Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008746.1 Hibiscus syriacus cultivar Beakdansim tig00111835_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: 2013901
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 10
Found at i:1021184 original size:18 final size:18
Alignment explanation
Indices: 1021161--1021196 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1021151 GAAATATATT
1021161 TTGAAATTCAAACTCAAA
1 TTGAAATTCAAACTCAAA
* *
1021179 TTGAAATTTAAATTCAAA
1 TTGAAATTCAAACTCAAA
1021197 CTCCAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
TTGAAATTCAAACTCAAA
Found at i:1021664 original size:23 final size:23
Alignment explanation
Indices: 1021638--1021696 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
1021628 AACCACTACC
1021638 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
1021661 TATTACATTATATAAGCGCTACG
1 TATTACATTATATAAACGATACA
*
1021684 TATTACATCATAT
1 TATTACATTATAT
1021697 GTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:1022100 original size:25 final size:25
Alignment explanation
Indices: 1022044--1022132 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 25
1022034 ACTCAAAAGA
* *
1022044 TGTATATACCTAAATATGTAGTTAA
1 TGTACATACCTAAATATGTAGTTAT
***
1022069 CAAACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
1022094 TGTACATA-C----T-TGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
1022113 TGTACATACCTAAATATGTA
1 TGTACATACCTAAATATGTA
1022133 ATGCGAATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
19 17 0.34
20 2 0.04
24 2 0.04
25 29 0.58
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.38
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:1022109 original size:19 final size:19
Alignment explanation
Indices: 1022085--1022121 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1022075 TACCTAAATA
1022085 TGTAGTTATTGTACATACT
1 TGTAGTTATTGTACATACT
1022104 TGTAGTTATTGTACATAC
1 TGTAGTTATTGTACATAC
1022122 CTAAATATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (19 bp):
TGTAGTTATTGTACATACT
Found at i:1025080 original size:183 final size:183
Alignment explanation
Indices: 1024555--1025047 Score: 889
Period size: 183 Copynumber: 2.7 Consensus size: 183
1024545 TTAAAATTAC
*
1024555 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
1024620 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGTT
* *
1024685 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
1024738 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTAGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
1024803 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAATCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGTT
*
1024868 ATATTATAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
1024921 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
1024985 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCG
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCG
1025048 ATAGCATTGC
Statistics
Matches: 298, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
183 295 0.99
184 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:1025500 original size:23 final size:23
Alignment explanation
Indices: 1025428--1025492 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
1025418 ATAATTTACA
* *
1025428 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
1025451 ATATAAACGATACTTATTACATT
1 ATATAAACGCTACCTATTACATT
*
1025474 ATATAAGCGCTACCTATTA
1 ATATAAACGCTACCTATTA
1025493 TATCATATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:1027106 original size:9 final size:9
Alignment explanation
Indices: 1027091--1027165 Score: 78
Period size: 9 Copynumber: 8.3 Consensus size: 9
1027081 ACTTGTTTGG
1027091 ATCATCATC
1 ATCATCATC
*
1027100 TTCATCATC
1 ATCATCATC
*
1027109 ATCATCGTC
1 ATCATCATC
*
1027118 ATCATCTTC
1 ATCATCATC
* *
1027127 ATCGTCAGC
1 ATCATCATC
*
1027136 TTCATCATC
1 ATCATCATC
1027145 ATCATCATC
1 ATCATCATC
* *
1027154 GTCATCTTC
1 ATCATCATC
1027163 ATC
1 ATC
1027166 GTCAGCTTCA
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.24, C:0.33, G:0.05, T:0.37
Consensus pattern (9 bp):
ATCATCATC
Found at i:1027108 original size:12 final size:12
Alignment explanation
Indices: 1027091--1027177 Score: 102
Period size: 12 Copynumber: 7.2 Consensus size: 12
1027081 ACTTGTTTGG
1027091 ATCATCATCTTC
1 ATCATCATCTTC
*
1027103 ATCATCATCATC
1 ATCATCATCTTC
*
1027115 GTCATCATCTTC
1 ATCATCATCTTC
* *
1027127 ATCGTCAGCTTC
1 ATCATCATCTTC
*
1027139 ATCATCATCATC
1 ATCATCATCTTC
*
1027151 ATCGTCATCTTC
1 ATCATCATCTTC
* *
1027163 ATCGTCAGCTTC
1 ATCATCATCTTC
1027175 ATC
1 ATC
1027178 TTCTGCGACC
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 63 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:1027110 original size:6 final size:6
Alignment explanation
Indices: 1027091--1027165 Score: 78
Period size: 6 Copynumber: 12.5 Consensus size: 6
1027081 ACTTGTTTGG
* * * * * *
1027091 ATCATC ATCTTC ATCATC ATCATC GTCATC ATCTTC ATCGTC AGCTTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* *
1027139 ATCATC ATCATC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATC
1027166 GTCAGCTTCA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.24, C:0.33, G:0.05, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:1027111 original size:15 final size:15
Alignment explanation
Indices: 1027091--1027165 Score: 87
Period size: 15 Copynumber: 5.0 Consensus size: 15
1027081 ACTTGTTTGG
*
1027091 ATCATCATCTTCATC
1 ATCATCATCGTCATC
1027106 ATCATCATCGTCATC
1 ATCATCATCGTCATC
* *
1027121 ATCTTCATCGTCAGC
1 ATCATCATCGTCATC
* *
1027136 TTCATCATCATCATC
1 ATCATCATCGTCATC
* *
1027151 ATCGTCATCTTCATC
1 ATCATCATCGTCATC
1027166 GTCAGCTTCA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 50 1.00
ACGTcount: A:0.24, C:0.33, G:0.05, T:0.37
Consensus pattern (15 bp):
ATCATCATCGTCATC
Found at i:1027139 original size:36 final size:36
Alignment explanation
Indices: 1027099--1027177 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
1027089 GGATCATCAT
*
1027099 CTTCATCATCATCATCGTCATCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCTTCATCGTCAG
*
1027135 CTTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCTTCATCGTCAG
1027171 CTTCATC
1 CTTCATC
1027178 TTCTGCGACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.37
Consensus pattern (36 bp):
CTTCATCATCATCATCATCATCATCTTCATCGTCAG
Found at i:1027178 original size:18 final size:18
Alignment explanation
Indices: 1027119--1027180 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
1027109 ATCATCGTCA
1027119 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
1027137 TCATCATCATCATCATCG
1 TCATCTTCATCGTCAGCT
1027155 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
1027173 TCATCTTC
1 TCATCTTC
1027181 TGCGACCGCT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.19, C:0.34, G:0.08, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:1027180 original size:6 final size:6
Alignment explanation
Indices: 1027095--1027180 Score: 73
Period size: 6 Copynumber: 14.3 Consensus size: 6
1027085 GTTTGGATCA
* * * * * * *
1027095 TCATCT TCATCA TCATCA TCGTCA TCATCT TCATCG TCAGCT TCATCA
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
1027143 TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
1027181 TGCGACCGCT
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.21, C:0.34, G:0.07, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:1029000 original size:199 final size:199
Alignment explanation
Indices: 1028642--1029215 Score: 1060
Period size: 199 Copynumber: 2.9 Consensus size: 199
1028632 TTTAAATTAG
1028642 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1028706 CTTGTACCGGTTAGATTGAAAAATTACATATTATATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
* *
1028771 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
1028836 AAAA
196 AAAA
*
1028840 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1028905 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
1028970 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
1029035 AAAA
196 AAAA
1029039 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
1029104 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGATATTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
*
1029169 TCGACACTTTTTGTATATGGATCGACACTTTATGGTTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
1029216 GGCCATATTG
Statistics
Matches: 365, Mismatches: 9, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
198 18 0.05
199 287 0.79
200 60 0.16
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAA
Found at i:1029380 original size:19 final size:19
Alignment explanation
Indices: 1029334--1029382 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1029324 TTATATTCAC
*
1029334 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
1029353 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1029372 ATACAAAATTA
1 ATACAAAATTA
1029383 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1029971 original size:4 final size:4
Alignment explanation
Indices: 1029962--1029990 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
1029952 AATGTTCTTT
1029962 CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA C
1029991 CAATCTCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:1031223 original size:33 final size:33
Alignment explanation
Indices: 1031186--1031251 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1031176 CATCTTAATA
*
1031186 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1031219 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
1031252 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1031310 original size:21 final size:21
Alignment explanation
Indices: 1031285--1031325 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1031275 CCTCTTATGC
1031285 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
1031306 CTCTCAAGTTTCTCTTCGAC
1 CTCTCAAGTGTATCTTCGAC
1031326 GCTTGATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.32, G:0.12, T:0.39
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:1033565 original size:17 final size:18
Alignment explanation
Indices: 1033543--1033585 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
1033533 ATATATCCGG
1033543 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
1033560 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
1033580 TATCAT
1 TATCAT
1033586 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:1033603 original size:20 final size:19
Alignment explanation
Indices: 1033548--1033594 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1033538 TCCGGTATCA
1033548 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
