCGCAAC-G-CGATTGAGAAAATCGCAACGCGA--TTCCAATAATCGCAACGCGA
1 AATCGCAACGGTC-A-AAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGA
32254 TTGAGAAAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 18
0.75 0.10 0.14
Matches are distributed among these distances:
57 1 0.01
60 20 0.21
62 66 0.70
64 5 0.05
65 2 0.02
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (62 bp):
AATCGCAACGGTCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAG
Found at i:32430 original size:6 final size:6
Alignment explanation
Indices: 32419--32479 Score: 122
Period size: 6 Copynumber: 10.2 Consensus size: 6
32409 GACACGTATT
32419 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
32467 ACCACG ACCACG A
1 ACCACG ACCACG A
32480 GACGAGACGG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.34, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:33237 original size:6 final size:6
Alignment explanation
Indices: 33228--33258 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
33218 CCGTCTCGTC
33228 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
33259 AATACGTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:33394 original size:20 final size:20
Alignment explanation
Indices: 33369--33498 Score: 129
Period size: 20 Copynumber: 6.4 Consensus size: 20
33359 TTTTGCCGTT
*
33369 TTGCGATTCTTGGAATTGCG
1 TTGCGATTCTTGGAATCGCG
** *
33389 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GGAATCGCG
*
33409 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
33429 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
* *
33449 TTGCGATTCTTTGAATCGCA
1 TTGCGATTCTTGGAATCGCG
33469 TTGCGATTCTTGGAAGATCGCG
1 TTGCGATTCTTGG-A-ATCGCG
33491 TTGCGATT
1 TTGCGATT
33499 TTCTTTTGAC
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
19 3 0.03
20 69 0.78
21 4 0.04
22 13 0.15
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTTGGAATCGCG
Found at i:33416 original size:40 final size:40
Alignment explanation
Indices: 33369--33476 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
33359 TTTTGCCGTT
*
33369 TTGCGATTCTTGGAATTGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* *
33409 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCG
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* *
33449 TTGCGATTCTTTGAATCGCATTGCGATT
1 TTGCGATTCTTGGAATCGCGTTGCGATT
33477 CTTGGAAGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (40 bp):
TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
Found at i:33466 original size:60 final size:62
Alignment explanation
Indices: 33386--33502 Score: 186
Period size: 60 Copynumber: 1.9 Consensus size: 62
33376 TCTTGGAATT
33386 GCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGG-A-ATCGCGTTGCGATTTTCTCAATC
1 GCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCTCAATC
* *
33446 GCGTTGCGATTCTT-TGAATCGCATTGCGATTCTTGGAAGATCGCGTTGCGATTTTCT
1 GCGTTGCGATT-TTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCT
33503 TTTGACCGTT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
60 31 0.60
61 3 0.06
62 18 0.35
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (62 bp):
GCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCTCAATC
Found at i:33554 original size:20 final size:19
Alignment explanation
Indices: 33386--33560 Score: 113
Period size: 20 Copynumber: 8.7 Consensus size: 19
33376 TCTTGGAATT
33386 GCGTTGCGATTTTCTCAATC
1 GCGTTGCGATTTTCT-AATC
* *
33406 GCATTGCGA-TTCCTGGAATC
1 GCGTTGCGATTTTCT--AATC
33426 GCGTTGCGATTTTCTCAATC
1 GCGTTGCGATTTTCT-AATC
33446 GCGTTGCGATTCTT-TGAATC
1 GCGTTGCGATT-TTCT-AATC
* **
33466 GCATTGCGATTCTTGGAAGATC
1 GCGTTGCGATT-TT-CTA-ATC
* *
33488 GCGTTGCGATTTTCT-TTT
1 GCGTTGCGATTTTCTAATC
**
33506 GACCGTTGCGATTTTCTTTTC
1 G--CGTTGCGATTTTCTAATC
* *
33527 AACATTGCGATTTTCTAAATC
1 -GCGTTGCGATTTTCT-AATC
33548 GCGTTGCGATTTT
1 GCGTTGCGATTTT
33561 TGTTTCGCAT
Statistics
Matches: 123, Mismatches: 21, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.02
19 4 0.03
20 91 0.74
21 13 0.11
22 13 0.11
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.41
Consensus pattern (19 bp):
GCGTTGCGATTTTCTAATC
Found at i:33931 original size:15 final size:14
Alignment explanation
Indices: 33896--33927 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33886 GTTGAATTCT
33896 AAATATTTAAATAA
1 AAATATTTAAATAA
*
33910 AAATATTTATATAA
1 AAATATTTAAATAA
33924 AAAT
1 AAAT
33928 TATTCGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATATTTAAATAA
Found at i:33966 original size:2 final size:2
Alignment explanation
Indices: 33959--34022 Score: 78
Period size: 2 Copynumber: 32.5 Consensus size: 2
33949 ATTATTTTTA
* *
33959 AT AT AT AT AT AT AT ACT TT TT A- AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
*
34000 AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
34023 AAATTTAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
1 2 0.04
2 52 0.95
3 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:35083 original size:119 final size:122
Alignment explanation
Indices: 34866--35103 Score: 356
Period size: 119 Copynumber: 2.0 Consensus size: 122
34856 AAAAATGACA
*
34866 ATAAAAGCTGAGGTTACTCTTATAAAAGATAATAAACACTTAAGCAGATCAATGATGCACATCAA
1 ATAAAAGCTGAGGCTACTCTTATAAAAG--AATAAACACTTAA-CAGATCAATGATGCACATCAA
* * * *
34931 TGTTATAACATTTATCATTCCACAAATCTAAACATTCAGTTTAGGCCAGGAGAAGTAAAT
63 TGTCAGAACATTTATCATTCCACAAATCCAAACATTCAATTTAGGCCAGGAGAAGTAAAT
