Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_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: 3902382
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 18
Found at i:694306 original size:25 final size:25
Alignment explanation
Indices: 694278--694342 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
694268 ACTCAAAAGA
*
694278 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
694303 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
694328 TGTACATACCTAAAT
1 TGTACATACCTAAAT
694343 TTAATGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:697118 original size:183 final size:183
Alignment explanation
Indices: 696806--697618 Score: 1425
Period size: 183 Copynumber: 4.4 Consensus size: 183
696796 TTAAAATTAC
*
696806 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTGCCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
696871 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGTT
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
696936 ATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
696989 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
697054 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTTAAACCGGTT
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
*
697119 ATATTACAAAATTATCTATTACATTAAAATTCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
697172 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
697237 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
*
697302 ATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAATTGT
131 ATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
* *
697355 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACATAA
1 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
697419 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
65 TATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
* *
697484 TATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA--T
130 TATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TGTAAATGT
* * **
697539 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCTATTCTGGACATAAAGTATAGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
697604 ATTAAAAAGTGTCGA
66 ATTAGAAAGTGTCGA
697619 CACATTATTT
Statistics
Matches: 604, Mismatches: 21, Indels: 9
0.95 0.03 0.01
Matches are distributed among these distances:
183 527 0.87
184 74 0.12
186 3 0.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (183 bp):
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
Found at i:697612 original size:21 final size:21
Alignment explanation
Indices: 697588--697627 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
697578 TTCTGGACAT
697588 AAAGTATAGACACAATATTAA
1 AAAGTATAGACACAATATTAA
* * *
697609 AAAGTGTCGACACATTATT
1 AAAGTATAGACACAATATT
697628 TAGACACATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (21 bp):
AAAGTATAGACACAATATTAA
Found at i:697991 original size:200 final size:200
Alignment explanation
Indices: 697648--698134 Score: 922
Period size: 200 Copynumber: 2.4 Consensus size: 200
697638 AAGTACAGAC
697648 ACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGA
1 ACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGA
697713 CACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAA
66 CACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAA
*
697778 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATACTTGTACCGGTTAGATTGAA
131 GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAA
697843 AAATT
196 AAATT
*
697848 ACATATTGCATTATACTTTT-GTGTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCG
1 ACATATTACATTATACTTTTGGT-TTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCG
697912 ACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAA
65 ACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAA
* *
697977 CGTGTCGACACATTATTTAGACATATTCTCTTATAAAACCGGTATACTTGTACCGGTTAGATTGA
130 AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
698042 AAAATT
195 AAAATT
698048 ACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGA
1 ACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGA
698113 CACTTTATGGTTGCACCCTGTT
66 CACTTTATGGTTGCACCCTGTT
698135 GGCCATATTG
Statistics
Matches: 280, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
199 2 0.01
200 276 0.99
201 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (200 bp):
ACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATCGA
CACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAA
GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAA
AAATT
Found at i:700031 original size:24 final size:24
Alignment explanation
Indices: 699994--700046 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
699984 CCGTTCTATC
699994 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTAGC-TA
** *
700018 TATTTTCATCGGATATGTTATCTA
1 TATTTTCAGAGGATATGTTAGCTA
700042 TATTT
1 TATTT
700047 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.51