1033567 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
1033588 TTTTACC
1 TTTTACC
1033595 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:1033774 original size:20 final size:19
Alignment explanation
Indices: 1033729--1033774 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
1033719 TCCGGTAACG
1033729 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
1033748 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
1033769 TTTTAC
1 TTTTAC
1033775 ATGGTATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:1034273 original size:227 final size:227
Alignment explanation
Indices: 1033824--1034542 Score: 1239
Period size: 227 Copynumber: 3.1 Consensus size: 227
1033814 ACTTTTATAC
*
1033824 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAAATT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1033889 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCA-CTACAATATTAATTTAATAATTTCATTTACAC-AAAAA
* * *
1033954 TTATTTGATTATTTGATGTTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
129 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAATAATATTAACCAAA
1034019 -TATAATAATAAATATGTTTTCCACAGTGAAATAA
194 GT-TAATAATAAATATGTTTTCCACAGTGAAATAA
1034053 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
1034118 TTTTTAATAGTGTTTCATGTTTTCCATCTACAATATT-ATTT-AGAATTTCATTTACACAAAAAG
66 TTTTTAATAGTGTTTCATGTTTTCCA-CTACAATATTAATTTAATAATTTCATTTACACAAAAA-
1034181 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAATAATATTAACCAAA
129 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAATAATATTAACCAAA
1034246 GTTAATAATAAATATGTTTTCCACAGTGAAATAA
194 GTTAATAATAAATATGTTTTCCACAGTGAAATAA
* *
1034280 ATATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1034345 TTTTTAATAGTGTTTCATGTTTTCCACTTACAATATTAATTTAATAATTTCATTTACACACAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCAC-TACAATATTAATTTAATAATTTCATTTACACA-AAAA
1034410 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAATAATATTAACCAA
129 TTATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAATAATATTAACCAA
* *
1034475 AGATAATAATAAATATATTTT-CACAGTGAAATAA
193 AGTTAATAATAAATATGTTTTCCACAGTGAAATAA
* *
1034509 GTATGAACACTTTTATAAAAATGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
1034543 ACAATATAAC
Statistics
Matches: 469, Mismatches: 14, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
226 6 0.01
227 207 0.44
228 9 0.02
229 170 0.36
230 77 0.16
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.46
Consensus pattern (227 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACTACAATATTAATTTAATAATTTCATTTACACAAAAATT
ATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAATAATATTAACCAAAGT
TAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:1040548 original size:15 final size:15
Alignment explanation
Indices: 1040528--1040558 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1040518 TCGAGGAACG
*
1040528 CGAGCGTGAAGTCGC
1 CGAGCGTGAAGCCGC
1040543 CGAGCGTGAAGCCGC
1 CGAGCGTGAAGCCGC
1040558 C
1 C
1040559 TGGAAGGCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.39, T:0.10
Consensus pattern (15 bp):
CGAGCGTGAAGCCGC
Found at i:1042377 original size:24 final size:24
Alignment explanation
Indices: 1042345--1042410 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
1042335 CATTTAGATG
1042345 ATAAACGAACACAAATAAACAAAC
1 ATAAACGAACACAAATAAACAAAC
* * **
1042369 ATAAACGAACATAAAAAAATGAAC
1 ATAAACGAACACAAATAAACAAAC
* *
1042393 ATAATCAAACAC-AATAAA
1 ATAAACGAACACAAATAAA
1042411 TGAACGTAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 5 0.15
24 29 0.85
ACGTcount: A:0.67, C:0.17, G:0.05, T:0.12
Consensus pattern (24 bp):
ATAAACGAACACAAATAAACAAAC
Found at i:1042716 original size:24 final size:23
Alignment explanation
Indices: 1042689--1042733 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1042679 ATGTACAAAC
1042689 ATGAACAAACATACACAAACATAA
1 ATGAACAAACATA-ACAAACATAA
* *
1042713 ATGAACGAACATAACGAACAT
1 ATGAACAAACATAACAAACAT
1042734 TCATAGACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.58, C:0.20, G:0.09, T:0.13
Consensus pattern (23 bp):
ATGAACAAACATAACAAACATAA
Found at i:1042776 original size:24 final size:24
Alignment explanation
Indices: 1042749--1042803 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
1042739 GACATAAATG
* *
1042749 AACGAACATACACGAACGAGCATA
1 AACGAACATAAACGAACGAACATA
* *
1042773 AACGGACATAAATGAACGAACATA
1 AACGAACATAAACGAACGAACATA
1042797 AACGAAC
1 AACGAAC
1042804 GGATTATCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.53, C:0.22, G:0.16, T:0.09
Consensus pattern (24 bp):
AACGAACATAAACGAACGAACATA
Found at i:1042781 original size:38 final size:34
Alignment explanation
Indices: 1042671--1042804 Score: 121
Period size: 33 Copynumber: 3.8 Consensus size: 34
1042661 GACCATACAC
* * * * *
1042671 AGACATAAATGTACAAACATGAACAAAC-ATACAC
1 AGACATAAATGAACGAACAT-AACGAACGATGCAT
* *
1042705 AAACATAAATGAACGAACATAACGAAC-ATTCAT
1 AGACATAAATGAACGAACATAACGAACGATGCAT
1042738 AGACATAAATGAACGAACATACACGAACGA-GCAT
1 AGACATAAATGAACGAACATA-ACGAACGATGCAT
1042772 AAACGGACATAAATGAACGAACATAAACGAACG
1 --A--GACATAAATGAACGAACAT-AACGAACG
1042805 GATTATCGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
33 30 0.35
34 26 0.31
35 1 0.01
36 1 0.01
38 26 0.31
39 1 0.01
ACGTcount: A:0.54, C:0.19, G:0.13, T:0.13
Consensus pattern (34 bp):
AGACATAAATGAACGAACATAACGAACGATGCAT
Found at i:1042790 original size:14 final size:14
Alignment explanation
Indices: 1042773--1042806 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1042763 AACGAGCATA
*
1042773 AACGGACATAAATG
1 AACGGACATAAACG
*
1042787 AACGAACATAAACG
1 AACGGACATAAACG
1042801 AACGGA
1 AACGGA
1042807 TTATCGAACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.21, T:0.09
Consensus pattern (14 bp):
AACGGACATAAACG
Found at i:1049357 original size:30 final size:29
Alignment explanation
Indices: 1049323--1049389 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 29
1049313 CAAATTCGAT
1049323 TTAAAGGACCAAAATAGCAAAAATAGAAA
1 TTAAAGGACCAAAATAGCAAAAATAGAAA
*
1049352 CTTAAAGGACTAAAATAGCAAAAATAGAAA
1 -TTAAAGGACCAAAATAGCAAAAATAGAAA
1049382 TTCAAAGG
1 TT-AAAGG
1049390 GCTGAACCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 2 0.06
30 33 0.94
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.16
Consensus pattern (29 bp):
TTAAAGGACCAAAATAGCAAAAATAGAAA
Found at i:1051290 original size:134 final size:131
Alignment explanation
Indices: 1051088--1051348 Score: 328
Period size: 134 Copynumber: 2.0 Consensus size: 131
1051078 GGTTCCACGA
* * *
1051088 CTCCTACGTGATGAGGAGATCTGGTTGGTGGATAACACGGTTCCTATACGATGATGACGACATGC
1 CTCCTACGTGATGAGGAGATCTGGTCGGTGGATAACACGGTTCCTAGACGATGAGGACGACATGC
* * * * *
1051153 CATCTTTAGGGAGTGTGATAACACGGTTCTTATGCGATGAGGATGGCTGGTTATCTAGGGGTGAC
66 CATCTTTAGGGA---TGATAACAAGGTTCCTACGCGATGAGGACGACTGGTTATCTAGGGGTGAC
1051218 ACAG
128 ACAG
* ** * **
1051222 CTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGAA-ACGGTTCCTAGGTGATGAGGATGGTA-G
1 CTCCTACGTGATGAGGAGATCTGGTCGGTGGAT-AACACGGTTCCTAGACGATGAGGACGACATG
*
1051285 ACCATCTTTAGGGATGATAACAAGGTTCCTACGTGATGAGGACGACTGGTTATCTAGGGGTGAC
65 -CCATCTTTAGGGATGATAACAAGGTTCCTACGCGATGAGGACGACTGGTTATCTAGGGGTGAC
1051349 TCGGTTCCTA
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
131 44 0.40
133 1 0.01
134 63 0.57
135 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (131 bp):
CTCCTACGTGATGAGGAGATCTGGTCGGTGGATAACACGGTTCCTAGACGATGAGGACGACATGC
CATCTTTAGGGATGATAACAAGGTTCCTACGCGATGAGGACGACTGGTTATCTAGGGGTGACACA
G
Found at i:1051917 original size:16 final size:16
Alignment explanation
Indices: 1051896--1051934 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1051886 TTCATGTATC
*
1051896 ATGTATGTATGTGTTG
1 ATGTATGTATATGTTG
*
1051912 ATGTATATATATGTTG
1 ATGTATGTATATGTTG
*
1051928 ATATATG
1 ATGTATG
1051935 AGGACAATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (16 bp):
ATGTATGTATATGTTG
Found at i:1052940 original size:533 final size:534
Alignment explanation
Indices: 1051934--1053004 Score: 2081
Period size: 533 Copynumber: 2.0 Consensus size: 534
1051924 GTTGATATAT
1051934 GAGGACAATGATTGCGAGAGCAGTTTTCACTCTATCGTTAATTCAGTGGTCTTCATTTTCTACCA
1 GAGGACAATGATTGCGAGAGCAGTTTTCACTCTATCGTTAATTCAGTGGTCTTCATTTTCTACCA
1051999 GTGTGACTCTTGCAAACCTTGACCTCGGTCAATTTGTTTTCCTTGCCCCATCATATTTTGCCAAA
66 GTGTGACTCTTGCAAACCTTGACCTCGGTCAATTTGTTTTCCTTGCCCCATCATATTTTGCCAAA
1052064 AAAGTTGGCTTCTCTTGCCCCCAGCTTCGATCCTTAGCTTCGGAGAGATATTTGTTGAATTCCAA
131 AAAGTTGGCTTCTCTTGCCCCCAGCTTCGATCCTTAGCTTCGGAGAGATATTTGTTGAATTCCAA
1052129 GATATGCTTCCAGAGATTATCTTGTTTGAAAATGTTTTTCTTATTCTTTTTATTTTCAAAATTTT
196 GATATGCTTCCAGAGATTATCTTGTTTGAAAATGTTTTTCTTATTCTTTTTATTTTCAAAATTTT
1052194 GAAAAATATCAAAAGTAATTTTGAAAATGTTGCCTCATTTTAGGTTTCACAATTGAAGCAAATCC
261 GAAAAATATCAAAAGTAATTTTGAAAATGTTGCCTCATTTTAGGTTTCACAATTGAAGCAAATCC
*
1052259 TAAAACAGGATTTCATTGGATATCAAACGAATCAAATGCTCTTCTAATATTTTATAGCTGCAAAT
326 TAAAACAGGATTTCATTGGATAACAAACGAATCAAATGCTCTTCTAATATTTTATAGCTGCAAAT
*
1052324 CTTTGACAAATATCAATATCAAAAGATTGGTTTTGAGGTTAGATACCTAAATTTTAAGGTTTTTT
391 CTTTGACAAATATCAATATCAAAAGATTGGTTTTGAGGTTAGATACCTAAATTTTAAGGGTTTTT
1052389 TCATCGACTGGTCCTTTTTTTCTCAGTCATTGTAAAGATTATGGCATG-CCCCCTTTTTTCTGTC
456 TCATCGACTGGTCCTTTTTTTCTCAGTCATTGTAAAGATTATGGCATGCCCCCCTTTTTTCTGTC
1052453 TGGCATTTTGATCG
521 TGGCATTTTGATCG
1052467 GAGGACAATGATTGCGAGAGCAGTTTTCACTCTATCGTTAATTCAGTGGTCTTCATTTTCTACCA
1 GAGGACAATGATTGCGAGAGCAGTTTTCACTCTATCGTTAATTCAGTGGTCTTCATTTTCTACCA
1052532 GTGTGACTCTTGCAAACCTTGACCTCGGTCAATTTGTTTTCCTTGCCCCATCATATTTTGCCAAA
66 GTGTGACTCTTGCAAACCTTGACCTCGGTCAATTTGTTTTCCTTGCCCCATCATATTTTGCCAAA
*
1052597 AAATTTGGCTTCTCTTGCCCCCAGCTTCGATCCTTAGCTTCGGAGAGATATTTGTTGAATTCCAA
131 AAAGTTGGCTTCTCTTGCCCCCAGCTTCGATCCTTAGCTTCGGAGAGATATTTGTTGAATTCCAA
* *
1052662 GATATGCTTCCAGAGATTATCTTGTTTGAAATTTTTTTTCTTATTCTTTTTATTTTCAAAATTTT
196 GATATGCTTCCAGAGATTATCTTGTTTGAAAATGTTTTTCTTATTCTTTTTATTTTCAAAATTTT
1052727 GAAAAATATCAAAAGTAATTTTGAAAATGTTGCCTCATTTTAGGTTTCACAATTGAAGCAAATCC
261 GAAAAATATCAAAAGTAATTTTGAAAATGTTGCCTCATTTTAGGTTTCACAATTGAAGCAAATCC
*
1052792 TAAAACAGGATTTCATTGGATAACAAACGAATCAAATGCTCTTCTAATCTTTTATAGCTGCAAAT
326 TAAAACAGGATTTCATTGGATAACAAACGAATCAAATGCTCTTCTAATATTTTATAGCTGCAAAT
1052857 CTTTGACAAATATCAATATCAAAAGATTGGTTTTGAGGTTAGATACCTAAATTTTAAGGGTTTTT
391 CTTTGACAAATATCAATATCAAAAGATTGGTTTTGAGGTTAGATACCTAAATTTTAAGGGTTTTT
1052922 TCATCGACTGGTCCTTTTTTTCTCAGTCATTGTAAAGATTATGGCATGCCCCCCTTTTTTCTGTC
456 TCATCGACTGGTCCTTTTTTTCTCAGTCATTGTAAAGATTATGGCATGCCCCCCTTTTTTCTGTC
1052987 TGGCATTTTGATCG
521 TGGCATTTTGATCG
1053001 GAGG
1 GAGG
1053005 CAAACAAAAT
Statistics
Matches: 531, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
533 497 0.94