34991 ATAAAAGCTGAGGCTACTCTTATAAAAG-ATAAACACTT-A-AGATCAATGATGCACATCAATGT
1 ATAAAAGCTGAGGCTACTCTTATAAAAGAATAAACACTTAACAGATCAATGATGCACATCAATGT
* * *
35053 CAGAACATTTATCATTCCGCAGATCCAAACATTCAATTTAGGCTAGGAGAA
66 CAGAACATTTATCATTCCACAAATCCAAACATTCAATTTAGGCCAGGAGAA
35104 CTTTATTTTA
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
119 67 0.64
121 1 0.01
122 10 0.10
125 27 0.26
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (122 bp):
ATAAAAGCTGAGGCTACTCTTATAAAAGAATAAACACTTAACAGATCAATGATGCACATCAATGT
CAGAACATTTATCATTCCACAAATCCAAACATTCAATTTAGGCCAGGAGAAGTAAAT
Found at i:44815 original size:14 final size:14
Alignment explanation
Indices: 44798--44825 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44788 ATCATAACAA
44798 AATTATATAACTAT
1 AATTATATAACTAT
44812 AATTATATAACTAT
1 AATTATATAACTAT
44826 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:49176 original size:16 final size:16
Alignment explanation
Indices: 49155--49185 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49145 GAATCTGATT
49155 TTTTTATTAATTATTA
1 TTTTTATTAATTATTA
*
49171 TTTTTATTGATTATT
1 TTTTTATTAATTATT
49186 CTACCCTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTATTAATTATTA
Found at i:49774 original size:182 final size:182
Alignment explanation
Indices: 49428--50281 Score: 1227
Period size: 182 Copynumber: 4.7 Consensus size: 182
49418 TGTCGGTTTA
* * * *
49428 TGTCGATTCTTTATAAAAATGTATCGATCCACATCAATATAACATGAAAAAATATGATAAAACCG
1 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCG
** * * * * *
49493 GCCACGAAAAGAAAAAAACCGGTAAAGCGCTACCGGATATATTGCATGTGTCAATACTTTAATAT
66 ATCACGAAAAG-ACAAAACCGGTAAAGAGCTACCAGATATATTGCAAGTGTCGATACTTTAATAT
* *
49558 AAGTATCGACACATAGTGAATTTAAAGGAGAAGCAGTTTTAGTGCCTATAAAG
130 AAGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* * * *
49611 TGTCGATTCTTTATAAATATGTATCGATCCACAACAATATAATAGGTAAAAATATGACAAAACCG
1 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCG
* * *
49676 ATCAGGAAAAGACAAAACCGGTAAAGAGATACCAGATATATTTCAAGTGTCGATACTTTAATATA
66 ATCACGAAAAGACAAAACCGGTAAAGAGCTACCAGATATATTGCAAGTGTCGATACTTTAATATA
*
49741 AGTATCGACACATTGTAAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
131 AGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
49793 TGTTGATTCTTTATAAATATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACC-
1 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCG
* *
49857 AGTCAGGAAAAGACAAAACCGGTAAAGAGATACCAGATATATTGCAAGTGTCGATACTTTAATAT
66 A-TCACGAAAAGACAAAACCGGTAAAGAGCTACCAGATATATTGCAAGTGTCGATACTTTAATAT
*
49922 AAGTATTGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCG-CTATAAAG
130 AAGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* *
49974 TATCGATTCTTTATAAATATGTATCGATCCACAATGATATAACATGTAAAAATATGATAAAACCG
1 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCG
* * *
50039 ATCTCGAAAAGAC--AACCGGTAAA-ACGCTACCAGATATATTGAAAGTGTCGATAATTTAATAT
66 ATCACGAAAAGACAAAACCGGTAAAGA-GCTACCAGATATATTGCAAGTGTCGATACTTTAATAT
* * *
50101 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCTTATAAAG
130 AAGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
50154 TGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACATGTAAAAATATGATAAAACC-
1 TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCG
* * * * *
50218 AGTCTCTAAATGACAAAACCGGTAAAGCGCTACC-GAATATATTGAAAGTGTCGATACTTTAATA
66 A-TCACGAAAAGACAAAACCGGTAAAGAGCTACCAG-ATATATTGCAAGTGTCGATACTTTAATA
50282 AGTACGCATA
Statistics
Matches: 614, Mismatches: 48, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
178 1 0.00
179 86 0.14
180 76 0.12
181 79 0.13
182 305 0.50
183 67 0.11
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
TGTCGATTCTTTATAAATATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCG
ATCACGAAAAGACAAAACCGGTAAAGAGCTACCAGATATATTGCAAGTGTCGATACTTTAATATA
AGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:50141 original size:361 final size:362
Alignment explanation
Indices: 49428--50281 Score: 1273
Period size: 361 Copynumber: 2.4 Consensus size: 362
49418 TGTCGGTTTA
* * * *
49428 TGTCGATTCTTTATAAAAATGTATCGATCCACATCAATATAACATGAAAAAATATGATAAAACCG
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCA
* * * *
49493 GCCACGAAAAGAAAAAAACCGGTAAAGCGCTACCGGATATATTGCATGTGTCAATACTTTAATAT
66 GTCACGAAAAG-ACAAAACCGGTAAAGCGCTACC-GATATATTGCAAGTGTCGATACTTTAATAT
* *
49558 AAGTATCGACACATAGTGAATTTAAAGGAGAAGCAGTTTTAGTGCCTATAAAGTGTCGATTCTTT
129 AAGTATCGACACATAGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTATCGATTCTTT
* *
49623 ATAAATATGTATCGATCCACAACAATATAATAGGTAAAAATATGACAAAACCGATCAGGAAAAGA
194 ATAAATATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCGATCACGAAAAGA
** *
49688 CAAAACCGGTAAAGAGATACCAGATATATTTCAAGTGTCGATACTTTAATATAAGTATCGACACA
259 C-AAACCGGTAAAGAGATACCAGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACA
*
49753 TTGTAAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
323 TTGTAAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * * *
49793 TGTTGATTCTTTATAAATATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCA
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCA
* * *
49858 GTCAGGAAAAGACAAAACCGGTAAAGAGATACCAGATATATTGCAAGTGTCGATACTTTAATATA
66 GTCACGAAAAGACAAAACCGGTAAAGCGCTACC-GATATATTGCAAGTGTCGATACTTTAATATA
* *
49923 AGTATTGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCG-CTATAAAGTATCGATTCTTTA
130 AGTATCGACACATAGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTATCGATTCTTTA
** * * *
49987 TAAATATGTATCGATCCACAATGATATAACATGTAAAAATATGATAAAACCGATCTCGAAAAGAC
195 TAAATATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCGATCACGAAAAGAC
* *
50052 -AACCGGTAAA-ACGCTACCAGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
260 AAACCGGTAAAGA-GATACCAGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACAT
* *
50115 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCTTATAAAG
324 TGTAAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* *
50154 TGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACATGTAAAAATATGATAAAACCA
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCA
* * * *
50219 GTCTCTAAATGACAAAACCGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTAATA
66 GTCACGAAAAGACAAAACCGGTAAAGCGCTACCG-ATATATTGCAAGTGTCGATACTTTAATA
50282 AGTACGCATA
Statistics
Matches: 439, Mismatches: 48, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
360 2 0.00
361 205 0.47
363 78 0.18
364 88 0.20
365 66 0.15
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (362 bp):
TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCA
GTCACGAAAAGACAAAACCGGTAAAGCGCTACCGATATATTGCAAGTGTCGATACTTTAATATAA
GTATCGACACATAGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAGTATCGATTCTTTAT
AAATATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCGATCACGAAAAGACA
AACCGGTAAAGAGATACCAGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACATTG
TAAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:52673 original size:21 final size:21
Alignment explanation
Indices: 52649--52714 Score: 114
Period size: 21 Copynumber: 3.1 Consensus size: 21
52639 AAGACAATCA
52649 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
52670 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
52691 AGAGTCGAAAAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
52712 AGA
1 AGA
52715 CATAATGGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.44, C:0.11, G:0.32, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:52988 original size:18 final size:18
Alignment explanation
Indices: 52965--53049 Score: 138
Period size: 18 Copynumber: 4.8 Consensus size: 18
52955 ACTGAAAAAT
*
52965 ATGAAGAAGAAAAGAGGA
1 ATGAAGAAGAAAAGAGGG
52983 ATGAAGAA-AAAA-AGGG
1 ATGAAGAAGAAAAGAGGG
*
52999 AGGAAGAAGAAAAGAGGG
1 ATGAAGAAGAAAAGAGGG
53017 ATGAAGAAGAAAAGAGGG
1 ATGAAGAAGAAAAGAGGG
53035 ATGAAGAAGAAAAGA
1 ATGAAGAAGAAAAGA
53050 TAGAGGAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
16 10 0.16
17 8 0.13
18 44 0.71
ACGTcount: A:0.60, C:0.00, G:0.35, T:0.05
Consensus pattern (18 bp):
ATGAAGAAGAAAAGAGGG
Found at i:53010 original size:34 final size:36
Alignment explanation
Indices: 52967--53049 Score: 134
Period size: 34 Copynumber: 2.4 Consensus size: 36
52957 TGAAAAATAT
52967 GAAGAAGAAAAGAGGAATGAAGAA-AAAA-AGGGAG
1 GAAGAAGAAAAGAGGAATGAAGAAGAAAAGAGGGAG
* *
53001 GAAGAAGAAAAGAGGGATGAAGAAGAAAAGAGGGAT
1 GAAGAAGAAAAGAGGAATGAAGAAGAAAAGAGGGAG
53037 GAAGAAGAAAAGA
1 GAAGAAGAAAAGA
53050 TAGAGGAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 23 0.51
35 4 0.09
36 18 0.40
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.04
Consensus pattern (36 bp):
GAAGAAGAAAAGAGGAATGAAGAAGAAAAGAGGGAG
Found at i:54634 original size:19 final size:19
Alignment explanation
Indices: 54610--54655 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
54600 AATGTAGAGT
54610 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
54629 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
54648 TAATTTTG
1 TAATTTTG
54656 AATGTGGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:55265 original size:200 final size:199
Alignment explanation
Indices: 54920--56221 Score: 1814
Period size: 200 Copynumber: 6.5 Consensus size: 199
54910 GTAAGCATAT
* * **
54920 GTGTCGATACATTTATAAAACGTGTTGATCCCAAAAACATCGAAAAAATAATTATAATGTAATAG
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACGATAATTATAATGTAATAG
*
54985 GTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGTA
66 GTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATGTA
** *
55050 TTGACACTATTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGAA
131 TCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGAA
55115 TAAA
196 TAAA
* * *
55119 GTGTCGATACAATTT-TAAAAAGTGTCGATCCCAAAAACATCGAAATCTATAAATATAATATAAT
1 GTGTCGATAC-ATTTATAAAAAGTGTCGATCCCAAAAACATCGAAA-CGATAATTATAATGTAAT
* *
55183 AGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGTAAGAATAGGTCTACATAATG
64 AGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATG
* * **
55248 TATCAACACTTTTTTATTTTGTGCCTATACTTTTTGTCCAGAATGAATGATAAAAATGATGAACG
129 TATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACG
55313 AATAAA
194 AATAAA
*
55319 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACAGATAATTGTAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAAC-GATAATTATAATGTAATA
*
55384 GGTAATTTTGTAATATAACCGGTATAAATATAACGGTTTTATGTAAGAATAGGTCTACATAATGT
65 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATGT
** *
55449 ATCGCCACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCAAAAAATGATGAACGA
130 ATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
55514 ATAAA
195 ATAAA
* ** *
55519 GTGTCGATACATTTATAAAAAGTGTCGATTCCAAAAACATTAAAACATATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAAC-GATAATTATAATGTAATA
* * * *
55584 TGTAATTTTGTAATATAACCGATATAAATATACCGATTTTATGTAAGAATATGTCTACATAATGT