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTAGCTA
Found at i:700208 original size:17 final size:18
Alignment explanation
Indices: 700186--700228 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
700176 ATATATCCGG
700186 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
700203 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
700223 TATCAT
1 TATCAT
700229 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:700246 original size:20 final size:19
Alignment explanation
Indices: 700191--700237 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
700181 TCCGGTATCA
700191 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
700210 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
700231 TTTTACC
1 TTTTACC
700238 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:700399 original size:20 final size:20
Alignment explanation
Indices: 700372--700418 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
700362 TCCGGTAACG
700372 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
700391 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
700412 TTTTACC
1 TTTTACC
700419 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:700462 original size:181 final size:182
Alignment explanation
Indices: 700158--700630 Score: 709
Period size: 181 Copynumber: 2.6 Consensus size: 182
700148 CGTACTTACG
* *
700158 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
700223 TATCATATTTTTACCTGTTATATCGTTGTGGATCGAAATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGAAACATTTTTTAAAAGTATCGACACATTAT
* *
700288 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTTGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
700339 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
700404 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGAAACATTTTTTAAAAGTATCGACACATTAT
** *
700469 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * *
700521 AAAGTA-CAGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCT-ATACCGGT
1 AAAGTATC-GACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGT
* * * *
700584 TTTGTCATAGTTTTACCTGTTATATCGTTTTGGTTCGACACATTTTT
64 TTTATCATATTTTTACCTGTTATATCGTTTTGGATCGAAACATTTTT
700631 AATTTGGATC
Statistics
Matches: 265, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
181 167 0.63
182 97 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGAAACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:701153 original size:230 final size:230
Alignment explanation
Indices: 700697--701193 Score: 899
Period size: 230 Copynumber: 2.2 Consensus size: 230
700687 ACCTACTTTT
700697 ATAAGTATGGACACTTTTATAAAAATGATATATAC-TTTTTTTAAAGTTATGTAATTTATGTTTC
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTC
*
700761 AATTTTTTTTAATAGTATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
66 AATTTTTTTTAATAATATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
700826 AAAAAATATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
131 AAAAAATATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
* *
700891 CCAAATATAATAATAAATATGTTTTCCACAGTGAA
196 CCAAAGATAATAATAAATATATTTTCCACAGTGAA
*
700926 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTC
*
700991 AATTTTTTTTAATAATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
66 AATTTTTTTTAATAATATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
*
701056 AAAAATTATTTGATTCTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTA
131 AAAAAATATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTA
701121 ACCAAAGATAATAATAAATATATTTT-CACAGTGAA
195 ACCAAAGATAATAATAAATATATTTTCCACAGTGAA
* *
701156 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTT
701194 ACAATATAAC
Statistics
Matches: 258, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
229 35 0.14
230 150 0.58
231 73 0.28
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (230 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTC
AATTTTTTTTAATAATATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
AAAAAATATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
CCAAAGATAATAATAAATATATTTTCCACAGTGAA
Found at i:702323 original size:13 final size:13
Alignment explanation
Indices: 702305--702331 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
702295 TGAGGAGTGG
702305 TTGGCTCAGGGCC
1 TTGGCTCAGGGCC
702318 TTGGCTCAGGGCC
1 TTGGCTCAGGGCC
702331 T
1 T
702332 ATATACTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.30, G:0.37, T:0.26
Consensus pattern (13 bp):
TTGGCTCAGGGCC
Found at i:706984 original size:16 final size:18
Alignment explanation
Indices: 706953--706986 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
706943 TAATTTTTTT
706953 TTTTGATAAGAATGAAGA
1 TTTTGATAAGAATGAAGA
706971 TTTT-ATAA-AATGAAGA
1 TTTTGATAAGAATGAAGA
706987 GTCGAAGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (18 bp):
TTTTGATAAGAATGAAGA
Found at i:707276 original size:19 final size:19
Alignment explanation