534 34 0.06
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (534 bp):
GAGGACAATGATTGCGAGAGCAGTTTTCACTCTATCGTTAATTCAGTGGTCTTCATTTTCTACCA
GTGTGACTCTTGCAAACCTTGACCTCGGTCAATTTGTTTTCCTTGCCCCATCATATTTTGCCAAA
AAAGTTGGCTTCTCTTGCCCCCAGCTTCGATCCTTAGCTTCGGAGAGATATTTGTTGAATTCCAA
GATATGCTTCCAGAGATTATCTTGTTTGAAAATGTTTTTCTTATTCTTTTTATTTTCAAAATTTT
GAAAAATATCAAAAGTAATTTTGAAAATGTTGCCTCATTTTAGGTTTCACAATTGAAGCAAATCC
TAAAACAGGATTTCATTGGATAACAAACGAATCAAATGCTCTTCTAATATTTTATAGCTGCAAAT
CTTTGACAAATATCAATATCAAAAGATTGGTTTTGAGGTTAGATACCTAAATTTTAAGGGTTTTT
TCATCGACTGGTCCTTTTTTTCTCAGTCATTGTAAAGATTATGGCATGCCCCCCTTTTTTCTGTC
TGGCATTTTGATCG
Found at i:1055983 original size:18 final size:18
Alignment explanation
Indices: 1055960--1055997 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
1055950 AAAAGAAAAG
*
1055960 AAATGAGTTAGTACGAAC
1 AAATGAGTTAGTACAAAC
1055978 AAATGAGTTAGTACAAAC
1 AAATGAGTTAGTACAAAC
1055996 AA
1 AA
1055998 GATAATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.21
Consensus pattern (18 bp):
AAATGAGTTAGTACAAAC
Found at i:1057831 original size:30 final size:29
Alignment explanation
Indices: 1057797--1057884 Score: 104
Period size: 30 Copynumber: 3.0 Consensus size: 29
1057787 CATATTCGAT
* *
1057797 TTAAAGGACCAAAATAGAAAAAATAGAAAC
1 TTAAAAGACTAAAATAG-AAAAATAGAAAC
* * * *
1057827 TTAAATGACTAAAATAGCAAAAACATAAAT
1 TTAAAAGACTAAAATAG-AAAAATAGAAAC
1057857 TTAAAAGACTAAAATAGAAAAATAGAAA
1 TTAAAAGACTAAAATAGAAAAATAGAAA
1057885 TTCAGAGGGC
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 9 0.18
30 40 0.82
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (29 bp):
TTAAAAGACTAAAATAGAAAAATAGAAAC
Found at i:1059354 original size:3 final size:3
Alignment explanation
Indices: 1059346--1059397 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
1059336 ATTAATAAAT
1059346 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1059393 TAA TA
1 TAA TA
1059398 TTTTTTAGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1063057 original size:130 final size:131
Alignment explanation
Indices: 1062889--1063252 Score: 356
Period size: 131 Copynumber: 2.8 Consensus size: 131
1062879 CGATATTGAG
** * * * * * * * *
1062889 AATAATAATATCT-TTTCATTTCGGTCGGAGAAATAAATGACCGCTTTAATGCATGAGAGGTCAT
1 AATAATAATATCTCTTT-ATTTCAATTGGGGTAATAAATGACTGTTTTAATGCAAGAAAGATCAT
* * * ** ** *
1062953 TTATTCTCGATTGGAAATAATTTGATATTGTCGTTTTCTCTCGAATTAATA-CCAATTTTAAGAA
65 TTATTCTCGATTGGAAATAATTAGATATTATCATTTTCAATCGAAGCAATATCCAAATTTAAGAA
1063017 AA
130 AA
* * * * * *
1063019 AATAATAATATTTCTTTATTTCAATTGGGG-AATTAAATGAGTATTTTATTGCACGAAAGATAAT
1 AATAATAATATCTCTTTATTTCAATTGGGGTAA-TAAATGACTGTTTTAATGCAAGAAAGATCAT
* * * ** *
1063083 TTATTCTCGATTGGAAATCATTAGATATTATCATTTTCAATTGAAGCGATATTGAAATTTAAGAT
65 TTATTCTCGATTGGAAATAATTAGATATTATCATTTTCAATCGAAGCAATATCCAAATTTAAGAA
*
1063148 GA
130 AA
* * * * *
1063150 AATAGTAATATCTCTTTATTTCAATTGGGGTAATAAATGATTGTTTTAACGCAAAAAATATCATT
1 AATAATAATATCTCTTTATTTCAATTGGGGTAATAAATGACTGTTTTAATGCAAGAAAGATCATT
*
1063215 TATTCTCGATTAGAAATAATTAGATATTATCATTTTCA
66 TATTCTCGATTGGAAATAATTAGATATTATCATTTTCA
1063253 CTCTTAAAAT
Statistics
Matches: 189, Mismatches: 41, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
129 2 0.01
130 84 0.44
131 101 0.53
132 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (131 bp):
AATAATAATATCTCTTTATTTCAATTGGGGTAATAAATGACTGTTTTAATGCAAGAAAGATCATT
TATTCTCGATTGGAAATAATTAGATATTATCATTTTCAATCGAAGCAATATCCAAATTTAAGAAA
A
Found at i:1070135 original size:134 final size:134
Alignment explanation
Indices: 1069426--1070126 Score: 883
Period size: 133 Copynumber: 5.3 Consensus size: 134
1069416 TTGAATCGAA
* * * *
1069426 CTCGATTCAATCTTCCCTGTAG-AATAGTGGAATGAATCAACATCTCCATATCTGATTTTCCCT-
1 CTCGATTCAATCTTCCCTG-AGTGACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTC
* * * *
1069489 CAGAAAGAAGTGGAATAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTTGAACAA
65 CAG-AAGAAGCGGAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAA
1069554 GTCTGC
129 GTCTGC
* * * * *
1069560 CTCGATTCAATCTTCCTTAACTGATAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCC
* * * * * *
1069625 AGAAGAAGCGGAACATATCCCTCT-TTTCAAAATTTAATATTCCTTGAGTGGCAGTGGAACAAGT
66 AGAAGAAGCGGAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGT
1069689 CTGC
131 CTGC
* * * **
1069693 CTCTATTCAATCTTCCCTGAGCGA-AGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTAA
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCC
* * * * *
1069757 AAAAGAAGTGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGAGGAACAAGT
66 AGAAGAAGCGGAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGT
*
1069822 CTTC
131 CTGC
* * * * * *
1069826 CTTGATTCAATCTTCCTTGAGTGACAGTGGAATGAATCAACGT-CTCAGATATGATCTTT-TCTC
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGTCCCCATATCTGAT-TTTCCCTC
* * *
1069889 CAGAAGAAGCGAAACAGATCCATCTCTTTCAAGATTTGATATTCTCTAAGTGACAGTGGAACAAG
65 CAGAAGAAGCGGAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAG
*
1069954 TCTAC
130 TCTGC
* * *
1069959 CTCGATTCAATCTTCCCTGAGTGAAAGTGGAATGAATCAACGTCCCCATATCTAATATTCCCTCC
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCC
* * * * *
1070024 AGAAGAAGCGGAATAGATCCTTCTCTTTCAAGATTTAATATTCCCTGAGTAACAGTGGAATAAGT
66 AGAAGAAGCGGAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGT
*
1070089 CTTC
131 CTGC
*
1070093 CTCGATTCAATCTTCCTTGAGTGACAGTGGAATG
1 CTCGATTCAATCTTCCCTGAGTGACAGTGGAATG
1070127 GGTTAACGTT
Statistics
Matches: 489, Mismatches: 71, Indels: 14
0.85 0.12 0.02
Matches are distributed among these distances:
132 59 0.12
133 230 0.47
134 198 0.40
135 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCC
AGAAGAAGCGGAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTGACAGTGGAACAAGT
CTGC
Found at i:1070923 original size:2 final size:2
Alignment explanation
Indices: 1070916--1070954 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1070906 ATGTTGAACA
1070916 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1070955 CATCCCTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1071199 original size:81 final size:81
Alignment explanation
Indices: 1071084--1071479 Score: 564
Period size: 81 Copynumber: 4.9 Consensus size: 81
1071074 TGTACAACTA
* * ** * *
1071084 ATTATTCTTTTATTCAACAGTGTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTATCA
1 ATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCA
* * *
1071149 AATGCATAGTTAGACA
66 AATGCACAGCTAGACC
* * *
1071165 ATTATTCTTTTACTCAACGGTACTTAAACATTCATCTAACTGGCATAATTGGCACATTTCT-TCA
1 ATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCA
*
1071229 AATGCACAGTTA-AGCC
66 AATGCACAGCTAGA-CC
* *
1071245 ATTATTCTTTTACTCAACGGTACTTAATCGTTCATCTAACTAGCATAATTGACACATTTCTGTCA
1 ATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCA
* *
1071310 AATGCACAACTAGGCC
66 AATGCACAGCTAGACC
*
1071326 ATTATTCTTTTACTCAACGGTACTTAATCGTTCATCTAACTGGCATAATTGACACATTTCTGTCA
1 ATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCA
* *
1071391 AATGCATAGCTAGGCC
66 AATGCACAGCTAGACC
*
1071407 ATTATTCTTTTACTCAACGGTACTTAACCATTCATCTAACTGGCATAATTGACACATTTCTGTC-
1 ATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCA
*
1071471 ATTGCACAG
66 AATGCACAG
1071480 TTAGGCCTCA
Statistics
Matches: 288, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
79 1 0.00
80 79 0.27
81 208 0.72
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (81 bp):
ATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCA
AATGCACAGCTAGACC
Found at i:1071283 original size:161 final size:162
Alignment explanation
Indices: 1071084--1071467 Score: 581
Period size: 161 Copynumber: 2.4 Consensus size: 162
1071074 TGTACAACTA
* * ** *
1071084 ATTATTCTTTTATTCAACAGTGTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTATCA
1 ATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTATCA
* **
1071149 AATGCATAGTTAGACAATTATTCTTTTACTCAACGGTACTTAAACATTCATCTAACTGGCATAAT
66 AATGCACAACTAGACAATTATTCTTTTACTCAACGGTACTTAAACATTCATCTAACTGGCATAAT
* *
1071214 TGGCACATTTCT-TCAAATGCACAGTTAAGCC
131 TGACACATTTCTGTCAAATGCACAGCTAAGCC
* * *
1071245 ATTATTCTTTTACTCAACGGTACTTAATCGTTCATCTAACTAGCATAATTGACACATTTCTGTCA
1 ATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTATCA
* * * *
1071310 AATGCACAACTAGGCCATTATTCTTTTACTCAACGGTACTTAATCGTTCATCTAACTGGCATAAT
66 AATGCACAACTAGACAATTATTCTTTTACTCAACGGTACTTAAACATTCATCTAACTGGCATAAT
* *
1071375 TGACACATTTCTGTCAAATGCATAGCTAGGCC
131 TGACACATTTCTGTCAAATGCACAGCTAAGCC
*
1071407 ATTATTCTTTTACTCAACGGTACTTAACCATTCATCTAACTGGCATAATTGACACATTTCT
1 ATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCT
1071468 GTCATTGCAC
Statistics
Matches: 200, Mismatches: 22, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
161 126 0.63
162 74 0.37
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (162 bp):
ATTATTCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTATCA
AATGCACAACTAGACAATTATTCTTTTACTCAACGGTACTTAAACATTCATCTAACTGGCATAAT
TGACACATTTCTGTCAAATGCACAGCTAAGCC
Found at i:1071576 original size:68 final size:68
Alignment explanation
Indices: 1071419--1071695 Score: 421
Period size: 68 Copynumber: 4.1 Consensus size: 68
1071409 TATTCTTTTA
* * * * * *
1071419 CTCAACGGTACTTAACCATTCATCTAACTGGCATAATTGACACATTTCTGTC-ATTGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTA
1071483 GGC
66 GGC
*
1071486 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTA
1071551 GGC
66 GGC
* * * * *
1071554 CTCAAAGGCACTTATCATTTCATCTAACTGTCATAAATGACACATTTCTGTTAAATGCACAATTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTA
1071619 GGC
66 GGC
* *
1071622 CTCAAAGGCACTTAGCCTTTCATCTAACTGACATAAATGACACATTTATGTCAAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTA
1071687 GGC
66 GGC
1071690 CTCAAA
1 CTCAAA
1071696 TCTTTTAACT
Statistics
Matches: 190, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
67 46 0.24
68 144 0.76
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTA
GGC
Found at i:1071983 original size:58 final size:58
Alignment explanation
Indices: 1071911--1072056 Score: 220
Period size: 58 Copynumber: 2.5 Consensus size: 58
1071901 TTCCCATATA
* *
1071911 AAAATTCTTACACTTGGTATGAATTTCTTATCTTTTTACACACAAAGTGCCCAATAAG
1 AAAATTCATACACTTAGTATGAATTTCTTATCTTTTTACACACAAAGTGCCCAATAAG
* * * *
1071969 GAAATTCATACACTTAGTATGAATTTCTTCTCTTTTTGCACACAAAGTGCCCAATACG
1 AAAATTCATACACTTAGTATGAATTTCTTATCTTTTTACACACAAAGTGCCCAATAAG
* *
1072027 AAAATTCACACACTTAGTATGAATTCCTTA
1 AAAATTCATACACTTAGTATGAATTTCTTA
1072057 ATTTTGCACA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 78 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (58 bp):
AAAATTCATACACTTAGTATGAATTTCTTATCTTTTTACACACAAAGTGCCCAATAAG
Found at i:1075315 original size:131 final size:131