65 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATGT
* *
55649 ATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAAGGATGAATGA
130 ATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
55714 ATAAA
195 ATAAA
* * * * *
55719 GTGTAGATACAATTATAAAAAGTGTCAATCCCAAAAATATCAAAACAGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAAC-GATAATTATAATGTAATA
* *
55784 TGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATAT
65 GGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATGT
* * *
55849 ATCAACAC-TTTTTATTTTGTGTTGATACTTTTTGTCTATAATGAATGCCAAAAATGATGAACGA
130 ATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGA
55913 ATAAA
195 ATAAA
* * * *
55918 GTGTCGATACATTTATAAAAAGTGTCGATACCAGAAACATCGAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAA-CGATAATTATAATGTAATA
* ** * *
55983 GGTAAATTTACAATGTAACCGGTATAACA-ATACCGGTTTTATG-AGAGAATATGTCTACA-ACA
65 GGTAATTTTGTAATATAACCGGTATAA-ATATACCGGTTTTATGTA-AGAATAGGTCTACATA-A
* * ** * * * *
56045 TGTATCGACACTTGTGGAATTTGTTTCGATACTTTTTGTCCAGAAGGAAAT-CC-AAAA-GTTGC
127 TGTATCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATG-AATGCCAAAAATGATG-
*
56107 AA-GCATAAA
190 AACGAATAAA
* * *
56116 GTGTCGATACATTTTTAAAAAGTGTCGATCTCAATAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAA-CGATAATTATAATGTAATA
* * * *
56181 GGTAAATTTT-CAATGTAACTGGTATAAATATACCGATTTTA
65 GGT-AATTTTGTAATATAACCGGTATAAATATACCGGTTTTA
56222 GGAGAAAATA
Statistics
Matches: 992, Mismatches: 98, Indels: 27
0.89 0.09 0.02
Matches are distributed among these distances:
197 1 0.00
198 99 0.10
199 223 0.22
200 666 0.67
201 3 0.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACGATAATTATAATGTAATAG
GTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTAAGAATAGGTCTACATAATGTA
TCAACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAATGATGAACGAA
TAAA
Found at i:58743 original size:23 final size:23
Alignment explanation
Indices: 58709--58769 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
58699 CTCATATAAA
*
58709 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
*
58732 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
58755 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
58770 TATAATAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:60402 original size:21 final size:21
Alignment explanation
Indices: 60378--60422 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
60368 TTTTGTTCGT
* *
60378 TTGAAGGGGTATCAGTTCCCC
1 TTGAAGGGGTACCAATTCCCC
*
60399 TTGAATGGGTACCAATTCCCC
1 TTGAAGGGGTACCAATTCCCC
60420 TTG
1 TTG
60423 CCCATAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCAATTCCCC
Found at i:62108 original size:24 final size:20
Alignment explanation
Indices: 62052--62109 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 20
62042 TCCCCTTTGA
*
62052 AGTGAATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
**
62072 AGTGCATTAATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
62095 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
62110 CTACTCATGC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 14 0.48
22 1 0.03
23 3 0.10
24 11 0.38
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:64653 original size:65 final size:64
Alignment explanation
Indices: 64529--64740 Score: 211
Period size: 65 Copynumber: 3.3 Consensus size: 64
64519 ATTTATCAAA
* * * * *
64529 TTGATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATT
1 TTGATGCATCGATGCA-CTAGCCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATG
64591 CAT
62 CAT
* * *
64594 TTCATGCATCGATGCACATA-CCATGCATCGATGTACTGAGGAT-TTTATGAAA-ATGTCGAATG
1 TTGATGCATCGATGCAC-TAGCCATGCATCGATGCACTCAGGATATTT-TGAAACA--TCGAATG
64656 CAT
62 CAT
* * *
64659 TTGATGCATCAATGCACTAGCCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCAC
1 TTGATGCATCGATGCACTAGCCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCAT
64723 TTGATGCATCGATGCACT
1 TTGATGCATCGATGCACT
64741 CTTGGTGCAC
Statistics
Matches: 123, Mismatches: 14, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 46 0.37
65 69 0.56
66 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (64 bp):
TTGATGCATCGATGCACTAGCCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCAT
Found at i:64749 original size:19 final size:19
Alignment explanation
Indices: 64722--64759 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
64712 ATCGAATGCA
*
64722 CTTGATGCATCGATGCACT
1 CTTGATGCACCGATGCACT
*
64741 CTTGGTGCACCGATGCACT
1 CTTGATGCACCGATGCACT
64760 AAGGGTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (19 bp):
CTTGATGCACCGATGCACT
Found at i:65128 original size:13 final size:14
Alignment explanation
Indices: 65091--65120 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
65081 GTACTCAATT
65091 GTATTCATTTTTGA
1 GTATTCATTTTTGA
65105 GTATTCATTTTTGA
1 GTATTCATTTTTGA
65119 GT
1 GT
65121 GTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.57
Consensus pattern (14 bp):
GTATTCATTTTTGA
Found at i:73347 original size:64 final size:64
Alignment explanation
Indices: 73194--73354 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 64
73184 AATTAAATTG
* * *
73194 AACATCGAATGCATTTCATGCAACGGTGCACATACCATGCATCGATGCACTGAGGATTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCAC-TACCATGCATCGATGCACTGAGGATTTTATGAA
* ** *
73259 AACATCGAATGCATTTGATGCATCGATGCACTAGCCATGCATCGATGCATTTTGGCTATTT-TG-
1 AACATCGAATGCATTTGATGCATCGATGCACTA-CCATGCATCGATGCACTGAGGAT-TTTATGA