Indices: 707254--707292 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
707244 AATCAACGCA
707254 TACAGAGACAACAAAAGCG
1 TACAGAGACAACAAAAGCG
**
707273 TACAGAGACAGTAAAAGCG
1 TACAGAGACAACAAAAGCG
707292 T
1 T
707293 TTCGAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.18, G:0.23, T:0.10
Consensus pattern (19 bp):
TACAGAGACAACAAAAGCG
Found at i:723549 original size:2 final size:2
Alignment explanation
Indices: 723542--723601 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
723532 TTGAAATAAT
723542 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
723584 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
723602 AATGAATGTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:723684 original size:13 final size:13
Alignment explanation
Indices: 723666--723701 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
723656 ATACTTATGC
723666 ATACAATATAAGT
1 ATACAATATAAGT
723679 ATACAATATAAGT
1 ATACAATATAAGT
*
723692 ATACATTATA
1 ATACAATATA
723702 CTTATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (13 bp):
ATACAATATAAGT
Found at i:723696 original size:26 final size:26
Alignment explanation
Indices: 723666--723727 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
723656 ATACTTATGC
723666 ATACAATATAAGTATACA-ATATAAGT
1 ATACAATATAAGTATACATATATAA-T
* ** *
723692 ATACATTATACTTATATATATATAAT
1 ATACAATATAAGTATACATATATAAT
*
723718 ATAAAATATA
1 ATACAATATA
723728 TAAACTATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.37
Consensus pattern (26 bp):
ATACAATATAAGTATACATATATAAT
Found at i:723728 original size:16 final size:16
Alignment explanation
Indices: 723707--723745 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
723697 TTATACTTAT
723707 ATATATATAA-TATAAA
1 ATATATA-AACTATAAA
723723 ATATATAAACTATAAA
1 ATATATAAACTATAAA
723739 ATATATA
1 ATATATA
723746 GAAAGAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATAAACTATAAA
Found at i:725904 original size:30 final size:30
Alignment explanation
Indices: 725870--725927 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
725860 TTTGAGGGCC
**
725870 TAATTAATTCTTTTA-AAAAGTTTAAGGACT
1 TAATT-ATTCTTTTAGAAAAAATTAAGGACT
*
725900 TAATTATTTTTTTAGAAAAAATTAAGGA
1 TAATTATTCTTTTAGAAAAAATTAAGGA
725928 TGAAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (30 bp):
TAATTATTCTTTTAGAAAAAATTAAGGACT
Found at i:734074 original size:3 final size:3
Alignment explanation
Indices: 734066--734130 Score: 103
Period size: 3 Copynumber: 21.0 Consensus size: 3
734056 CTGTAACTTA
734066 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
734114 TAC TTTC TTCC TTC TTC
1 TTC -TTC TT-C TTC TTC
734131 CCGTGTGCTT
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
3 53 0.91
4 5 0.09
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:737481 original size:14 final size:14
Alignment explanation
Indices: 737462--737492 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
737452 TGAGACAACC
737462 GGAGAATATGAATA
1 GGAGAATATGAATA
737476 GGAGAATATGAATA
1 GGAGAATATGAATA
737490 GGA
1 GGA
737493 TATGGGTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.19
Consensus pattern (14 bp):
GGAGAATATGAATA
Found at i:739433 original size:18 final size:18
Alignment explanation
Indices: 739390--739433 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
739380 TGTGTTCTAT
*
739390 GTGGTCCATCGGGACATA
1 GTGGTCCTTCGGGACATA
739408 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
739426 GTGGTCCT
1 GTGGTCCT
739434 ACAGGACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.23, G:0.34, T:0.27
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:739440 original size:18 final size:18
Alignment explanation
Indices: 739401--739441 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
739391 TGGTCCATCG
* *
739401 GGACATAGTGGTCCTTCG
1 GGACATAGTGGTCCTACA
739419 GGACATAGTGGTCCTACA
1 GGACATAGTGGTCCTACA
739437 GGACA
1 GGACA
739442 AATTCTACGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (18 bp):
GGACATAGTGGTCCTACA
Found at i:743836 original size:21 final size:21
Alignment explanation
Indices: 743810--743865 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
743800 TCTTTGAGTG
743810 TTATATAAGCTTAAGGAAAGC
1 TTATATAAGCTTAAGGAAAGC
743831 TTATATAAGCTTAAGGAAAGC
1 TTATATAAGCTTAAGGAAAGC
743852 TTATATAAGCTTAA
1 TTATATAAGCTTAA
743866 AAGATTGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (21 bp):
TTATATAAGCTTAAGGAAAGC
Found at i:752012 original size:38 final size:38
Alignment explanation
Indices: 751939--752014 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
751929 TGTATATTAA
751939 GTATATAATTAGTTATAGATATAATAGATATTTTTATT
1 GTATATAATTAGTTATAGATATAATAGATATTTTTATT
*
751977 GTATATAATATA-TATATATATATAA-AG-TATGTTTTATT
1 GTATATAAT-TAGT-TATAGATATAATAGATAT-TTTTATT
752015 TGAAAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
37 3 0.09
38 19 0.56
39 12 0.35
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (38 bp):