Alignment explanation
Indices: 1075094--1075329 Score: 366
Period size: 131 Copynumber: 1.8 Consensus size: 131
1075084 TTTAAGAAAT
* * * *
1075094 AATAATAATATTTCTTTATTTCAATTGGGGTATTAAATGACTATTTTAATGCACGAAAGATCATT
1 AATAATAATATCTCTTTATTTCAATTGGGGTAATAAATGACTATTTTAACGCACAAAAGATCATT
* *
1075159 TATTCTCGAATGGAAATCATTAGATATTATCATTTTCACTTGAAACGATATTGAATTTTAAAACG
66 TATTCTCGAATAGAAATAATTAGATATTATCATTTTCACTTGAAACGATATTGAATTTTAAAACG
1075224 A
131 A
* * *
1075225 AATAGTAATATCTCTTTATTTCAATTGGGGTAATAAATGATTGTTTTAACGCACAAAATG-TCAT
1 AATAATAATATCTCTTTATTTCAATTGGGGTAATAAATGACTATTTTAACGCACAAAA-GATCAT
*
1075289 TTATTCTCGATTAGAAATAATTAGATATTATCATTTTCACT
65 TTATTCTCGAATAGAAATAATTAGATATTATCATTTTCACT
1075330 CTTAAAATTA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
131 93 0.99
132 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (131 bp):
AATAATAATATCTCTTTATTTCAATTGGGGTAATAAATGACTATTTTAACGCACAAAAGATCATT
TATTCTCGAATAGAAATAATTAGATATTATCATTTTCACTTGAAACGATATTGAATTTTAAAACG
A
Found at i:1076485 original size:54 final size:54
Alignment explanation
Indices: 1076403--1076578 Score: 237
Period size: 54 Copynumber: 3.3 Consensus size: 54
1076393 GATAGATGGT
* * *
1076403 GTGCCCACGCCTTAGCTGAAGACTTCTTCTACGATAGCTCAGTATGGATAAGCC
1 GTGCCCACGCCTTAACTGAAGACTTCTTCTGCGATAGCTCAGTATGAATAAGCC
* * *
1076457 GTGCCTACGCCTTAACTGATGACTTCTTCTGCGATAACTCA-TGATGAATAAGCC
1 GTGCCCACGCCTTAACTGAAGACTTCTTCTGCGATAGCTCAGT-ATGAATAAGCC
* * * *
1076511 GTGCCCATGCCTTAACTGAAGACTTCTTCTGTGATAGCTCGGGATGAATAAGCC
1 GTGCCCACGCCTTAACTGAAGACTTCTTCTGCGATAGCTCAGTATGAATAAGCC
*
1076565 GTGCCCACACCTTA
1 GTGCCCACGCCTTA
1076579 TGCGAGAGCC
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 104 0.99
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (54 bp):
GTGCCCACGCCTTAACTGAAGACTTCTTCTGCGATAGCTCAGTATGAATAAGCC
Found at i:1078015 original size:36 final size:36
Alignment explanation
Indices: 1077968--1078038 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
1077958 TAGATAACAC
*
1077968 ATTCATGGTAAGGACAAATAAGGAGGGTGAAAGAGT
1 ATTCATGGTAAGGACAAATAAGGAAGGTGAAAGAGT
*
1078004 ATTCATGGTAAGGATAAATAAGGAAGGTGAAAGAG
1 ATTCATGGTAAGGACAAATAAGGAAGGTGAAAGAG
1078039 GGTCGCCCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.44, C:0.04, G:0.32, T:0.20
Consensus pattern (36 bp):
ATTCATGGTAAGGACAAATAAGGAAGGTGAAAGAGT
Found at i:1083079 original size:20 final size:20
Alignment explanation
Indices: 1083056--1083119 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
1083046 ATCGCGTTGT
1083056 GAATACGTAAATCGCAATGC
1 GAATACGTAAATCGCAATGC
1083076 GAATACGTAAATCGCAATGC
1 GAATACGTAAATCGCAATGC
* *
1083096 TAATACGTAAATCGCAACGC
1 GAATACGTAAATCGCAATGC
1083116 GAAT
1 GAAT
1083120 CTGACTATCG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (20 bp):
GAATACGTAAATCGCAATGC
Found at i:1083129 original size:20 final size:20
Alignment explanation
Indices: 1083106--1083152 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
1083096 TAATACGTAA
*
1083106 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGAATCTGACT
*
1083126 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGAATCTGACT
1083146 ATCGCAA
1 ATCGCAA
1083153 TACTGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAGAATCTGACT
Found at i:1083130 original size:40 final size:40
Alignment explanation
Indices: 1083031--1083132 Score: 102
Period size: 40 Copynumber: 2.5 Consensus size: 40
1083021 CCAGATTCGG
* * **
1083031 AACGCGATTCTAACTATCGCGTTGTGAATACGTAAATCGC
1 AACGCGAATCTGACTATCGCAATGTGAATACGTAAATCGC
* *
1083071 AATGCGAATAC-GTA-AATCGCAATGCT-AATACGTAAATCGC
1 AACGCGAAT-CTG-ACTATCGCAATG-TGAATACGTAAATCGC
1083111 AACGCGAATCTGACTATCGCAA
1 AACGCGAATCTGACTATCGCAA
1083133 CGAGATTCTG
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
39 2 0.04
40 44 0.90
41 3 0.06
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (40 bp):
AACGCGAATCTGACTATCGCAATGTGAATACGTAAATCGC
Found at i:1084021 original size:24 final size:24
Alignment explanation
Indices: 1083994--1084047 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1083984 GTATTCGAAA
1083994 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1084018 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1084042 TTTGAT
1 TTTGAT
1084048 GATTTTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1086505 original size:20 final size:19
Alignment explanation
Indices: 1086480--1086568 Score: 106
Period size: 20 Copynumber: 4.5 Consensus size: 19
1086470 AAACACGGAA
1086480 ATCGCAACGCGAATATGACT
1 ATCGCAACGCGAA-ATGACT
*
1086500 ATCGCAACACGGAAATGACT
1 ATCGCAACGC-GAAATGACT
1086520 ATCGCAACGCGAAATTGACT
1 ATCGCAACGCGAAA-TGACT
* *
1086540 ATTGCAACGTGGAAATGACT
1 ATCGCAACG-CGAAATGACT
*
1086560 ATTGCAACG
1 ATCGCAACG
1086569 AGAGAATCGC
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
19 4 0.06
20 51 0.82
21 7 0.11
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:1086539 original size:40 final size:40
Alignment explanation
Indices: 1086480--1086568 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
1086470 AAACACGGAA
1086480 ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
1 ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
* **
1086520 ATCGCAACGCGAA-ATTGACTATTGCAACGTGGAAATGACT
1 ATCGCAACGCGAATA-TGACTATCGCAACACGGAAATGACT
*
1086560 ATTGCAACG
1 ATCGCAACG
1086569 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
Found at i:1086600 original size:33 final size:34
Alignment explanation
Indices: 1086563--1086638 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 34
1086553 AATGACTATT
1086563 GCAACGAGAGAATCGCAATGCG-AAATGAAAATC
1 GCAACGAGAGAATCGCAATGCGAAAATGAAAATC
*
1086596 GCAACGAGTGAATCGCAATGCGAAAATGAAAATC
1 GCAACGAGAGAATCGCAATGCGAAAATGAAAATC
1086630 GCAACGAGA
1 GCAACGAGA
1086639 ATTTAGTTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 21 0.52
34 19 0.47
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (34 bp):
GCAACGAGAGAATCGCAATGCGAAAATGAAAATC
Found at i:1086712 original size:33 final size:33
Alignment explanation
Indices: 1086650--1086734 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
1086640 TTTAGTTTCG
*
1086650 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCACATTGCGATTCTCT
1086684 CGTTGCGATTTTCATTTCACATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCACATTGCGATTCTCT
**
1086717 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
1086735 CGCGTTGCGA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 34 0.71
34 14 0.29
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCACATTGCGATTCTCT
Found at i:1086870 original size:14 final size:14
Alignment explanation
Indices: 1086851--1086887 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1086841 CATCAATTAA
1086851 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1086865 ACAAATCATCTTTT
1 ACAAATCAACATTT
1086879 ACAAATCAA
1 ACAAATCAA
1086888 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:1088365 original size:42 final size:42
Alignment explanation
Indices: 1088286--1088378 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
1088276 CCTCTTCAAC
* * *
1088286 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
1088328 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
1088370 GATGACAGG
1 GATGACAGG
1088379 TGAGTCGGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:1088883 original size:20 final size:20
Alignment explanation
Indices: 1088858--1088986 Score: 159
Period size: 20 Copynumber: 6.5 Consensus size: 20
1088848 GAAACTTAAA
1088858 ATCGCAATGCAAAAATGACT
1 ATCGCAATGCAAAAATGACT
* **
1088878 ATCGCAACGCTTAAATGACT
1 ATCGCAATGCAAAAATGACT
* *
1088898 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCAAAAATGACT
*
1088918 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCAAAAATGACT
**
1088938 ATCGCAATGCAAATTTGACT
1 ATCGCAATGCAAAAATGACT
**
1088958 ATCGCAATGCAAATTTGACT
1 ATCGCAATGCAAAAATGACT
*
1088978 ATCACAATG
1 ATCGCAATG
1088987 AGAGAATCGC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 99 1.00
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCAAAAATGACT
Found at i:1089054 original size:20 final size:20
Alignment explanation
Indices: 1089029--1089167 Score: 110
Period size: 20 Copynumber: 7.6 Consensus size: 20
1089019 GTGATTCTTT
1089029 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
1089049 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
* *
1089069 CGA-T-CCA-A-T--TTTGTTG
1 C-ATTGCGATAGTCATTT-TCG
**
1089085 --TTGCGATTTTCA-TTTCG
1 CATTGCGATAGTCATTTTCG
*
1089102 CATTGCGAT--TC--TCTCG
1 CATTGCGATAGTCATTTTCG
1089118 --TTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
1089136 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
1089156 CATTGCGATAGT
1 CATTGCGATAGT
1089168 AAACTATTCT
Statistics
Matches: 96, Mismatches: 7, Indels: 32
0.71 0.05 0.24
Matches are distributed among these distances:
14 8 0.08
15 5 0.05
16 8 0.08
17 6 0.06
18 7 0.07
19 9 0.09
20 52 0.54
21 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:1089140 original size:34 final size:34
Alignment explanation
Indices: 1089051--1089144 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 34
1089041 CATTTTCGCA
* * * * *
1089051 TTGCGATAGTCATTTTCGCGA-TCCAATTTTGTTG
1 TTGCGATAGTCATTTTCGC-ATTGCGATTCTCTCG
**
1089085 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTTCGCATTGCGATTCTCTCG
1089118 TTGCGATAGTCATTTTCGCATTGCGAT
1 TTGCGATAGTCATTTTCGCATTGCGAT
1089145 AGTCATTTTC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
32 1 0.02
33 24 0.49
34 24 0.49
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (34 bp):
TTGCGATAGTCATTTTCGCATTGCGATTCTCTCG
Found at i:1091063 original size:20 final size:20
Alignment explanation
Indices: 1091040--1091126 Score: 95
Period size: 20 Copynumber: 4.4 Consensus size: 20
1091030 CTGAAACTTT
1091040 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
1091060 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** * **
1091080 TTATCGCAACGCGAATTTGA
1 AAATCGCAACACGAAAATGA
** *
1091100 CTATCGCAACGC-AAAATGA
1 AAATCGCAACACGAAAATGA
1091119 AAATCGCA
1 AAATCGCA
1091127 TTGCGATAGT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
19 11 0.19
20 46 0.81
ACGTcount: A:0.46, C:0.22, G:0.16, T:0.16
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:1091485 original size:22 final size:22
Alignment explanation
Indices: 1091451--1091524 Score: 103
Period size: 22 Copynumber: 3.4 Consensus size: 22
1091441 TGATCGTGAA
* * *
1091451 TGATTTCGCCGGAGATGGAGAC
1 TGATATCGTCGGAGATGGGGAC
1091473 TGATATCGTCGGAGATGGGGAC
1 TGATATCGTCGGAGATGGGGAC
*
1091495 TGATTTCGTCGGAGATGGGGAC
1 TGATATCGTCGGAGATGGGGAC
*
1091517 GGATATCG
1 TGATATCG