73322 A
64 A
*
73323 AACATCGAATGCACTTGATGCATCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACT
73355 CTTAGTGCAC
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 34 0.40
65 49 0.57
66 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACTACCATGCATCGATGCACTGAGGATTTTATGAA
Found at i:73353 original size:17 final size:19
Alignment explanation
Indices: 73325--73373 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
73315 TATTTTGAAA
73325 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
73343 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
73362 CACCGATGCACT
1 CATCGATGCACT
73374 AAGGGTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:74189 original size:25 final size:25
Alignment explanation
Indices: 74161--74213 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
74151 TTGTGGGTAC
74161 ATTATTTGAACATTGTTATGTATAA
1 ATTATTTGAACATTGTTATGTATAA
74186 ATTATTTGAACATTGTTATGTATAA
1 ATTATTTGAACATTGTTATGTATAA
74211 ATT
1 ATT
74214 TCTTGTGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (25 bp):
ATTATTTGAACATTGTTATGTATAA
Found at i:74489 original size:15 final size:15
Alignment explanation
Indices: 74469--74507 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
74459 AATCTTCACA
*
74469 ATAAAGTTTTCATAC
1 ATAAAGTTTTCAAAC
74484 ATAAAGTTTTCAAAC
1 ATAAAGTTTTCAAAC
*
74499 TTAAAGTTT
1 ATAAAGTTT
74508 CCTATAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (15 bp):
ATAAAGTTTTCAAAC
Found at i:75251 original size:400 final size:398
Alignment explanation
Indices: 74511--75675 Score: 1696
Period size: 400 Copynumber: 2.9 Consensus size: 398
74501 AAAGTTTCCT
* * * *
74511 ATAAAGTGTCGATACAGTTTTAAAAAGTATCGATCCCAGAAACATCAAAATCAATAAATATAATG
1 ATAAAGTGTCGATACATTTTTAAACAGTATCGATCCCAGAAACATCGAAATCCATAAATATAATG
* * * *
74576 TAATATGTAATTTTATAATATAACCGATATAAATATACCAGTTTTATGTGAGAATAGGTCTACAT
66 TAATA-GTAATTTTGTAATATAACCGGTATAAATATACCTGTTTTATGTCAGAATAGGTCTACAT
* * *
74641 AATGTGTCGACACTTGTTAATGTTGTGCCGATACCTTTTGCCATAATGAATGCCCAAAAAGGTGA
130 AATGTGTCGACACTT-TTAATGTTGTGTCGATACCTTTTGCCAGAATGAATGCCCAAAAGGGTGA
* * * *
74706 ACGCATAAAGTGTCGATACAATTATAAACAGTATCGATCCTAAAAACATCTAAACCGATAATTAT
194 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTAT
* ** *
74771 AATGTAATAGGTAAATTTATAATGTAACCGGTATAAATAAACCGGTTTTTTGAGAAAATAGAT-A
259 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTTTGAGAAAATAGGTGA
*
74835 TACATAATGTATCGACAC-TTGTAGAATTTGTGTCGATACTTTTCATCCACAAGGAAAATCCAAA
324 -ACATAATGTATCGACACGTTTTAG-ATTTGTGTCGATACTTTTCATCCACAAGGAAAATCC-AA
**
74899 AAAGG-TGCTCCC
386 AAAGGTTGAGCCC
74911 ATAAAGTGTCGATACATTTTTAAACAGTATCGATCCCAGAAACATCGAAATCCATAAATATAATG
1 ATAAAGTGTCGATACATTTTTAAACAGTATCGATCCCAGAAACATCGAAATCCATAAATATAATG
* * * *
74976 TAATAGATAATTTTGTAATATAATCGGTATAAATATACCTGTTTTATATTAGAATAGTTCTACAT
66 TAATAG-TAATTTTGTAATATAACCGGTATAAATATACCTGTTTTATGTCAGAATAGGTCTACAT
* *
75041 AATGTGTCGACACTTTTGAATGTTGTGTCGATACGTTTTGCCAGAGTGAATGCCCAAAAGGGTGA
130 AATGTGTCGACACTTTT-AATGTTGTGTCGATACCTTTTGCCAGAATGAATGCCCAAAAGGGTGA
* *
75106 ACGCATAAAGTGTCGATACATTTATAAAAAGTATTGATCCCAAAAACATCGAAACCGATAATTAT
194 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTAT
* *
75171 AATGTAATAGGTAAATTTACAATGTAACCGATATAAATGTACCAGTTTTTTGAGAAAATAGGTGA
259 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTTTGAGAAAATAGGTGA
* * * **
75236 ACTTAATGTATCGACACGTTTTAGATTTGTATCGTTACTTTTGGTCCACAAGGAAAATCCAAAAA
324 ACATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTCATCCACAAGGAAAATCCAAAAA
75301 GGTTGAGCCC
389 GGTTGAGCCC
*
75311 ATAAAGTGTCGATACATTTTTAAACAGTATCGATCCCTA-AAACATCGAAACCCAT-AATAATAA
1 ATAAAGTGTCGATACATTTTTAAACAGTATCGATCCC-AGAAACATCGAAATCCATAAAT-ATAA
* * *
75374 TATAATAGGTAATTTTGTAATATAACCGGTATAAATATA-CTGGTTTTATGCCATAATAGGTCTA
64 TGTAATA-GTAATTTTGTAATATAACCGGTATAAATATACCT-GTTTTATGTCAGAATAGGTCTA
* * * * *
75438 CATGATTTGTTGACACTTTTAAATGATGTGTCGATACTTTTTGCCAGAATGAATGCCCAAAAGGG
127 CATAATGTGTCGACACTTTT-AATGTTGTGTCGATACCTTTTGCCAGAATGAATGCCCAAAAGGG
* * **
75503 TGAACGCAGAAAGTGTCGGTACATTTATAAAAAGTATCGATCCCAAAAACATCAAAATTGATAAT
191 TGAACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCGATAAT
* *
75568 TATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTATGAGAAAATTGG
256 TATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTTTGAGAAAATAGG
75633 TGAACATAATGTATC-AGCACGTTTTAGATTTGTGTCGATACTT
321 TGAACATAATGTATCGA-CACGTTTTAGATTTGTGTCGATACTT
75676 ATAAATAACA
Statistics
Matches: 692, Mismatches: 63, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
399 16 0.02
400 668 0.97
401 8 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (398 bp):
ATAAAGTGTCGATACATTTTTAAACAGTATCGATCCCAGAAACATCGAAATCCATAAATATAATG
TAATAGTAATTTTGTAATATAACCGGTATAAATATACCTGTTTTATGTCAGAATAGGTCTACATA
ATGTGTCGACACTTTTAATGTTGTGTCGATACCTTTTGCCAGAATGAATGCCCAAAAGGGTGAAC
GCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAA
TGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTTTGAGAAAATAGGTGAAC
ATAATGTATCGACACGTTTTAGATTTGTGTCGATACTTTTCATCCACAAGGAAAATCCAAAAAGG
TTGAGCCC
Found at i:75674 original size:199 final size:199
Alignment explanation
Indices: 74511--75675 Score: 1222
Period size: 199 Copynumber: 5.8 Consensus size: 199
74501 AAAGTTTCCT
* * * * *
74511 ATAAAGTGTCGATACAGTTT-TAAAAAGTATCGATCCCAGAAACATCAAAATCAATAAATATAAT
1 ATAAAGTGTCGATACA-TTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * * * *
74575 GTAATATGTAATTTTATAATATAACCGATATAAATATACCAGTTTTATGTGAGAATAGGTCTACA
65 GTAATAGGTAAATTTATAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACA
* * * * *
74640 TAATGTGTCGACACTTGTTA-ATGTTGTGCCGATACCTTTTGCCATAATGAATGCCCAAAAAGGT
130 TAATGTATCGACACTT-TTAGATGTTGTGTCGATACTTTTTGCCACAATGAATGCCCAAAAGGGT
74704 GAACGC
194 GAACGC
* * * *
74710 ATAAAGTGTCGATACAATTATAAACAGTATCGATCCTAAAAACATCTAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * *
74775 TAATAGGTAAATTTATAATGTAACCGGTATAAATAAACCGGTTTTTTGAGAAAATAGAT-ATACA
66 TAATAGGTAAATTTATAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCA-ACA
* * *
74839 TAATGTATCGACACTTGTAGAAT-TTGTGTCGATACTTTTCAT-CCACAAGGAAAAT-CCAAAAA
130 TAATGTATCGACACTTTTAG-ATGTTGTGTCGATACTTTT--TGCCACAATG--AATGCCCAAAA
* ** *
74901 AGGTGCTCCC
190 GGGTGAACGC
* * * *
74911 ATAAAGTGTCGATACATTTTTAAACAGTATCGATCCCAGAAACATCGAAATCC-ATAAATATAAT
1 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAA-CCGATAATTATAAT
* * * * * * * * *
74975 GTAATAGATAATTTTGTAATATAATCGGTATAAATATACCTGTTTTAT-ATTAGAATAGTTCTAC
65 GTAATAGGTAAATTTATAATATAACCGGTATAAATATACCGGTTTTATGA-GAAAATAGGTCAAC
* * * *
75039 ATAATGTGTCGACACTTTT-GAATGTTGTGTCGATACGTTTTGCCAGAGTGAATGCCCAAAAGGG
129 ATAATGTATCGACACTTTTAG-ATGTTGTGTCGATACTTTTTGCCACAATGAATGCCCAAAAGGG
75103 TGAACGC
193 TGAACGC
*
75110 ATAAAGTGTCGATACATTTATAAAAAGTATTGATCCCAAAAACATCGAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * * * * * *
75175 TAATAGGTAAATTTACAATGTAACCGATATAAATGTACCAGTTTTTTGAGAAAATAGGTGAACTT
66 TAATAGGTAAATTTATAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACAT
* * * * *
75240 AATGTATCGACACGTTTTAGAT-TTGTATCGTTACTTTTGGTCCACAAGGAAAAT-CCAAAAAGG
131 AATGTATCGACAC-TTTTAGATGTTGTGTCGATACTTTTTG-CCACAATG--AATGCCCAAAAGG
* * *
75303 TTGAGCCC
192 GTGAACGC
* * * * * *
75311 ATAAAGTGTCGATACATTTTTAAACAGTATCGATCCCTAAAACATCGAAACCCATAATAATAATA
1 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * ** * *
75376 TAATAGGTAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGCCATAATAGGTCTACAT
66 TAATAGGTAAATTTATAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACAT
* * * * * * *
75441 GATTTGTTGACACTTTTAAATGATGTGTCGATACTTTTTGCCAGAATGAATGCCCAAAAGGGTGA
131 AATGTATCGACACTTTTAGATGTTGTGTCGATACTTTTTGCCACAATGAATGCCCAAAAGGGTGA
75506 ACGC
196 ACGC
* * * **
75510 AGAAAGTGTCGGTACATTTATAAAAAGTATCGATCCCAAAAACATCAAAATTGATAATTATAATG
1 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * * *
75575 TAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTATGAGAAAATTGGTGAACAT
66 TAATAGGTAAATTTATAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACAT
75640 AATGTATC-AGCACGTTTTAGAT-TTGTGTCGATACTT
131 AATGTATCGA-CAC-TTTTAGATGTTGTGTCGATACTT
75676 ATAAATAACA
Statistics
Matches: 784, Mismatches: 157, Indels: 50
0.79 0.16 0.05
Matches are distributed among these distances:
198 13 0.02
199 418 0.53
200 50 0.06
201 295 0.38
202 8 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (199 bp):
ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
TAATAGGTAAATTTATAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACAT
AATGTATCGACACTTTTAGATGTTGTGTCGATACTTTTTGCCACAATGAATGCCCAAAAGGGTGA
ACGC
Found at i:79639 original size:198 final size:197
Alignment explanation
Indices: 79016--79710 Score: 793
Period size: 199 Copynumber: 3.5 Consensus size: 197
79006 ACCTAAATAT
* ** *
79016 GTGTCGATACATTT-TCTAAAAGTATCGA-CCCAAAAAACATCGAAACAAATAATTATAATATAA
1 GTGTCGATACATTTAT-AAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAA
* * * *
79079 TAGGTAAATTAACAATGTAACCAGTATAAATATACCGGTTAATTA--GAAAACAAGT-TAACATA
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTT--TTATGGAAAATAGGTCT-ACATA
* * *
79141 ATGTATCGACACTTGTGTAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGGGGTG
126 ATGTATCGACACTTAT-TAATTTGTGTCGATA-TTTTTGTCCAGAATGAATGCCCAAA-AGGGTG
79206 CACGCATAAA
188 CACGCATAAA
* * * *
79216 GGGTAGATACAATTATTAAAAGTATCGATCCCAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAA-AAACATCGAAACCGATAATTATAATGTAAT
* * * *
79280 ATGTAAATTTACAATGTAACCGGTATAAATATATCAGTTTTATGAGAAAATAGGTC-ATCATAAA
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATG-GAAAATAGGTCTA-CATAAT
* * * *
79344 GTATCGACACTTATTAAATTTGTGTCGATATATTTTGTCCATAATGAATG-CCAGACGGGCGCAC
128 GTATCGACACTTATT-AATTTGTGTCGATAT-TTTTGTCCAGAATGAATGCCCAAAAGGGTGCAC
*
79408 TCATAAA
191 GCATAAA
* * *
79415 GTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* ** * ** * *
79480 GGTAATTTTGTAATATAACCGGTATATTTATACCGGTTTTATGGAGAATAGGTCTACATAATGTG
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGGAAAATAGGTCTACATAATGTA
* * *
79545 TCGACACTCT-TTAATGTTGTGTCGATATTTTTTTCCAGAATAAATGCCCAAAAGGGTGAACGCA
131 TCGACACT-TATTAAT-TTGTGTCGATATTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGCA
79609 TATAA
194 TA-AA
79614 -TGTCGATACATTTATAAAAAGTATCGAT-CCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
** *
79677 GGTAAATTTGTAATGTTACCGGTAT-AATATACCG
66 GGTAAATTTACAATGTAACCGGTATAAATATACCG
79711 ATTTACTTAT
Statistics
Matches: 423, Mismatches: 56, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
196 7 0.02
197 73 0.17
198 86 0.20
199 105 0.25
200 89 0.21
201 63 0.15
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (197 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGGAAAATAGGTCTACATAATGTA
TCGACACTTATTAATTTGTGTCGATATTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGCATA
AA
Found at i:79820 original size:64 final size:64