GTATATAATTAGTTATAGATATAATAGATATTTTTATT
Found at i:752844 original size:3 final size:3
Alignment explanation
Indices: 752836--752885 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
752826 CACTAAATCT
752836 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
752884 TT
1 TT
752886 TTGAGAATAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:768438 original size:2 final size:2
Alignment explanation
Indices: 768431--768460 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
768421 ATTAAAGTTA
768431 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
768461 ATTTTGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:775265 original size:29 final size:26
Alignment explanation
Indices: 775197--775266 Score: 63
Period size: 29 Copynumber: 2.6 Consensus size: 26
775187 TATCCTTAAA
775197 AATTTTA-ATTTTTTTTATATAGTTT
1 AATTTTATATTTTTTTTATATAGTTT
* *
775222 AATATTATAGATTTTTTTATTAATTA-TTT
1 AATTTTATA-TTTTTTTTA-T-A-TAGTTT
*
775251 AATTTTATACTTTTTT
1 AATTTTATATTTTTTT
775267 AAAATTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
25 6 0.17
26 1 0.03
27 8 0.22
28 7 0.19
29 12 0.33
30 2 0.06
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (26 bp):
AATTTTATATTTTTTTTATATAGTTT
Found at i:775488 original size:21 final size:21
Alignment explanation
Indices: 775464--775511 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
775454 TTGAATCAAG
*
775464 TTAAATTTAATATAATTTAAA
1 TTAAATTTAACATAATTTAAA
775485 TTAAATTTAACATAATTTAAA
1 TTAAATTTAACATAATTTAAA
775506 TTAAAT
1 TTAAAT
775512 CCTACCAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAATTTAACATAATTTAAA
Found at i:781909 original size:2 final size:2
Alignment explanation
Indices: 781902--781950 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
781892 TAAACTTTTG
781902 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
781944 TA TA TA T
1 TA TA TA T
781951 CTTACACATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:783051 original size:4 final size:4
Alignment explanation
Indices: 783042--783068 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
783032 GAGTGTTATA
783042 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
783069 GAACAATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:783878 original size:45 final size:45
Alignment explanation
Indices: 783808--783901 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
783798 TATTACAATA
* *
783808 CTATAACACTAGCTGTGGCTTGTTTACAAACACAACTTCGCTATT
1 CTATAACACTAGCTGCGGCTAGTTTACAAACACAACTTCGCTATT
783853 CTATAACACTAGCTGCGGCTAGTTTACAAACACAACTTCGCTATT
1 CTATAACACTAGCTGCGGCTAGTTTACAAACACAACTTCGCTATT
783898 CTAT
1 CTAT
783902 GCTTTGCTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (45 bp):
CTATAACACTAGCTGCGGCTAGTTTACAAACACAACTTCGCTATT
Found at i:783884 original size:24 final size:24
Alignment explanation
Indices: 783812--783885 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
783802 ACAATACTAT
* *
783812 AACACTAGCTGTGGCTTGTTTACA
1 AACACTAGCTGCGGCTAGTTTACA
* * *
783836 AACAC-AACTTC-GCTA-TTCTA-T
1 AACACTAGCTGCGGCTAGTT-TACA
783857 AACACTAGCTGCGGCTAGTTTACA
1 AACACTAGCTGCGGCTAGTTTACA
783881 AACAC
1 AACAC
783886 AACTTCGCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
21 7 0.19
22 9 0.24
23 9 0.24
24 12 0.32
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (24 bp):
AACACTAGCTGCGGCTAGTTTACA
Found at i:784756 original size:45 final size:45
Alignment explanation
Indices: 784666--784759 Score: 125
Period size: 45 Copynumber: 2.1 Consensus size: 45
784656 TTAGCAAAGC
** * *
784666 ATAGAATAACAAAGTTGTGTTTGTAAATTAGCCGCAGCTACTGTT
1 ATAGAATAACAAAGTTGTGTTTGTAAACAAGCCACAACTACTGTT
* * *
784711 ATAGAATAGCGAAGTTGTGTTTGTAAACAAGCCACAACTAGTGTT
1 ATAGAATAACAAAGTTGTGTTTGTAAACAAGCCACAACTACTGTT
784756 ATAG
1 ATAG
784760 CATTGTAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (45 bp):
ATAGAATAACAAAGTTGTGTTTGTAAACAAGCCACAACTACTGTT
Found at i:788090 original size:27 final size:25
Alignment explanation
Indices: 788060--788117 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
788050 AATTTTGAAT
788060 TAATATTCATTATA-TATATATTAAAAA
1 TAATATT--TTATATTATATATT-AAAA
*
788087 TAAT-TTTTATATTTTATATTAAAA
1 TAATATTTTATATTATATATTAAAA
788111 TAATATT
1 TAATATT
788118 GTCCAAAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 13 0.46
25 9 0.32
26 2 0.07
27 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TAATATTTTATATTATATATTAAAA
Found at i:788096 original size:24 final size:24
Alignment explanation
Indices: 788069--788114 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
788059 TTAATATTCA
788069 TTATA-TATATATTAAAAATAATTT
1 TTATATTATATATT-AAAATAATTT
*
788093 TTATATTTTATATTAAAATAAT
1 TTATATTATATATTAAAATAAT
788115 ATTGTCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTATATTATATATTAAAATAATTT
Found at i:788758 original size:21 final size:21
Alignment explanation