1091525 CCTTAGAGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.22, C:0.15, G:0.39, T:0.24
Consensus pattern (22 bp):
TGATATCGTCGGAGATGGGGAC
Found at i:1091735 original size:20 final size:20
Alignment explanation
Indices: 1091712--1091764 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1091702 CGATAGTCAG
*
1091712 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1091732 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
1091752 ATTTGCATTGCGA
1 ATTCGCATTGCGA
1091765 ATTAGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:1091787 original size:21 final size:21
Alignment explanation
Indices: 1091761--1091806 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1091751 TATTTGCATT
1091761 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
1091782 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
1091803 GCGA
1 GCGA
1091807 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:1093590 original size:42 final size:42
Alignment explanation
Indices: 1093533--1093630 Score: 189
Period size: 42 Copynumber: 2.4 Consensus size: 42
1093523 TCCTAGTCAA
1093533 TTGCCTACAAA-TGCTATGGAATCAATGAGTAGCATGGGGAT
1 TTGCCTACAAATTGCTATGGAATCAATGAGTAGCATGGGGAT
1093574 TTGCCTACAAATTGCTATGGAATCAATGAGTAGCATGGGGAT
1 TTGCCTACAAATTGCTATGGAATCAATGAGTAGCATGGGGAT
1093616 TTGCCTACAAATTGC
1 TTGCCTACAAATTGC
1093631 CTTCAAATCC
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 11 0.20
42 45 0.80
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TTGCCTACAAATTGCTATGGAATCAATGAGTAGCATGGGGAT
Found at i:1100007 original size:29 final size:29
Alignment explanation
Indices: 1099975--1100084 Score: 157
Period size: 29 Copynumber: 3.8 Consensus size: 29
1099965 ATTATTTACT
*
1099975 CATCATGATTCTACATGGGATTAATTCCC
1 CATCCTGATTCTACATGGGATTAATTCCC
* *
1100004 CATCCTGATTCTGCATGGGATTAATTTCC
1 CATCCTGATTCTACATGGGATTAATTCCC
* *
1100033 CATCCTGATTCTAAAAGGGATTAATTCCC
1 CATCCTGATTCTACATGGGATTAATTCCC
* *
1100062 CATCCTGTTTCTACATGGAATTA
1 CATCCTGATTCTACATGGGATTA
1100085 TATCATCGTC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (29 bp):
CATCCTGATTCTACATGGGATTAATTCCC
Found at i:1104858 original size:21 final size:21
Alignment explanation
Indices: 1104832--1104902 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
1104822 TCAAGAATCA
*
1104832 GTATCGATACTGATTGTTGGG
1 GTATCGATACTGATTATTGGG
*
1104853 GTATCGATACTGATTTTTGGG
1 GTATCGATACTGATTATTGGG
* *
1104874 GTACCGATACTG--TAATGGG
1 GTATCGATACTGATTATTGGG
1104893 GTATCGATAC
1 GTATCGATAC
1104903 CAAGAGTAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
19 14 0.31
21 31 0.69
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.35
Consensus pattern (21 bp):
GTATCGATACTGATTATTGGG
Found at i:1105664 original size:24 final size:24
Alignment explanation
Indices: 1105591--1105656 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
1105581 TTTGGGATAT
* * *
1105591 TTCTATGTGGTCATTTGGGACAAA
1 TTCTACGTGGTCATTCGGGAAAAA
1105615 TTCTACGTGGTCATTCGGGAAAAA
1 TTCTACGTGGTCATTCGGGAAAAA
1105639 TTCTACGTGG-CACTTCGG
1 TTCTACGTGGTCA-TTCGG
1105657 TGTAAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 2 0.05
24 36 0.95
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (24 bp):
TTCTACGTGGTCATTCGGGAAAAA
Found at i:1111497 original size:22 final size:23
Alignment explanation
Indices: 1111472--1111526 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
1111462 TTCTACGCGG
1111472 TCCTTCGGGACA-ATCTATGTGA
1 TCCTTCGGGACATATCTATGTGA
* * * *
1111494 TCCTTCGAGATATTTCTATGTGG
1 TCCTTCGGGACATATCTATGTGA
1111517 TCCTTCGGGA
1 TCCTTCGGGA
1111527 AAAATTCTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (23 bp):
TCCTTCGGGACATATCTATGTGA
Found at i:1111542 original size:24 final size:23
Alignment explanation
Indices: 1111462--1111560 Score: 83
Period size: 24 Copynumber: 4.3 Consensus size: 23
1111452 GAGTAGAGGG
*
1111462 TTCTACGCGGTCCTTCGGGACAA
1 TTCTACGCGGTCCTTCGGGAAAA
* * * * * *
1111485 -TCTATGTGATCCTTCGAGATAT
1 TTCTACGCGGTCCTTCGGGAAAA
* *
1111507 TTCTATGTGGTCCTTCGGGAAAAA
1 TTCTACGCGGTCCTTCGGG-AAAA
*
1111531 TTCTACGCGGTCTTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGA-AAA
1111555 TTCTAC
1 TTCTAC
1111561 ATGGCACTTC
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
22 16 0.27
23 17 0.28
24 27 0.45
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGGGAAAA
Found at i:1112858 original size:20 final size:19
Alignment explanation
Indices: 1112811--1112847 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1112801 ATGACCAACA
*
1112811 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
1112830 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
1112848 CTGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:1112982 original size:20 final size:20
Alignment explanation
Indices: 1112957--1113004 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1112947 AGTCCAAAAT
*
1112957 CATTGCGATAACACTGTTCA
1 CATTGCGATAACACTCTTCA
*
1112977 CATTGCGATAGCACTCTTCA
1 CATTGCGATAACACTCTTCA
1112997 CATTGCGA
1 CATTGCGA
1113005 ATTTGTGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (20 bp):
CATTGCGATAACACTCTTCA
Found at i:1113523 original size:22 final size:22
Alignment explanation
Indices: 1113466--1113511 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1113456 CTTACAAAAA
* *
1113466 TTGTTCAAGTTTTTATCTTATT
1 TTGTACAAATTTTTATCTTATT
*
1113488 TTGTACAAATTTTTATCTTGTT
1 TTGTACAAATTTTTATCTTATT
1113510 TT
1 TT
1113512 TGTAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.63
Consensus pattern (22 bp):
TTGTACAAATTTTTATCTTATT
Found at i:1113805 original size:21 final size:20
Alignment explanation
Indices: 1113752--1113818 Score: 116
Period size: 20 Copynumber: 3.3 Consensus size: 20
1113742 TATCGCAAAT
1113752 TCGCAATGTGAACAGTGCTA
1 TCGCAATGTGAACAGTGCTA
1113772 TCGCAATGTGAACAGTGCTA
1 TCGCAATGTGAACAGTGCTA
*
1113792 ACGCAATGGTGAACAGTGCTA
1 TCGCAAT-GTGAACAGTGCTA
1113813 TCGCAA
1 TCGCAA
1113819 CGCCAATTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
20 26 0.59
21 18 0.41
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.22
Consensus pattern (20 bp):
TCGCAATGTGAACAGTGCTA
Found at i:1113903 original size:20 final size:19
Alignment explanation
Indices: 1113880--1113925 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
1113870 GAAAACTTAT
*
1113880 TTGCGATACTAGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
1113900 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
1113919 TTGCGAT
1 TTGCGAT
1113926 TTTGTTGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:1113913 original size:19 final size:19
Alignment explanation
Indices: 1113889--1113927 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1113879 TTTGCGATAC
*
1113889 TAGAGATCGCGTTGCGATT
1 TAGAGATCGCATTGCGATT
1113908 TAGAGATCGCATTGCGATT
1 TAGAGATCGCATTGCGATT
1113927 T
1 T
1113928 TGTTGGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (19 bp):
TAGAGATCGCATTGCGATT
Found at i:1114681 original size:19 final size:20
Alignment explanation
Indices: 1114651--1114688 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1114641 CAAAGTTTCA
1114651 TTTTGTTTTTCAAAATCAAC
1 TTTTGTTTTTCAAAATCAAC
1114671 TTTTG-TTTTCAAAATCAA
1 TTTTGTTTTTCAAAATCAA
1114689 ATCATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTGTTTTTCAAAATCAAC
Found at i:1132567 original size:2 final size:2
Alignment explanation
Indices: 1132560--1132596 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1132550 CCCTTGTTAT
1132560 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1132597 ATTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1132602 original size:6 final size:7
Alignment explanation
Indices: 1132560--1132602 Score: 52
Period size: 8 Copynumber: 5.9 Consensus size: 7
1132550 CCCTTGTTAT
1132560 TATATATA
1 TATATA-A
1132568 TATATATA
1 TATATA-A
1132576 TATATAA
1 TATATAA
1132583 TATATATA
1 TATATA-A
1132591 TATATAA
1 TATATAA
1132598 T-TATA
1 TATATA
1132603 TTTTTCTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 4 0.12
7 9 0.26
8 21 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (7 bp):
TATATAA
Found at i:1133089 original size:2 final size:2
Alignment explanation
Indices: 1133078--1133159 Score: 157
Period size: 2 Copynumber: 41.5 Consensus size: 2
1133068 GTCTTGCATT
1133078 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1133119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1133160 GTTGTCGTTA
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 78 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1133200 original size:15 final size:16
Alignment explanation
Indices: 1133175--1133208 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
1133165 CGTTATTGTC
1133175 TTTATCTTTTTTTTTA
1 TTTATCTTTTTTTTTA
1133191 TTTA-CTTTTTTTTTA
1 TTTATCTTTTTTTTTA
1133206 TTT
1 TTT
1133209 TTTTTATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTATCTTTTTTTTTA
Found at i:1133209 original size:10 final size:10
Alignment explanation
Indices: 1133184--1133257 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 10
1133174 CTTTATCTTT
1133184 TTTTTTATTTA
1 TTTTTT-TTTA
1133195 CTTTTTTTTTA
1 -TTTTTTTTTA
1133206 -TTTTTTTTA
1 TTTTTTTTTA
* *
1133215 -TTTCTTTTG
1 TTTTTTTTTA
* *
1133224 CTTTATTTTA
1 TTTTTTTTTA
1133234 TTTGTTTTTTAA
1 TTT-TTTTTT-A
*
1133246 TTTGTTTTTA
1 TTTTTTTTTA
1133256 TT
1 TT
1133258 CATTTTCACT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
9 16 0.31
10 12 0.23
11 14 0.27
12 10 0.19
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.80
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:1133221 original size:23 final size:24
Alignment explanation
Indices: 1133182--1133232 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
1133172 GTCTTTATCT
**
1133182 TTTTTTTTATTTACTTTTTTTTTA
1 TTTTTTTTATTTACTTTTGCTTTA
1133206 TTTTTTTTATTT-CTTTTGCTTTA
1 TTTTTTTTATTTACTTTTGCTTTA
1133229 TTTT
1 TTTT
1133233 ATTTGTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.82
Consensus pattern (24 bp):
TTTTTTTTATTTACTTTTGCTTTA
Found at i:1139450 original size:20 final size:22
Alignment explanation
Indices: 1139392--1139452 Score: 74
Period size: 20 Copynumber: 2.9 Consensus size: 22
1139382 CAGAACCCTA
*
1139392 GGGGGGTATCGATTCCC-CTGT
1 GGGGGGTATCGATTCCCTCTAT
* *
1139413 GGGGGGAATCGGTTCCCTC-AT
1 GGGGGGTATCGATTCCCTCTAT
1139434 -GGGGGTATCGATTCCCTCT
1 GGGGGGTATCGATTCCCTCT
1139453 GCACCAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 16 0.48
21 16 0.48
22 1 0.03
ACGTcount: A:0.11, C:0.25, G:0.36, T:0.28
Consensus pattern (22 bp):
GGGGGGTATCGATTCCCTCTAT
Found at i:1145689 original size:17 final size:16
Alignment explanation
Indices: 1145667--1145700 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