Alignment explanation
Indices: 79742--79871 Score: 215
Period size: 64 Copynumber: 2.0 Consensus size: 64
79732 ATATAAACGC
* *
79742 TACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAA
1 TACCTATTACATTATATAAGCGCTACCCAATATATTATTGTACTTGATAATATTTCCGGTTAAA
** *
79806 TACCTATTTTATTATATAAGCGTTACCCAATATATTATTGTACTTGATAATATTTCCGGTTAAA
1 TACCTATTACATTATATAAGCGCTACCCAATATATTATTGTACTTGATAATATTTCCGGTTAAA
79870 TA
1 TA
79872 ATATAACATA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (64 bp):
TACCTATTACATTATATAAGCGCTACCCAATATATTATTGTACTTGATAATATTTCCGGTTAAA
Found at i:80233 original size:15 final size:15
Alignment explanation
Indices: 80213--80244 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
80203 GGAATCTGAT
80213 TTTTTTTATTAATTA
1 TTTTTTTATTAATTA
*
80228 TTTTTTTATTGATTA
1 TTTTTTTATTAATTA
80243 TT
1 TT
80245 CTATCCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTTTTTATTAATTA
Found at i:82409 original size:60 final size:60
Alignment explanation
Indices: 82345--82459 Score: 176
Period size: 60 Copynumber: 1.9 Consensus size: 60
82335 TTTAAATCGA
* *
82345 TCCTTAAAATTTTGAATATTCTATTTTCATCCATAAACTATGACTCACATTCTAAATTAG
1 TCCTTAAAATTTTGAACATTCTACTTTCATCCATAAACTATGACTCACATTCTAAATTAG
* * * *
82405 TCCTTAAACTTTTGAACATTCTACTTTCATCCCTAAACTATGACTCCCTTTCTAA
1 TCCTTAAAATTTTGAACATTCTACTTTCATCCATAAACTATGACTCACATTCTAA
82460 TTGGTCTCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.41
Consensus pattern (60 bp):
TCCTTAAAATTTTGAACATTCTACTTTCATCCATAAACTATGACTCACATTCTAAATTAG
Found at i:85693 original size:34 final size:34
Alignment explanation
Indices: 85650--85716 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
85640 GGCTTTTGAA
*
85650 TACAACTAACCAATATGAAATGAGTT-GTCAAGAC
1 TACAACTAACCAATACGAAATGA-TTGGTCAAGAC
85684 TACAACTAACCAATACGAAATGATTGGTCAAGA
1 TACAACTAACCAATACGAAATGATTGGTCAAGA
85717 TTACCTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 2 0.06
34 29 0.94
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (34 bp):
TACAACTAACCAATACGAAATGATTGGTCAAGAC
Found at i:88312 original size:31 final size:31
Alignment explanation
Indices: 88223--88318 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 31
88213 AGAGTCGAGG
* **
88223 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTATGTTATAAAGAACATATGGACA
* * **
88254 GAATTACCTATGTCTTTCGAG-ACATATGGACA
1 GTA-TACCTATGT-TATAAAGAACATATGGACA
* *
88286 GTATACCTATGTTATAAAGAATATATGAACA
1 GTATACCTATGTTATAAAGAACATATGGACA
88317 GT
1 GT
88319 TGCCGAGGAT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
30 4 0.08
31 22 0.43
32 22 0.43
33 3 0.06
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (31 bp):
GTATACCTATGTTATAAAGAACATATGGACA
Found at i:88357 original size:30 final size:30
Alignment explanation
Indices: 88316--88377 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
88306 ATATATGAAC
*
88316 AGTTGCCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
88346 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
88376 AG
1 AG
88378 GTCATTCGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (30 bp):
AGTTACCGAGGATCTTTATGACCTCTGGAT
Found at i:89309 original size:10 final size:9
Alignment explanation
Indices: 89274--89366 Score: 78
Period size: 10 Copynumber: 9.7 Consensus size: 9
89264 GCTGCTGGAA
*
89274 ACCGGTTTA
1 ACCGGTTTG
*
89283 ACCGGTTTTCA
1 ACCGG-TTT-G
89294 ACCGGTTCTG
1 ACCGGTT-TG
89304 ACCGGTTTG
1 ACCGGTTTG
*
89313 ACCGGTTTCA
1 ACCGGTTT-G
*
89323 ACCGGTTCG
1 ACCGGTTTG
89332 AACCGGTTTG
1 -ACCGGTTTG
*
89342 ACCGGTCTG
1 ACCGGTTTG
*
89351 AATCGGTTTG
1 -ACCGGTTTG
89361 ACCGGT
1 ACCGGT
89367 CCGACCCGAC
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
9 28 0.41
10 34 0.49
11 7 0.10
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:89318 original size:19 final size:20
Alignment explanation
Indices: 89274--89366 Score: 95
Period size: 19 Copynumber: 4.8 Consensus size: 20
89264 GCTGCTGGAA
* * *
89274 ACCGGTTTAACCGGTTTTCA
1 ACCGGTTTGACCGGTTCTGA
89294 ACCGGTTCTGACCGGTT-TG-
1 ACCGGTT-TGACCGGTTCTGA
*
89313 ACCGGTTTCAACCGGTTC-GA
1 ACCGGTTT-GACCGGTTCTGA
89333 ACCGGTTTGACCGG-TCTGA
1 ACCGGTTTGACCGGTTCTGA
*
89352 ATCGGTTTGACCGGT
1 ACCGGTTTGACCGGT
89367 CCGACCCGAC
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
18 3 0.05
19 35 0.56
20 16 0.26
21 8 0.13
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (20 bp):
ACCGGTTTGACCGGTTCTGA
Found at i:89336 original size:29 final size:30
Alignment explanation
Indices: 89273--89347 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
89263 GGCTGCTGGA
*
89273 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
89304 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
89332 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
89348 CTGAATCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:89357 original size:29 final size:28
Alignment explanation
Indices: 89274--89366 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 28
89264 GCTGCTGGAA
* *
89274 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TCTCAACCGGTTC-G
*
89304 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTCTCAACCGGTTCG
* * *
89332 AACCGGTTTGACCGGTCTGAATCGGTTTG
1 -ACCGGTTTGACCGGTCTCAACCGGTTCG
89361 ACCGGT
1 ACCGGT
89367 CCGACCCGAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 7 0.12
29 37 0.65
30 13 0.23
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (28 bp):