Indices: 788705--788765 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
788695 GGCGGAGACT
* * *
788705 GGACTAGTGGTGGTGGTGAGT
1 GGACTGGTGGTGGTGGAGAGG
* * *
788726 GAACCGGAGGTGGTGGAGAGG
1 GGACTGGTGGTGGTGGAGAGG
788747 GGACTGGTGGTGGTGGAGA
1 GGACTGGTGGTGGTGGAGA
788766 ATTGACTGGC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.07, G:0.56, T:0.20
Consensus pattern (21 bp):
GGACTGGTGGTGGTGGAGAGG
Found at i:791012 original size:14 final size:14
Alignment explanation
Indices: 790995--791032 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
790985 ATATTAAATA
790995 ATAAATATAATTAT
1 ATAAATATAATTAT
*
791009 ATAACTATAATTAT
1 ATAAATATAATTAT
791023 A-AAATA-AATT
1 ATAAATATAATT
791033 TGGGGCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 4 0.18
13 4 0.18
14 14 0.64
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAAATATAATTAT
Found at i:794781 original size:23 final size:22
Alignment explanation
Indices: 794744--794789 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
794734 ATTGCAATGA
*
794744 TATTTCTCTTAA-TTTCTTAAAT
1 TATTTCACTTAATTTTC-TAAAT
794766 TATTTCACTATAATTTTCTAAAT
1 TATTTCACT-TAATTTTCTAAAT
794789 T
1 T
794790 GTTAAATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 9 0.43
24 4 0.19
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTCACTTAATTTTCTAAAT
Found at i:800026 original size:12 final size:13
Alignment explanation
Indices: 799996--800023 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
799986 ATATTTTCTA
799996 TTTAATTGTATTT
1 TTTAATTGTATTT
800009 TTTAATTGTATTT
1 TTTAATTGTATTT
800022 TT
1 TT
800024 AATAAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (13 bp):
TTTAATTGTATTT
Found at i:802415 original size:31 final size:31
Alignment explanation
Indices: 802377--802438 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
802367 TGCTCACGTT
* *
802377 GATCTTCACTTAGTTTCTCTCGAACACTAAG
1 GATCTTCACTTAGTTTCCCTCAAACACTAAG
802408 GATCTTCACTTAGTTTCCCTCAAACACTAAG
1 GATCTTCACTTAGTTTCCCTCAAACACTAAG
802439 TATTGTACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.34
Consensus pattern (31 bp):
GATCTTCACTTAGTTTCCCTCAAACACTAAG
Found at i:803460 original size:34 final size:34
Alignment explanation
Indices: 803417--803482 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
803407 ATTTCAGGAT
803417 GGTAATCTTATTCCAGAAGGTAATGTAACATTTC
1 GGTAATCTTATTCCAGAAGGTAATGTAACATTTC
* *
803451 GGTAATCTTATTCCTGAAGGTAATGTTACATT
1 GGTAATCTTATTCCAGAAGGTAATGTAACATT
803483 CCATGAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (34 bp):
GGTAATCTTATTCCAGAAGGTAATGTAACATTTC
Found at i:804314 original size:32 final size:33
Alignment explanation
Indices: 804277--804354 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
804267 AAGAGAAGGG
*
804277 AAAAAGCGTGCCAC-AAGAGTAGAGCCATACGA
1 AAAAAGCGTGCCACAAAGAGCAGAGCCATACGA
* *
804309 AAAAAGCGTGGCACAAAGAGCAGAGCCATACGG
1 AAAAAGCGTGCCACAAAGAGCAGAGCCATACGA
804342 AAAAAGCGTGCCA
1 AAAAAGCGTGCCA
804355 TAAGGAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 13 0.32
33 28 0.68
ACGTcount: A:0.44, C:0.22, G:0.27, T:0.08
Consensus pattern (33 bp):
AAAAAGCGTGCCACAAAGAGCAGAGCCATACGA
Found at i:806507 original size:29 final size:29
Alignment explanation
Indices: 806465--806523 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
806455 ATTTTCACCT
806465 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
806494 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
806523 A
1 A
806524 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:811191 original size:29 final size:29
Alignment explanation
Indices: 811149--811207 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
811139 ATTTTCACCT
811149 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
811178 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
811207 A
1 A
811208 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:811347 original size:30 final size:30
Alignment explanation
Indices: 811297--811354 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
811287 TGTAAACTTA
811297 AAAAAATATCTTATTATTATCTTAACTTTT
1 AAAAAATATCTTATTATTATCTTAACTTTT
* * *
811327 AAAATATATTTTATTTTTATCTTAACTT
1 AAAAAATATCTTATTATTATCTTAACTT
811355 ATTACATAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (30 bp):
AAAAAATATCTTATTATTATCTTAACTTTT
Found at i:814150 original size:360 final size:360
Alignment explanation
Indices: 813489--814165 Score: 1239
Period size: 360 Copynumber: 1.9 Consensus size: 360
813479 TTTGAGTGAG
*
813489 GTTGACTATAACAAGTGTTTCTCAACTCCCTAAGTCCATCTTCATTGAAACTCCTTATTAATTCA
1 GTTGACTATAACAAGTGTTTCTCAACTCCCTAAGTCCATCTTCATCGAAACTCCTTATTAATTCA
813554 AACCATAGGCATTATTGTCTTTATTCCTTGAACTTTATCAAATTTAATCATTAGCCCAATTCAAG
66 AACCATAGGCATTATTGTCTTTATTCCTTGAACTTTATCAAATTTAATCATTAGCCCAATTCAAG
813619 CATAGCTGATAGATTAATCTCATCATAAAGTTTCGACTTGACAACCACAGTGGAGCAAACACTAA
131 CATAGCTGATAGATTAATCTCATCATAAAGTTTCGACTTGACAACCACAGTGGAGCAAACACTAA
*