1145657 TTCGTGTTTA
1145667 TTTTTTATATTTTATAT
1 TTTTTTATA-TTTATAT
1145684 TTTTTTATATTTATAT
1 TTTTTTATATTTATAT
1145700 T
1 T
1145701 AACTAACAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATATTTATAT
Found at i:1146218 original size:21 final size:21
Alignment explanation
Indices: 1146185--1146225 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1146175 GCGAAGAAGA
*
1146185 TGGAAGAGAAGATCAAGATGT
1 TGGAAGACAAGATCAAGATGT
* *
1146206 TGGAAGACCAGATGAAGATG
1 TGGAAGACAAGATCAAGATG
1146226 GTCAAAGGGG
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:0.41, C:0.07, G:0.34, T:0.17
Consensus pattern (21 bp):
TGGAAGACAAGATCAAGATGT
Found at i:1152617 original size:18 final size:18
Alignment explanation
Indices: 1152587--1152624 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1152577 TAAGTCGAAG
1152587 AAGAAAAAGAAAAAAGAA
1 AAGAAAAAGAAAAAAGAA
*
1152605 AAGAACAAA-AAAAGAGAA
1 AAGAA-AAAGAAAAAAGAA
1152623 AA
1 AA
1152625 ATGTTTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGAAAAAAGAA
Found at i:1153866 original size:121 final size:123
Alignment explanation
Indices: 1153559--1154101 Score: 781
Period size: 121 Copynumber: 4.4 Consensus size: 123
1153549 CAACACTTGA
* *
1153559 ATTTCAACTTCACGATGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAAGGGTCATCCAC
1 ATTTCAACTTCACGACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCAC
* * * *
1153624 GATTTCAACTTCACGACGAAGAATATCGTGCCCACCAGCAACATTCATA-TTTAGATTGG
66 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAACATT-A-ACTCTAGATTGG
* * *
1153683 ATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGACATCCAC
1 ATTTCAACTTCACGACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCAC
* * *
1153748 GATTTCAACTTCACGATGAAGGATATCGTTCCCACAACCAAC-TT-ACTCAAGATTGG
66 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAACATTAACTCTAGATTGG
* * *
1153804 ATTTCCACTTCACAAAGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCAC
1 ATTTCAACTTCACGACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCAC
* *
1153869 GATTTCAACTTCACGACGAAGGATATCGTACCCACAACCAAC-TT-ACTTTAGATTGG
66 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAACATTAACTCTAGATTGG
* * *
1153925 ATTTCAACTTCACAACGAATGATATCTAATTCAAGGATCAACTTCACAACGAAGGGGTCATCCAC
1 ATTTCAACTTCACGACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCAC
* * * *
1153990 GATTTCAACTTCACGACGAAAGATATCATGCCCACAAGCAGCATATAACTCTAGATTGG
66 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAACAT-TAACTCTAGATTGG
* * *
1154049 ATCTCAACTTCACGACGAAGGATATCTAATTCAAAGCTCAACTTCACAGCGAA
1 ATTTCAACTTCACGACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAA
1154102 TGAGTTTTCC
Statistics
Matches: 378, Mismatches: 37, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
120 1 0.00
121 217 0.57
122 1 0.00
123 3 0.01
124 156 0.41
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (123 bp):
ATTTCAACTTCACGACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCAC
GATTTCAACTTCACGACGAAGGATATCGTGCCCACAACCAACATTAACTCTAGATTGG
Found at i:1153890 original size:66 final size:66
Alignment explanation
Indices: 1153803--1154016 Score: 184
Period size: 66 Copynumber: 3.4 Consensus size: 66
1153793 CTCAAGATTG
* *
1153803 GATTTCCACTTCACAAAGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCA
1 GATTTCAACTTCACAACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCA
1153868 C
66 C
* ** * ***
1153869 GATTTCAACTTCACGACGAAGGATATCGT-ACCCACA-AC-CAACTT-AC--TTTA---G--AT-
1 GATTTCAACTTCACAACGAAGGATATC-TAATTCA-AGGCTCAACTTCACAACGAAGGGGTCATC
**
1153922 -TG
64 CAC
* *
1153924 GATTTCAACTTCACAACGAATGATATCTAATTCAAGGATCAACTTCACAACGAAGGGGTCATCCA
1 GATTTCAACTTCACAACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCA
1153989 C
66 C
* *
1153990 GATTTCAACTTCACGACGAAAGATATC
1 GATTTCAACTTCACAACGAAGGATATC
1154017 ATGCCCACAA
Statistics
Matches: 109, Mismatches: 24, Indels: 30
0.67 0.15 0.18
Matches are distributed among these distances:
54 2 0.02
55 28 0.26
56 6 0.06
57 4 0.04
59 2 0.02
62 2 0.02
64 4 0.04
65 6 0.06
66 53 0.49
67 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (66 bp):
GATTTCAACTTCACAACGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCA
C
Found at i:1154048 original size:245 final size:245
Alignment explanation
Indices: 1153559--1154101 Score: 804
Period size: 245 Copynumber: 2.2 Consensus size: 245
1153549 CAACACTTGA
*
1153559 ATTTCAACTTCACGATGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAAGGGTCATCCAC
1 ATTTCAACTTCACGAAGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAAGGGTCATCCAC
* * *
1153624 GATTTCAACTTCACGACGAAGAATATCGTGCCCACCAGCAACATTCATATTTAGATTGGATTTCA
66 GATTTCAACTTCACGACGAAGAATATCGTACCCACAACCAACATTCATATTTAGATTGGATTTCA
* * *
1153689 ACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGACATCCACGATTTC
131 ACTTCACAACGAAGGATATCCAATTCAAGGATCAACTTCACAACGAAGGGGACATCCACGATTTC
* * * *
1153754 AACTTCACGATGAAGGATATCGTTCCCACAACCAACTTACTCAAGATTGG
196 AACTTCACGACGAAAGATATCATGCCCACAACCAACTTACTCAAGATTGG
* * *
1153804 ATTTCCACTTCACAAAGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAGGGGTCATCCAC
1 ATTTCAACTTCACGAAGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAAGGGTCATCCAC
* *
1153869 GATTTCAACTTCACGACGAAGGATATCGTACCCACAACCAAC-TT-A-CTTTAGATTGGATTTCA
66 GATTTCAACTTCACGACGAAGAATATCGTACCCACAACCAACATTCATATTTAGATTGGATTTCA
* * *
1153931 ACTTCACAACGAATGATATCTAATTCAAGGATCAACTTCACAACGAAGGGGTCATCCACGATTTC
131 ACTTCACAACGAAGGATATCCAATTCAAGGATCAACTTCACAACGAAGGGGACATCCACGATTTC
* * *
1153996 AACTTCACGACGAAAGATATCATGCCCACAAGCAGCATATAACTCTAGATTGG
196 AACTTCACGACGAAAGATATCATGCCCACAACCAAC-T-T-ACTCAAGATTGG
* * * *
1154049 ATCTCAACTTCACGACGAAGGATATCTAATTCAAAGCTCAACTTCACAGCGAA
1 ATTTCAACTTCACGAAGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAA
1154102 TGAGTTTTCC
Statistics
Matches: 267, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
242 105 0.39
243 2 0.01
244 3 0.01
245 157 0.59
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (245 bp):
ATTTCAACTTCACGAAGAAGGATATCTAATTCAAGGCTCAACTTCACAACGAAAGGGTCATCCAC
GATTTCAACTTCACGACGAAGAATATCGTACCCACAACCAACATTCATATTTAGATTGGATTTCA
ACTTCACAACGAAGGATATCCAATTCAAGGATCAACTTCACAACGAAGGGGACATCCACGATTTC
AACTTCACGACGAAAGATATCATGCCCACAACCAACTTACTCAAGATTGG
Found at i:1156070 original size:2 final size:2
Alignment explanation
Indices: 1156063--1156134 Score: 116
Period size: 2 Copynumber: 38.0 Consensus size: 2
1156053 ATTATAGTTA
1156063 AT AT AT AT AT AT A- AT AT AT AT -T AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1156102 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1156135 TATTTTCACT
Statistics
Matches: 66, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
1 4 0.06
2 62 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1156109 original size:35 final size:35
Alignment explanation
Indices: 1156063--1156134 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
1156053 ATTATAGTTA
1156063 ATATATATATATA-ATATATAT-TATATATATAAT
1 ATATATATATATATATATATATATATATATATAAT
1156096 ATATATATATATATATATATATATATATATATAAT
1 ATATATATATATATATATATATATATATATATAAT
1156131 ATAT
1 ATAT
1156135 TATTTTCACT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 13 0.35
34 8 0.22
35 16 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
ATATATATATATATATATATATATATATATATAAT
Found at i:1156182 original size:4 final size:4
Alignment explanation
Indices: 1156165--1156363 Score: 76
Period size: 4 Copynumber: 48.5 Consensus size: 4
1156155 TATGCATATA
* *
1156165 TTAT TTAT TCAT TTAT TT-T TTATT TTATT TTATT TTAT TT-T TAAT TTA-
1 TTAT TTAT TTAT TTAT TTAT TTA-T TTA-T TTA-T TTAT TTAT TTAT TTAT
* * * * *
1156213 TTAT TTAT TT-T TTGT CTTGCAT TTAT ATAT ATAT ATAT TGTCT TTAT
1 TTAT TTAT TTAT TTAT -TT--AT TTAT TTAT TTAT TTAT T-TAT TTAT
* *
1156260 TGACT TTATT TTCT TTAT CTTAT TTA- TT-T TTACT TT-T TTATT TTAT
1 TTA-T TTA-T TTAT TTAT -TTAT TTAT TTAT TTA-T TTAT TTA-T TTAT
* * * *
1156306 TT-T TT-T TTAT TTTT TTAT TTCT TTAT TTCTT TTGCT TTATT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT-AT TT-AT TTA-T TTAT TTAT
1156355 TT-T TTAT TT
1 TTAT TTAT TT
1156364 TATTCATTTT
Statistics
Matches: 153, Mismatches: 22, Indels: 40
0.71 0.10 0.19
Matches are distributed among these distances:
3 27 0.18
4 77 0.50
5 46 0.30
6 2 0.01
7 1 0.01
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:1156195 original size:11 final size:11
Alignment explanation
Indices: 1156176--1156223 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
1156166 TATTTATTCA
1156176 TTTATTTTTTAT
1 TTTA-TTTTTAT
1156188 TTTA-TTTTAT
1 TTTATTTTTAT
*
1156198 TTTATTTTTAA
1 TTTATTTTTAT
1156209 TTTATTATTTAT
1 TTTATT-TTTAT
1156221 TTT
1 TTT
1156224 TTGTCTTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 10 0.31
11 11 0.34
12 11 0.34
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:1156275 original size:9 final size:9
Alignment explanation
Indices: 1156248--1156357 Score: 56
Period size: 9 Copynumber: 12.7 Consensus size: 9
1156238 TATATATATA
*
1156248 TATTGTCTT
1 TATTTTCTT
**
1156257 TATTGACTT
1 TATTTTCTT
1156266 TATTTTCTT
1 TATTTTCTT
* *
1156275 TATCTTATT
1 TATTTTCTT
1156284 TATTTTTACTT
1 TA-TTTT-CTT
1156295 T-TTTAT-TT
1 TATTT-TCTT
*
1156303 TATTTTTTTT
1 TA-TTTTCTT
1156313 TATTTT-TT
1 TATTTTCTT
1156321 TA-TTTCTT
1 TATTTTCTT
1156329 TA-TTTC--
1 TATTTTCTT
*
1156335 T-TTTGCTT
1 TATTTTCTT
*
1156343 TATTTTATT
1 TATTTTCTT
1156352 TATTTT
1 TATTTT
1156358 TTATTTTATT
Statistics
Matches: 80, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
6 4 0.05
7 3 0.04
8 16 0.20
9 43 0.54
10 11 0.14
11 3 0.04
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (9 bp):
TATTTTCTT
Found at i:1156284 original size:14 final size:14
Alignment explanation
Indices: 1156264--1156367 Score: 65
Period size: 14 Copynumber: 7.4 Consensus size: 14
1156254 CTTTATTGAC
1156264 TTTATTTTCTTTAT
1 TTTATTTTCTTTAT
* *
1156278 CTTATTTATTTTTACT
1 TTTATTT-TCTTTA-T
*
1156294 TTT-TTAT-TTTAT
1 TTTATTTTCTTTAT
* *
1156306 TTTTTTTTATTT-T
1 TTTATTTTCTTTAT
1156319 TTTA-TTTCTTTAT
1 TTTATTTTCTTTAT
*
1156332 TTCT-TTTGCTTTAT
1 TT-TATTTTCTTTAT
*
1156346 TTTATTTATTTTTTAT
1 TTTA-TT-TTCTTTAT
1156362 TTTATT
1 TTTATT
1156368 CATTTTTACT
Statistics
Matches: 70, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
12 10 0.14
13 15 0.21
14 21 0.30
15 11 0.16
16 13 0.19
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.79
Consensus pattern (14 bp):
TTTATTTTCTTTAT
Found at i:1156299 original size:8 final size:7
Alignment explanation
Indices: 1156282--1156405 Score: 65
Period size: 8 Copynumber: 16.6 Consensus size: 7
1156272 CTTTATCTTA
1156282 TTTA-TT
1 TTTATTT
1156288 TTTACTTT
1 TTTA-TTT
1156296 TTTATTT