ACCGGTTTGACCGGTCTCAACCGGTTCG
Found at i:89393 original size:22 final size:22
Alignment explanation
Indices: 89367--89411 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
89357 TTTGACCGGT
89367 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
89389 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
89411 C
1 C
89412 GTTGACCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.51, G:0.22, T:0.09
Consensus pattern (22 bp):
CCGACCCGACCCGACCGTTGAC
Found at i:89413 original size:7 final size:7
Alignment explanation
Indices: 89401--89438 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
89391 GACCCGACCC
89401 GACCGTT
1 GACCGTT
89408 GACCGTT
1 GACCGTT
89415 GACCGTT
1 GACCGTT
89422 GACCGTT
1 GACCGTT
89429 GACCGTT
1 GACCGTT
89436 GAC
1 GAC
89439 TTTCTTTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:96567 original size:10 final size:9
Alignment explanation
Indices: 96532--96624 Score: 78
Period size: 10 Copynumber: 9.7 Consensus size: 9
96522 GCTGCTGGAA
*
96532 ACCGGTTTA
1 ACCGGTTTG
*
96541 ACCGGTTTTCA
1 ACCGG-TTT-G
96552 ACCGGTTCTG
1 ACCGGTT-TG
96562 ACCGGTTTG
1 ACCGGTTTG
*
96571 ACCGGTTTCA
1 ACCGGTTT-G
*
96581 ACCGGTTCG
1 ACCGGTTTG
96590 AACCGGTTTG
1 -ACCGGTTTG
*
96600 ACCGGTCTG
1 ACCGGTTTG
*
96609 AATCGGTTTG
1 -ACCGGTTTG
96619 ACCGGT
1 ACCGGT
96625 CCGACCCGAC
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
9 28 0.41
10 34 0.49
11 7 0.10
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:96576 original size:19 final size:20
Alignment explanation
Indices: 96532--96624 Score: 95
Period size: 19 Copynumber: 4.8 Consensus size: 20
96522 GCTGCTGGAA
* * *
96532 ACCGGTTTAACCGGTTTTCA
1 ACCGGTTTGACCGGTTCTGA
96552 ACCGGTTCTGACCGGTT-TG-
1 ACCGGTT-TGACCGGTTCTGA
*
96571 ACCGGTTTCAACCGGTTC-GA
1 ACCGGTTT-GACCGGTTCTGA
96591 ACCGGTTTGACCGG-TCTGA
1 ACCGGTTTGACCGGTTCTGA
*
96610 ATCGGTTTGACCGGT
1 ACCGGTTTGACCGGT
96625 CCGACCCGAC
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
18 3 0.05
19 35 0.56
20 16 0.26
21 8 0.13
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (20 bp):
ACCGGTTTGACCGGTTCTGA
Found at i:96594 original size:29 final size:30
Alignment explanation
Indices: 96531--96605 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
96521 GGCTGCTGGA
*
96531 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
96562 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
96590 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
96606 CTGAATCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:96615 original size:29 final size:28
Alignment explanation
Indices: 96532--96624 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 28
96522 GCTGCTGGAA
* *
96532 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TCTCAACCGGTTC-G
*
96562 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTCTCAACCGGTTCG
* * *
96590 AACCGGTTTGACCGGTCTGAATCGGTTTG
1 -ACCGGTTTGACCGGTCTCAACCGGTTCG
96619 ACCGGT
1 ACCGGT
96625 CCGACCCGAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 7 0.12
29 37 0.65
30 13 0.23
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (28 bp):
ACCGGTTTGACCGGTCTCAACCGGTTCG
Found at i:96635 original size:5 final size:5
Alignment explanation
Indices: 96625--96679 Score: 56
Period size: 5 Copynumber: 10.2 Consensus size: 5
96615 TTTGACCGGT
* *
96625 CCGAC CCGAC CCGAC CGTTGAC CCGAC CCGAC CGTTGAC CCGAC CCGAC
1 CCGAC CCGAC CCGAC C--CGAC CCGAC CCGAC C--CGAC CCGAC CCGAC
96674 CCGAC C
1 CCGAC C
96680 GTTGACCGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 34 0.81
7 8 0.19
ACGTcount: A:0.18, C:0.53, G:0.22, T:0.07
Consensus pattern (5 bp):
CCGAC
Found at i:96651 original size:22 final size:22
Alignment explanation
Indices: 96625--96686 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
96615 TTTGACCGGT
96625 CCGACCCGACCCGACCGTT---
1 CCGACCCGACCCGACCGTTGAC
96644 --GACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
96664 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
96686 C
1 C
96687 GTTGACCGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
17 17 0.45
22 21 0.55
ACGTcount: A:0.18, C:0.50, G:0.23, T:0.10
Consensus pattern (22 bp):
CCGACCCGACCCGACCGTTGAC
Found at i:96686 original size:17 final size:17
Alignment explanation
Indices: 96627--96674 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
96617 TGACCGGTCC
96627 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
96644 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
96661 GACCCGACCCGACC
1 GACCCGACCCGACC
96675 CGACCGTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.19, C:0.50, G:0.23, T:0.08
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:96688 original size:7 final size:7
Alignment explanation
Indices: 96676--96720 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
96666 GACCCGACCC
96676 GACCGTT
1 GACCGTT
96683 GACCGTT
1 GACCGTT
96690 GACCGTT
1 GACCGTT
96697 GACCGTT
1 GACCGTT
96704 GACCGTT
1 GACCGTT
96711 GACCGTT
1 GACCGTT
96718 GAC
1 GAC
96721 TTTCTTTGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.27
Consensus pattern (7 bp):
GACCGTT
Found at i:100512 original size:2 final size:2
Alignment explanation
Indices: 100505--100538 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
100495 TCAAATAATG
100505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100539 GGATAAGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.