813684 ATTACCAGGTATTCGATCAATGTCATGGTTTAAATGCAATATATACAAAAAGTCAAGGTTTTTGA
196 ATTACCAGGTATCCGATCAATGTCATGGTTTAAATGCAATATATACAAAAAGTCAAGGTTTTTGA
*
813749 GTTATCTCTATAACCAATTGCTTTAGCGGAATAGCTAAGTTTTATTACATTTACCTTCACTCATA
261 GTTACCTCTATAACCAATTGCTTTAGCGGAATAGCTAAGTTTTATTACATTTACCTTCACTCATA
813814 TCAATTGCTTCATCCAAACTCCTTATTGTTTTAAA
326 TCAATTGCTTCATCCAAACTCCTTATTGTTTTAAA
* *
813849 GTTGACTATAACAAGTGTTTCTCAACTCCTTGAGTCCATCTTCATCGAAACTCCTTATTAATTCA
1 GTTGACTATAACAAGTGTTTCTCAACTCCCTAAGTCCATCTTCATCGAAACTCCTTATTAATTCA
*
813914 AACCATAGGCATTATTTTCTTTATTCCTTGAACTTTATCAAATTTAATCATTAGCCCAATTCAAG
66 AACCATAGGCATTATTGTCTTTATTCCTTGAACTTTATCAAATTTAATCATTAGCCCAATTCAAG
*
813979 CATAGCTGATGGATTAATCTCATCATAAAGGTTT-GACTTGACAACCACAGTGGAGCAAACACTA
131 CATAGCTGATAGATTAATCTCATCATAAA-GTTTCGACTTGACAACCACAGTGGAGCAAACACTA
* * * *
814043 AATTGCCAGGTATCCGATCAATGTCATGGTTTGAATGTAATATATTCAAAAAGTCAAGGTTTTTG
195 AATTACCAGGTATCCGATCAATGTCATGGTTTAAATGCAATATATACAAAAAGTCAAGGTTTTTG
814108 AGTTACCTCTATAACCAATTGCTTTAGCGGAATAGCTAAGTTTTATTACATTTACCTT
260 AGTTACCTCTATAACCAATTGCTTTAGCGGAATAGCTAAGTTTTATTACATTTACCTT
814166 GTGAGGATAC
Statistics
Matches: 305, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
360 301 0.99
361 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (360 bp):
GTTGACTATAACAAGTGTTTCTCAACTCCCTAAGTCCATCTTCATCGAAACTCCTTATTAATTCA
AACCATAGGCATTATTGTCTTTATTCCTTGAACTTTATCAAATTTAATCATTAGCCCAATTCAAG
CATAGCTGATAGATTAATCTCATCATAAAGTTTCGACTTGACAACCACAGTGGAGCAAACACTAA
ATTACCAGGTATCCGATCAATGTCATGGTTTAAATGCAATATATACAAAAAGTCAAGGTTTTTGA
GTTACCTCTATAACCAATTGCTTTAGCGGAATAGCTAAGTTTTATTACATTTACCTTCACTCATA
TCAATTGCTTCATCCAAACTCCTTATTGTTTTAAA
Found at i:815902 original size:15 final size:16
Alignment explanation
Indices: 815884--815917 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
815874 AAATATTTTT
815884 AAAAT-AAATTATTAA
1 AAAATAAAATTATTAA
815899 AAAATAAAATTATTAA
1 AAAATAAAATTATTAA
815915 AAA
1 AAA
815918 GTATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAAAATTATTAA
Found at i:817769 original size:24 final size:24
Alignment explanation
Indices: 817737--817794 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
817727 TCTTGACTTC
*
817737 TTTCATTAACTTCTTACACGTTAA
1 TTTCCTTAACTTCTTACACGTTAA
817761 TTTCCTTAACTTCTTACACGTTAA
1 TTTCCTTAACTTCTTACACGTTAA
817785 TTTCCTTAAC
1 TTTCCTTAAC
817795 AACTTTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.24, G:0.03, T:0.47
Consensus pattern (24 bp):
TTTCCTTAACTTCTTACACGTTAA
Found at i:819378 original size:12 final size:12
Alignment explanation
Indices: 819363--819405 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
819353 TTGATATTGA
819363 TATTGATGCGAG
1 TATTGATGCGAG
* * *
819375 TATTGGTACAAG
1 TATTGATGCGAG
*
819387 TATTGATGTGAG
1 TATTGATGCGAG
819399 TATTGAT
1 TATTGAT
819406 ATGACTATCG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.28, C:0.05, G:0.28, T:0.40
Consensus pattern (12 bp):
TATTGATGCGAG
Found at i:819378 original size:24 final size:24
Alignment explanation
Indices: 819325--819407 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
819315 GGTATTGAAT
* * *
819325 AGTATTGATACTGGTATTGATGCA
1 AGTATTGATATTGATATTGATGCG
*
819349 AATATTGATATTGATATTGATGCG
1 AGTATTGATATTGATATTGATGCG
* ** *
819373 AGTATTGGTA-CAAGTATTGATGTG
1 AGTATTGATATTGA-TATTGATGCG
819397 AGTATTGATAT
1 AGTATTGATAT
819408 GACTATCGAT
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
23 1 0.02
24 46 0.98
ACGTcount: A:0.31, C:0.05, G:0.24, T:0.40
Consensus pattern (24 bp):
AGTATTGATATTGATATTGATGCG
Found at i:821997 original size:287 final size:287
Alignment explanation
Indices: 821481--822007 Score: 867
Period size: 287 Copynumber: 1.8 Consensus size: 287
821471 ATCTTAAAAT
* *
821481 CTTCCTACATCATTTCCAGCCCCTACATAATTTTTCCATATTTTTTCTCATCCTCAAAAGCCAAG
1 CTTCCTACATCATTTCCAGCCCATACATAATTTTTCCATATATTTTCTCATCCTCAAAAGCCAAG
** *
821546 GTTGAATAGTACAAGTATAGGTTCCATGATTGCACTTGGTTTTGATTCAATTCGAGCATCAAATC
66 GTTGAATAGTACAAGTATAGGTTCCACAATTGCACTTGATTTTGATTCAATTCGAGCATCAAATC
* * *
821611 AACCTCTACTCAACCTTATAAAATCTCTACAATCAAAGCCCTAATCAAATTTCATCAAATCATAA
131 AACCTCTACTCAAACTTATAAAATATCTACAATCAAAGCCCTAATCAAATTTCATCAAATCACAA
** *
821676 CTTTTTCTAATTTTTAGGGTTAGGCCAAAACTACCAAATGCATTTCTAGGAGGTTTGATCATGAT
196 CTTTCCCTAATTTTTAGGGATAGGCCAAAACTACCAAATGCATTTCTAGGAGGTTTGATCATGAT
821741 TTAATCATCAACCAAGCTTGTATAATA
261 TTAATCATCAACCAAGCTTGTATAATA
*
821768 CTTCCTACATCATTTCCAGCCCATACATAATTTTTCCATA-ATTTTCTCATCCTTAAAAGCCAAG
1 CTTCCTACATCATTTCCAGCCCATACATAATTTTTCCATATATTTTCTCATCCTCAAAAGCCAAG
* * *
821832 GTTGAATAGTACAAGTCTAGGGTTCCACAATTTCACTTGATTTTGATTCAATTCGAGCATGAAAT
66 GTTGAATAGTACAAGTATA-GGTTCCACAATTGCACTTGATTTTGATTCAATTCGAGCATCAAAT
* *
821897 CAACCTCTATTCAAACTTATAAAATATCTACAATCAAAGCTCTAATCAAATTTCATCAAATCACA
130 CAACCTCTACTCAAACTTATAAAATATCTACAATCAAAGCCCTAATCAAATTTCATCAAATCACA
* *
821962 ACTTTCCCTAATTTTTAGGGATAGGTCGAAACTACCAAATGCATTT
195 ACTTTCCCTAATTTTTAGGGATAGGCCAAAACTACCAAATGCATTT