1 TTTATTT
*
1156303 TATTTTTT
1 T-TTATTT
1156311 TTTATTTT
1 TTTA-TTT
1156319 TTTATTT
1 TTTATTT
1156326 CTTTATTT
1 -TTTATTT
**
1156334 CTTT-TGC
1 -TTTATTT
1156341 TTTATTTT
1 TTTA-TTT
1156349 ATTTATTT
1 -TTTATTT
1156357 TTTATTT
1 TTTATTT
1156364 TATTCA-TT
1 T-TT-ATTT
1156372 TTTACTTT
1 TTTA-TTT
**
1156380 TTTCCTT
1 TTTATTT
*
1156387 TTAATATT
1 TTTAT-TT
*
1156395 TTTATCT
1 TTTATTT
1156402 TTTA
1 TTTA
1156406 AGATTATTTC
Statistics
Matches: 92, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
6 8 0.09
7 29 0.32
8 50 0.54
9 5 0.05
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTATTT
Found at i:1156299 original size:23 final size:23
Alignment explanation
Indices: 1156264--1156373 Score: 107
Period size: 23 Copynumber: 4.7 Consensus size: 23
1156254 CTTTATTGAC
*
1156264 TTTATTTTCTTTATCTTATTTATT
1 TTTATTTT-TTTATTTTATTTATT
* *
1156288 TTTACTTTTTTATTTTATTTTTT
1 TTTATTTTTTTATTTTATTTATT
*
1156311 TTTATTTTTTTA-TTTCTTTATT
1 TTTATTTTTTTATTTTATTTATT
**
1156333 TCTT-TTGCTTTATTTTATTTATTT
1 T-TTATTTTTTTATTTTATTTA-TT
*
1156357 TTTATTTTATTCATTTT
1 TTTATTTT-TTTATTTT
1156374 TACTTTTTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
22 15 0.22
23 35 0.51
24 12 0.17
25 7 0.10
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (23 bp):
TTTATTTTTTTATTTTATTTATT
Found at i:1156305 original size:5 final size:5
Alignment explanation
Indices: 1156295--1156367 Score: 51
Period size: 5 Copynumber: 14.4 Consensus size: 5
1156285 ATTTTTACTT
* * * * *
1156295 TTTTA TTTTA TTTTT TTTTA -TTT- TTTTA TTTCTT TATTTC TTTTG CTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA T-TTTA TTTTA TTTTA
*
1156345 TTTTA TTTATT TTTTA TTTTA TT
1 TTTTA TTT-TA TTTTA TTTTA TT
1156368 CATTTTTACT
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
4 6 0.11
5 37 0.70
6 8 0.15
7 2 0.04
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:1156331 original size:31 final size:30
Alignment explanation
Indices: 1156286--1156382 Score: 106
Period size: 31 Copynumber: 3.2 Consensus size: 30
1156276 ATCTTATTTA
1156286 TTTTTACTTTTTTATTTTATTTTTTTTTATT
1 TTTTTA-TTTTTTATTTTATTTTTTTTTATT
* **
1156317 TTTTTATTTCTTTA-TTTCTTTTGCTTTATT
1 TTTTTATTT-TTTATTTTATTTTTTTTTATT
** *
1156347 TTATTTATTTTTTATTTTATTCATTTTTACT
1 TT-TTTATTTTTTATTTTATTTTTTTTTATT
1156378 TTTTT
1 TTTTT
1156383 CCTTTTAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
30 25 0.46
31 29 0.54
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.79
Consensus pattern (30 bp):
TTTTTATTTTTTATTTTATTTTTTTTTATT
Found at i:1158058 original size:15 final size:12
Alignment explanation
Indices: 1158022--1158055 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1158012 AAGAAAATTA
1158022 AAAAAAATAAAG
1 AAAAAAATAAAG
1158034 AAAAAAATAAAG
1 AAAAAAATAAAG
*
1158046 AAAAACATAA
1 AAAAAAATAA
1158056 TAATAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (12 bp):
AAAAAAATAAAG
Found at i:1158653 original size:19 final size:18
Alignment explanation
Indices: 1158637--1158683 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1158627 AGCCCAAATC
1158637 CCACAAAGATCCCCAAAA
1 CCACAAAGATCCCCAAAA
* *
1158655 CGACATAGATCCCCAAAA
1 CCACAAAGATCCCCAAAA
* *
1158673 CGACATAGATC
1 CCACAAAGATC
1158684 TAAATTGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.45, C:0.34, G:0.11, T:0.11
Consensus pattern (18 bp):
CCACAAAGATCCCCAAAA
Found at i:1158666 original size:18 final size:18
Alignment explanation
Indices: 1158643--1158683 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
1158633 AATCCCACAA
1158643 AGATCCCCAAAACGACAT
1 AGATCCCCAAAACGACAT
1158661 AGATCCCCAAAACGACAT
1 AGATCCCCAAAACGACAT
1158679 AGATC
1 AGATC
1158684 TAAATTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.32, G:0.12, T:0.12
Consensus pattern (18 bp):
AGATCCCCAAAACGACAT
Found at i:1159321 original size:3 final size:3
Alignment explanation
Indices: 1159309--1159357 Score: 53
Period size: 3 Copynumber: 14.7 Consensus size: 3
1159299 AAAAAATACA
1159309 AAT AAGT AAT AAT AAT AGAT AAAT AAT AAT AAAT AAAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT A-AT -AAT AAT AAT -AAT -AAT AAT AAT AAT
1159356 AA
1 AA
1159358 ATATAAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
3 27 0.64
4 14 0.33
5 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1159335 original size:14 final size:13
Alignment explanation
Indices: 1159316--1159360 Score: 72
Period size: 14 Copynumber: 3.3 Consensus size: 13
1159306 ACAAATAAGT
1159316 AATAATAATAGATA
1 AATAATAATA-ATA
1159330 AATAATAATAAATA
1 AATAATAAT-AATA
1159344 AATAATAATAATA
1 AATAATAATAATA
1159357 AATA
1 AATA
1159361 TAAAAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.27
14 21 0.70
15 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:1159335 original size:17 final size:16
Alignment explanation
Indices: 1159309--1159357 Score: 66
Period size: 14 Copynumber: 3.1 Consensus size: 16
1159299 AAAAAATACA
*
1159309 AATAAGTAATAATAAT
1 AATAAATAATAATAAT
1159325 AGATAAATAATAAT-A-
1 A-ATAAATAATAATAAT
1159340 AATAAATAATAATAAT
1 AATAAATAATAATAAT
1159356 AA
1 AA
1159358 ATATAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 12 0.41
15 2 0.07
16 4 0.14
17 11 0.38
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
AATAAATAATAATAAT
Found at i:1159358 original size:17 final size:17
Alignment explanation
Indices: 1159308--1159360 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
1159298 AAAAAAATAC
1159308 AAATAAGTAATAAT-AAT
1 AAATAA-TAATAATAAAT
*
1159325 AGATAAATAATAATAAAT
1 AAAT-AATAATAATAAAT
1159343 AAATAATAATAATAAAT
1 AAATAATAATAATAAAT
1159360 A
1 A
1159361 TAAAAAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 24 0.75
18 8 0.25
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (17 bp):
AAATAATAATAATAAAT
Found at i:1159463 original size:3 final size:3
Alignment explanation
Indices: 1159449--1159497 Score: 53
Period size: 3 Copynumber: 14.7 Consensus size: 3
1159439 AAAAAATACA
1159449 AAT AAGT AAT AAT AAT AGAT AAAT AAT AAT AAAT AAAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT A-AT -AAT AAT AAT -AAT -AAT AAT AAT AAT
1159496 AA
1 AA
1159498 ATATAAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
3 27 0.64
4 14 0.33
5 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1159475 original size:14 final size:13
Alignment explanation
Indices: 1159456--1159500 Score: 72
Period size: 14 Copynumber: 3.3 Consensus size: 13
1159446 ACAAATAAGT
1159456 AATAATAATAGATA
1 AATAATAATA-ATA
1159470 AATAATAATAAATA
1 AATAATAAT-AATA
1159484 AATAATAATAATA
1 AATAATAATAATA
1159497 AATA
1 AATA
1159501 TAAAAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.27
14 21 0.70
15 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:1159475 original size:17 final size:16
Alignment explanation
Indices: 1159449--1159497 Score: 66
Period size: 14 Copynumber: 3.1 Consensus size: 16
1159439 AAAAAATACA
*
1159449 AATAAGTAATAATAAT
1 AATAAATAATAATAAT
1159465 AGATAAATAATAAT-A-
1 A-ATAAATAATAATAAT
1159480 AATAAATAATAATAAT
1 AATAAATAATAATAAT
1159496 AA
1 AA
1159498 ATATAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 12 0.41
15 2 0.07
16 4 0.14
17 11 0.38
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
AATAAATAATAATAAT
Found at i:1159498 original size:17 final size:17
Alignment explanation
Indices: 1159448--1159500 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
1159438 CAAAAAATAC
1159448 AAATAAGTAATAAT-AAT
1 AAATAA-TAATAATAAAT
*
1159465 AGATAAATAATAATAAAT
1 AAAT-AATAATAATAAAT
1159483 AAATAATAATAATAAAT
1 AAATAATAATAATAAAT
1159500 A
1 A
1159501 TAAAAAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 24 0.75
18 8 0.25
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (17 bp):
AAATAATAATAATAAAT
Found at i:1159511 original size:140 final size:143
Alignment explanation
Indices: 1159258--1159540 Score: 545
Period size: 140 Copynumber: 2.0 Consensus size: 143
1159248 AAAACTGGGC
1159258 CCTGGACTTAGAAAGATTGGACCCCAAACGGACCTGAAACAAAAAAATACAAATAAGTAATAATA
1 CCTGGACTTAGAAAGATTGGACCCCAAACGGACCTGAAACAAAAAAATACAAATAAGTAATAATA
1159323 ATAGATAAATAATAATAAATAAATAATAATAATAAATATAAAAAAGTATTTTTTTTAAA-T-TAT
66 ATAGATAAATAATAATAAATAAATAATAATAATAAATATAAAAAAGTATTTTTTTTAAATTATAT
1159386 AATATAATTTTTT
131 AATATAATTTTTT
1159399 CCTGGACTTAGAAAGATTGGACCCCAAACGGACCTGAAAC-AAAAAATACAAATAAGTAATAATA
1 CCTGGACTTAGAAAGATTGGACCCCAAACGGACCTGAAACAAAAAAATACAAATAAGTAATAATA
1159463 ATAGATAAATAATAATAAATAAATAATAATAATAAATATAAAAAAGTATTTTTTTTAAATTATAT
66 ATAGATAAATAATAATAAATAAATAATAATAATAAATATAAAAAAGTATTTTTTTTAAATTATAT
1159528 AATATAATTTTTT
131 AATATAATTTTTT
1159541 AAAAATATTT
Statistics
Matches: 140, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
140 83 0.59
141 41 0.29
142 16 0.11
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.31
Consensus pattern (143 bp):
CCTGGACTTAGAAAGATTGGACCCCAAACGGACCTGAAACAAAAAAATACAAATAAGTAATAATA
ATAGATAAATAATAATAAATAAATAATAATAATAAATATAAAAAAGTATTTTTTTTAAATTATAT
AATATAATTTTTT
Found at i:1159550 original size:13 final size:13
Alignment explanation
Indices: 1159534--1159558 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1159524 ATATAATATA
1159534 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
1159547 ATTTTTTAAAAA
1 ATTTTTTAAAAA
1159559 ACTATATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTTTAAAAAT
Found at i:1159614 original size:32 final size:31
Alignment explanation
Indices: 1159570--1159655 Score: 138
Period size: 30 Copynumber: 2.7 Consensus size: 31
1159560 CTATATATTA
1159570 TATATAAATTTTCAAAAATGTTTTTTAAAAAAC
1 TATAT-AATTTTCAAAAATGTTTTTT-AAAAAC
1159603 TATATAATTTTCAAAAATG-TTTTTAAAAAC
1 TATATAATTTTCAAAAATGTTTTTTAAAAAC
*
1159633 TATATAATTTTCAAAAATATTTT
1 TATATAATTTTCAAAAATGTTTT
1159656 CAAAATTATA
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
30 24 0.47
31 8 0.16
32 14 0.27
33 5 0.10
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (31 bp):
TATATAATTTTCAAAAATGTTTTTTAAAAAC
Found at i:1159775 original size:36 final size:37
Alignment explanation
Indices: 1159523--1159914 Score: 302
Period size: 38 Copynumber: 10.6 Consensus size: 37
1159513 TTTTTTAAAT
* * * *
1159523 TATATAATATAATTTTTTAAAAATATTTTTTAAAAAACTA
1 TATATTATATAA-GTTTTCAAAA-ATGTTTT-AAAAACTA
* **
1159563 TATATTATATATAAATTTTCAAAAATGTTTTTTAAA--A
1 TATA-T-TATATAAGTTTTCAAAAATGTTTTAAAAACTA
*
1159600 -A-ACTATATAA-TTTTCAAAAATGTTTTTAAAAAC--
1 TATATTATATAAGTTTTCAAAAATG-TTTTAAAAACTA
* * *
1159633 -----TATATAA-TTTTCAAAAATATTTTCAAAATTA
1 TATATTATATAAGTTTTCAAAAATGTTTTAAAAACTA
*
1159664 TATATTACATATAAGTTTTCAAAAATGTTCTCAAAAACTA
1 TATATT--ATATAAGTTTTCAAAAATGTT-TTAAAAACTA
1159704 TATATTATATAAGTTTTCAAAAATGTTTTCAAAAACTA