822008 TGTTGAGTTA
Statistics
Matches: 220, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
286 40 0.18
287 180 0.82
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (287 bp):
CTTCCTACATCATTTCCAGCCCATACATAATTTTTCCATATATTTTCTCATCCTCAAAAGCCAAG
GTTGAATAGTACAAGTATAGGTTCCACAATTGCACTTGATTTTGATTCAATTCGAGCATCAAATC
AACCTCTACTCAAACTTATAAAATATCTACAATCAAAGCCCTAATCAAATTTCATCAAATCACAA
CTTTCCCTAATTTTTAGGGATAGGCCAAAACTACCAAATGCATTTCTAGGAGGTTTGATCATGAT
TTAATCATCAACCAAGCTTGTATAATA
Found at i:823514 original size:14 final size:15
Alignment explanation
Indices: 823485--823514 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
823475 AAGTTTAATC
823485 ATCCAAAACATATCA
1 ATCCAAAACATATCA
823500 ATCCAAAACAT-TCA
1 ATCCAAAACATATCA
823514 A
1 A
823515 AATGTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (15 bp):
ATCCAAAACATATCA
Found at i:825428 original size:20 final size:20
Alignment explanation
Indices: 825403--825459 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
825393 TAAAACCCGA
825403 TGAGTGTATCGATACACTTT
1 TGAGTGTATCGATACACTTT
825423 TGAGTGTATCGATACACTTT
1 TGAGTGTATCGATACACTTT
825443 TGAGTGTATCGATACAC
1 TGAGTGTATCGATACAC
825460 ATTCAATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (20 bp):
TGAGTGTATCGATACACTTT
Found at i:833935 original size:87 final size:86
Alignment explanation
Indices: 833790--833953 Score: 210
Period size: 87 Copynumber: 1.9 Consensus size: 86
833780 TTTGAATCTC
* * *
833790 TTAATTTTTTTAATTTTATTATTTATTTTTATAGGTTAGATCTTTAATTTTTTTAATCTC-ATCT
1 TTAATTTTTTTAATTCTATTATTTACTTTTATAGATTAGATCTTTAATTTTTTTAATCTCAAT-T
833854 TTT-CTCTTTATAAATGATATTT
65 TTTACT-TTTATAAATGATATTT
* *
833876 TTAATTTTTTTTAATTCTATTTTTTACTTTTATA-ATTA-ATACTTTTATTATTTTTAATCTCAA
1 TTAA-TTTTTTTAATTCTATTATTTACTTTTATAGATTAGAT-CTTTAATT-TTTTTAATCTCAA
833939 TTTTTACTTTTATAA
63 TTTTTACTTTTATAA
833954 TTTAAGTAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
85 2 0.03
86 14 0.21
87 48 0.71
88 4 0.06
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.63
Consensus pattern (86 bp):
TTAATTTTTTTAATTCTATTATTTACTTTTATAGATTAGATCTTTAATTTTTTTAATCTCAATTT
TTACTTTTATAAATGATATTT
Found at i:833954 original size:43 final size:42
Alignment explanation
Indices: 833831--833955 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 42
833821 TAGGTTAGAT
* * *
833831 CTTTAATTTTTTTAATCTC-ATCTTTT-CTCTTTATAAATGATA
1 CTTTTATTTTTTTAATCTCAAT-TTTTACT-TTTATAATTAATA
* *
833873 TTTTTAATTTTTTTTAAT-TCTATTTTTTACTTTTATAATTAATA
1 CTTTT-A-TTTTTTTAATCTC-AATTTTTACTTTTATAATTAATA
833917 CTTTTATTATTTTTAATCTCAATTTTTACTTTTATAATT
1 CTTTTATT-TTTTTAATCTCAATTTTTACTTTTATAATT
833956 TAAGTAACTA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
42 5 0.07
43 30 0.43
44 31 0.45
45 3 0.04
ACGTcount: A:0.26, C:0.10, G:0.01, T:0.63
Consensus pattern (42 bp):
CTTTTATTTTTTTAATCTCAATTTTTACTTTTATAATTAATA
Found at i:834016 original size:43 final size:44
Alignment explanation
Indices: 833785--834083 Score: 162
Period size: 43 Copynumber: 6.9 Consensus size: 44
833775 ATGTTTTTGA
* * * *
833785 ATCTCTTAATTTTTTTAATTTTA-TTATTTATTTTTATAGGTT--AG
1 ATCT-TTAATTTTTTTAATCTCACTT-TTTACTTTTATA-ATTGAAG
* *
833829 ATCTTTAATTTTTTTAATCTCA-TCTTTT-CTCTTTATAAATG-AT
1 ATCTTTAATTTTTTTAATCTCACT-TTTTACT-TTTATAATTGAAG
* * *
833872 ATTTTTAATTTTTTTTAAT-TCTATTTTTTACTTTTATAATT-AAT
1 ATCTTTAA-TTTTTTTAATCTC-ACTTTTTACTTTTATAATTGAAG
* * *
833916 A-CTTTTATTATTTTTAATCTCAATTTTTACTTTTATAATTTAAG
1 ATCTTTAATT-TTTTTAATCTCACTTTTTACTTTTATAATTGAAG
* ** * *
833960 TAAC--TAACATTTTTAATCTTACTTTTTACATTTATAATTGAAG
1 -ATCTTTAATTTTTTTAATCTCACTTTTTACTTTTATAATTGAAG
** * * *
834003 ATCTTTAA-TTTTTTAATCTCGTTTTTTA-TATTTACAATGGAGG
1 ATCTTTAATTTTTTTAATCTCACTTTTTACT-TTTATAATTGAAG
* * *
834046 A-CTCTGAGTTTTTTAATCTCA-TTTATTA-TTTTATAATT
1 ATCTTTAATTTTTTTAATCTCACTTT-TTACTTTTATAATT
834084 TAGACTTTTA
Statistics
Matches: 204, Mismatches: 33, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
42 20 0.10
43 139 0.68
44 40 0.20
45 4 0.02
46 1 0.00
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.59
Consensus pattern (44 bp):
ATCTTTAATTTTTTTAATCTCACTTTTTACTTTTATAATTGAAG
Found at i:834345 original size:7 final size:7
Alignment explanation
Indices: 834333--834419 Score: 174
Period size: 7 Copynumber: 12.4 Consensus size: 7
834323 TTCAATAGTC
834333 TCTCTTT
1 TCTCTTT
834340 TCTCTTT
1 TCTCTTT
834347 TCTCTTT
1 TCTCTTT
834354 TCTCTTT
1 TCTCTTT
834361 TCTCTTT
1 TCTCTTT
834368 TCTCTTT
1 TCTCTTT
834375 TCTCTTT
1 TCTCTTT
834382 TCTCTTT
1 TCTCTTT
834389 TCTCTTT
1 TCTCTTT
834396 TCTCTTT
1 TCTCTTT
834403 TCTCTTT
1 TCTCTTT
834410 TCTCTTT
1 TCTCTTT
834417 TCT
1 TCT
834420 ATGGATATTC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 80 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (7 bp):
TCTCTTT
Found at i:838436 original size:18 final size:19
Alignment explanation
Indices: 838412--838461 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