1 TATATTATATAAGTTTTCAAAAATGTTTT-AAAAACTA
*
1159742 TATATTATATAAGCTTTC-AAAATGATTTT-AAAACTA
1 TATATTATATAAGTTTTCAAAAATG-TTTTAAAAACTA
1159778 TATATTATATATA-TTTTCTAAAAATGTTTTAAAAACTA
1 TATATTATATA-AGTTTTC-AAAAATGTTTTAAAAACTA
** *
1159816 TATATTATAT-AGTTTTCAAAGGTATTTTAAAAACTA
1 TATATTATATAAGTTTTCAAAAATGTTTTAAAAACTA
* *
1159852 TATATTATATACA-TTTT-TAAAATGTTTTTTAAAAAAC-C
1 TATATTATATA-AGTTTTCAAAAATG--TTTT-AAAAACTA
*
1159890 TATATTATATACGTATTTTCAAAAA
1 TATATTATATAAG--TTTTCAAAAA
1159915 CCGTTTGCAA
Statistics
Matches: 292, Mismatches: 29, Indels: 61
0.76 0.08 0.16
Matches are distributed among these distances:
29 8 0.03
30 18 0.06
32 12 0.04
33 14 0.05
35 1 0.00
36 54 0.18
37 22 0.08
38 95 0.33
39 22 0.08
40 27 0.09
41 13 0.04
42 6 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
TATATTATATAAGTTTTCAAAAATGTTTTAAAAACTA
Found at i:1159815 original size:74 final size:72
Alignment explanation
Indices: 1159633--1159879 Score: 295
Period size: 74 Copynumber: 3.3 Consensus size: 72
1159623 TTTTAAAAAC
* * * *
1159633 TATATAATTTTCAAAAATATTTTCAAAATTATATATTACATATAAGTTTTCAAAAATG-TTCTCA
1 TATATAATTTTCAAAAATGTTTTAAAAACTATATATT--ATATAAGTTTTC-AAAATGATT-T-T
1159697 AAAACTATATAT
61 AAAACTATATAT
*
1159709 TATATAAGTTTTCAAAAATGTTTTCAAAAACTATATATTATATAAGCTTTCAAAATGATTTTAAA
1 TATATAA-TTTTCAAAAATGTTTT-AAAAACTATATATTATATAAGTTTTCAAAATGATTTTAAA
1159774 ACTATATAT
64 ACTATATAT
*
1159783 TATATATATTTTCTAAAAATGTTTTAAAAACTATATATTATAT-AGTTTTC-AAAGGTATTTTAA
1 TATATA-ATTTTC-AAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAATG-ATTTT-A
1159846 AAACTATATAT
62 AAACTATATAT
*
1159857 TATATACATTTT-TAAAATGTTTT
1 TATATA-ATTTTCAAAAATGTTTT
1159880 TTAAAAAACC
Statistics
Matches: 155, Mismatches: 9, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
72 14 0.09
73 11 0.07
74 64 0.41
75 19 0.12
76 20 0.13
77 15 0.10
78 12 0.08
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (72 bp):
TATATAATTTTCAAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAATGATTTTAAAAC
TATATAT
Found at i:1160610 original size:85 final size:85
Alignment explanation
Indices: 1160496--1160763 Score: 312
Period size: 84 Copynumber: 3.2 Consensus size: 85
1160486 ATTTTATTGA
* *
1160496 CAGATAGCCCTTCTTGCCTTGAA-CTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCG
1 CAGATAGCCCTTCTCGCCTT-AAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1160560 AACTCGAAGGTCTTTGGTTGG
65 AACTCGAAGGTCTTTGGTTGG
* * ** * * * *
1160581 CAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCATTTG-AGTTGAGCGTAGTCGA
1 CAGATAGCCCTTCTCGCCTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
*
1160645 ACTCGAAGGTCTTT-TTTGG
66 ACTCGAAGGTCTTTGGTTGG
* * * **
1160664 CAGAT-GACCCTTCTAC-CCTTGAGTTATGTTGTGAATGATGTGCCCTCGAAGCTGAGTGTAATC
1 CAGATAG-CCCTTCT-CGCCTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATC
*
1160727 GAACTCGAAGGTTTTTGGTTGG
64 GAACTCGAAGGTCTTTGGTTGG
*
1160749 CAGATAACCCTTCTC
1 CAGATAGCCCTTCTC
1160764 AGCTGAGCGT
Statistics
Matches: 150, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
82 1 0.01
83 38 0.25
84 57 0.38
85 54 0.36
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (85 bp):
CAGATAGCCCTTCTCGCCTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
ACTCGAAGGTCTTTGGTTGG
Found at i:1160729 original size:84 final size:83
Alignment explanation
Indices: 1160462--1160763 Score: 274
Period size: 83 Copynumber: 3.6 Consensus size: 83
1160452 GGTGTCATCG
* * * * * * *
1160462 AGCTGAATGGAATCGAACTCGACA-AT-TTTATTGACAGATAGCCCTTCTTGCCTTGAA-CTATG
1 AGCTGAGTGTAATCGAACTCGA-AGGTCTTTTTTGGCAGATA-CCCTTCTCGACTT-AAGCTATG
*
1160524 CTGCAAATGATATGCCCTCGA
63 CTGCAAATGATGTGCCCTCGA
* *
1160545 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAAATAGCCCTTCTCGACTTAAGCTATGC
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTT-TTTGGCAGATA-CCCTTCTCGACTTAAGCTATGC
** *
1160610 TGCAAATGATGTGCATTTG-
64 TGCAAATGATGTGCCCTCGA
* * * * * * *
1160629 AGTTGAGCGTAGTCGAACTCGAAGGTCTTTTTTGGCAGATGACCCTTCTAC-CCTTGAGTTATGT
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTTTTGGCAGAT-ACCCTTCT-CGACTTAAGCTATGC
**
1160693 TGTGAATGATGTGCCCTCGA
64 TGCAAATGATGTGCCCTCGA
1160713 AGCTGAGTGTAATCGAACTCGAAGGT-TTTTGGTTGGCAGATAACCCTTCTC
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTT--TTGGCAGAT-ACCCTTCTC
1160764 AGCTGAGCGT
Statistics
Matches: 180, Mismatches: 30, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
82 1 0.01
83 63 0.35
84 58 0.32
85 58 0.32
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (83 bp):
AGCTGAGTGTAATCGAACTCGAAGGTCTTTTTTGGCAGATACCCTTCTCGACTTAAGCTATGCTG
CAAATGATGTGCCCTCGA
Found at i:1160879 original size:135 final size:135
Alignment explanation
Indices: 1160632--1160897 Score: 415
Period size: 135 Copynumber: 2.0 Consensus size: 135
1160622 GCATTTGAGT
* * * * **
1160632 TGAGCGTAGTCGAACTCGAAGGTCTTTTTTGGCAGATGACCCTTCTACCCTTGAGTTATGTTGTG
1 TGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTACCCTTGAGTTATGCTGCA
* *
1160697 AATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTTTTTGGTTGGCAGATAACCCTTC
66 AATGATGTGCCCTCGAAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
1160762 TCAGC
131 TCAGC
* ** *
1160767 TGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGTAGATAATTCTTCTAGCCTTGAGTTATGCTGCA
1 TGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTACCCTTGAGTTATGCTGCA
*
1160832 AATGATGTGCCCTTGAAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
66 AATGATGTGCCCTCGAAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
1160897 T
131 T
1160898 AGCCTTAAGT
Statistics
Matches: 118, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
135 118 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (135 bp):
TGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTACCCTTGAGTTATGCTGCA
AATGATGTGCCCTCGAAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
TCAGC
Found at i:1161092 original size:80 final size:82
Alignment explanation
Indices: 1160764--1161251 Score: 489
Period size: 84 Copynumber: 5.9 Consensus size: 82
1160754 AACCCTTCTC
* * * **
1160764 AGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGTAGATAATTCTTCTAGCCTTGAGTTATGCT
1 AGCTGAGTGTAGTCGAACTCGAAGGTC-TTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCT
* *
1160829 GCAAATGATGTGCCCTTG
65 GCAAATGATATGCCTTTG
* * *
1160847 AAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTAAGTTATG
1 -AGCTGAGTGTAGTCGAACTCGAAGGTC-TT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
*
1160912 CTGCAAATGATATACCTTTG
63 CTGCAAATGATATGCCTTTG
* * * * * ** * **
1160932 AGCTGAGTGTAGTCGATCTCGAAGGTGTTTTGTTGGAAAATAGCCCTTCTTTCCTTGAGCTATAT
1 AGCTGAGTGTAGTCGAACTCGAA-G-GTCTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGC
* *
1160997 TGCAAATAATGTGCCTTTG
64 TGCAAATGATATGCCTTTG
* * *
1161016 AGCTAAGTGGAATCGAACTCGAAGGTC-T-TTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
1 AGCTGAGTGTAGTCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
*
1161079 TAAATGATATGCCTTTG
66 CAAATGATATGCCTTTG
* ** * * * * * *
1161096 AGCTGAGCGTAGTAAAACTCGAAGGT-AT-TTGGCAGATAGCTCTTCTTGCCTTAAGTTATGTTG
1 AGCTGAGTGTAGTCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
* * *
1161159 CAAATGATGTACCTTGG
66 CAAATGATATGCCTTTG
* * * *
1161176 AGCTGAGCGTAGTCGAACTCGAGGGTCTTTGGTTGGCAGATAACCCTTCTAACCGTGAGTTATGC
1 AGCTGAGTGTAGTCGAACTCGAAGGTC-TT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGC
1161241 TGCAAATGATA
64 TGCAAATGATA
1161252 GTTTCTAAAA
Statistics
Matches: 326, Mismatches: 70, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
80 128 0.39
81 1 0.00
82 3 0.01
83 1 0.00
84 142 0.44
85 49 0.15
86 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (82 bp):
AGCTGAGTGTAGTCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
CAAATGATATGCCTTTG
Found at i:1161096 original size:164 final size:162
Alignment explanation
Indices: 1160828--1161251 Score: 519
Period size: 164 Copynumber: 2.6 Consensus size: 162
1160818 TGAGTTATGC
*
1160828 TGCAAATGATGTGCCCTTGAAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACC
1 TGCAAATGATGTGCCTTTG-AGCTAAGTGTAATCGAACTCGAAGGTC-TT-GTTGGCAGATAACC
* * ** *
1160893 CTTCTAGCCTTAAGTTATGCTGCAAATGATATACCTTTGAGCTGAGTGTAGTCGATCTCGAAGGT
63 CTTCTAGCCTTGAGTTATGCTGCAAATGATATACCTTTGAGCTGAGCGTAGTAAAACTCGAA-G-
* * *
1160958 GTTTTGTTGGAAAATAGCCCTTCTTTCCTTGAGCTATAT
126 G-TAT-TTGGAAAATAGCCCTTCTTGCCTTAAGCTATAT
* *
1160997 TGCAAATAATGTGCCTTTGAGCTAAGTGGAATCGAACTCGAAGGTC-T-TTGGCAGATAACCCTT
1 TGCAAATGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTGTTGGCAGATAACCCTT
* *
1161060 CTAGCCTTGAGTTATGCTGTAAATGATATGCCTTTGAGCTGAGCGTAGTAAAACTCGAAGGTATT
66 CTAGCCTTGAGTTATGCTGCAAATGATATACCTTTGAGCTGAGCGTAGTAAAACTCGAAGGTATT
* * * * *
1161125 TGGCAGATAGCTCTTCTTGCCTTAAGTTATGT
131 TGGAAAATAGCCCTTCTTGCCTTAAGCTATAT
* * * * * *
1161157 TGCAAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCGAGGGTCTTTGGTTGGCAGATAACCC
1 TGCAAATGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTC-TT-GTTGGCAGATAACCC
* *
1161222 TTCTAACCGTGAGTTATGCTGCAAATGATA
64 TTCTAGCCTTGAGTTATGCTGCAAATGATA
1161252 GTTTCTAAAA
Statistics
Matches: 222, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
160 64 0.29
161 2 0.01
162 2 0.01
163 1 0.00
164 109 0.49
166 1 0.00
168 26 0.12
169 17 0.08
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (162 bp):
TGCAAATGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTGTTGGCAGATAACCCTT
CTAGCCTTGAGTTATGCTGCAAATGATATACCTTTGAGCTGAGCGTAGTAAAACTCGAAGGTATT
TGGAAAATAGCCCTTCTTGCCTTAAGCTATAT
Found at i:1162585 original size:101 final size:99
Alignment explanation
Indices: 1162365--1162631 Score: 315
Period size: 101 Copynumber: 2.7 Consensus size: 99
1162355 AGCTGAATCT
* * * * *
1162365 ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGATAGCTTAAT-ATCATTGTATAGATATTA
1 ATAAAGCTGGGGC-TTTAACCAATTGCTCTAGAGGGATAACTCAATCTTTATTGTATAGATATTA
*
1162429 T-AATCACATTTATCAGGCTAGCTGAATATTATCC
65 TAAATCACATTTATCAAGCTAGCTGAATATTATCC
*
1162463 ATAAAGCCTGGGTG-TTTAACCAATTTCTCTAGAGGGATAACTCAATCTTTATTGTATAGATATT
1 ATAAAG-CTGGG-GCTTTAACCAATTGCTCTAGAGGGATAACTCAATCTTTATTGTATAGATATT
* * * *
1162527 ATAAATCACCTTTATCAAGCTTAGTTGAATCTTATTC
64 ATAAATCACATTTATCAAGC-TAGCTGAATATTATCC
* * * * *
1162564 ATAAAGCTGGGGCATTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTATATATATATAT
1 ATAAAGCTGGGGC-TTTAACCAATTGCTCTAGAGGGATAACTCAATCTTTATTGTATAGATAT-T
1162629 ATA
64 ATA
1162632 TATATATGGT
Statistics
Matches: 144, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
98 35 0.24
99 22 0.15
100 21 0.15
101 62 0.43
102 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (99 bp):
ATAAAGCTGGGGCTTTAACCAATTGCTCTAGAGGGATAACTCAATCTTTATTGTATAGATATTAT
AAATCACATTTATCAAGCTAGCTGAATATTATCC
Done.