838402 CTTGTTTGAA
838412 ACATCGAATGCA-TTTTA-T
1 ACATCG-ATGCACTTTTAGT
*
838430 GCATCGATGCACTTTTAGT
1 ACATCGATGCACTTTTAGT
838449 ACATCGATGCACT
1 ACATCGATGCACT
838462 AAGTGTTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 5 0.18
18 10 0.36
19 13 0.46
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (19 bp):
ACATCGATGCACTTTTAGT
Found at i:847021 original size:64 final size:63
Alignment explanation
Indices: 846895--847049 Score: 233
Period size: 64 Copynumber: 2.4 Consensus size: 63
846885 ACACACCATT
** **
846895 TCGAATGCATTTTATGCATCGATATACTTTCATGCATCGATGCACTCAGGTTTTATGAAAACA
1 TCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTCAGGTTTTATGAAAACA
846958 TCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTGTT-TG-AAAC
1 TCGAATGCATTTTATGCATCGATGCAC-TACCATGCATCGATGCACTCAGG-TT-TTATGAAAAC
847021 A
63 A
847022 TCGAATGCATTTTATGCATCGATGCACT
1 TCGAATGCATTTTATGCATCGATGCACT
847050 CTTAGTGCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
63 26 0.31
64 53 0.62
65 4 0.05
66 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (63 bp):
TCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTCAGGTTTTATGAAAACA
Found at i:847064 original size:64 final size:63
Alignment explanation
Indices: 846895--847068 Score: 230
Period size: 64 Copynumber: 2.7 Consensus size: 63
846885 ACACACCATT
**
846895 TCGAATGCATTTTATGCATCGATATACT-TTCATGCATCGATGCACTCAGGTTTTATGAAAACA
1 TCGAATGCATTTTATGCATCGATGCACTCTT-ATGCATCGATGCACTCAGGTTTTATGAAAACA
*
846958 TCGAATGCATTTTATGCATCGATGCACATAC-CATGCATCGATGCACTCAGGCTTGTT-TG-AAA
1 TCGAATGCATTTTATGCATCGATGCAC-T-CTTATGCATCGATGCACTCAGG-TT-TTATGAAAA
847020 CA
62 CA
*
847022 TCGAATGCATTTTATGCATCGATGCACTCTTAGTGCACCGATGCACT
1 TCGAATGCATTTTATGCATCGATGCACTCTTA-TGCATCGATGCACT
847069 AAGTGTTCCA
Statistics
Matches: 99, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
62 1 0.01
63 27 0.27
64 65 0.66
65 4 0.04
66 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (63 bp):
TCGAATGCATTTTATGCATCGATGCACTCTTATGCATCGATGCACTCAGGTTTTATGAAAACA
Found at i:849736 original size:16 final size:16
Alignment explanation
Indices: 849715--849753 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
849705 AAATTTTATT
849715 ATTCACAAAATTCACA
1 ATTCACAAAATTCACA
*
849731 ATTCACAAAATTCACT
1 ATTCACAAAATTCACA
849747 ATTCACA
1 ATTCACA
849754 TGAATAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (16 bp):
ATTCACAAAATTCACA
Found at i:867417 original size:2 final size:2
Alignment explanation
Indices: 867410--867445 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
867400 GAAATTTTAA
867410 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
867446 CTAAATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:868864 original size:2 final size:2
Alignment explanation
Indices: 868857--868888 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
868847 GCTCATGTTC
*
868857 TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
868889 ATGTATGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:872076 original size:14 final size:14
Alignment explanation
Indices: 872057--872103 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
872047 GTTTGTGAAA
*
872057 TATTTTCTATATCT
1 TATTTTCAATATCT
* *
872071 TATTTTAAATTAT-A
1 TATTTTCAA-TATCT
872085 TATTTTCAATATCT
1 TATTTTCAATATCT
872099 TATTT
1 TATTT
872104 AAAATTATAC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 3 0.12
14 20 0.77
15 3 0.12
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTTTCAATATCT
Found at i:872088 original size:28 final size:28
Alignment explanation
Indices: 872056--872112 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
872046 AGTTTGTGAA
* *
872056 ATATTTTCTATATCTTATTTTAAATTAT
1 ATATTTTCAATATCTTATTTAAAATTAT
872084 ATATTTTCAATATCTTATTTAAAATTAT
1 ATATTTTCAATATCTTATTTAAAATTAT
872112 A
1 A
872113 CATAAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (28 bp):
ATATTTTCAATATCTTATTTAAAATTAT
Found at i:873657 original size:103 final size:103
Alignment explanation
Indices: 873478--873681 Score: 273
Period size: 103 Copynumber: 2.0 Consensus size: 103
873468 AGAACATATT
* * *
873478 AGCACACACAATGCTATCATATCAGAATCATAATATGCACACAAAGTGCAATCACATCTGAAATA
1 AGCACACACAATACTATCACATCAGAATCATAATATGCACACAAAGTGCAATCACATCAGAAATA
* * *
873543 TACTAGTGTACCTACCGGTAACAACACAGTATATCATA
66 TACTAGTGTACCCACCAGTAACAACACAATATATCATA
* ** * * * *
873581 AGCACACACAATATTATCACATTGGAATCATAGTATGCGCATAAAGTGCAATCATATCAGAAATA
1 AGCACACACAATACTATCACATCAGAATCATAATATGCACACAAAGTGCAATCACATCAGAAATA
* *
873646 TACTAGTGTACCCACCAGTAGCATCACAATATATCA
66 TACTAGTGTACCCACCAGTAACAACACAATATATCA
873682 ATCACTCTAC
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
103 86 1.00
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.24
Consensus pattern (103 bp):
AGCACACACAATACTATCACATCAGAATCATAATATGCACACAAAGTGCAATCACATCAGAAATA
TACTAGTGTACCCACCAGTAACAACACAATATATCATA
Found at i:884227 original size:21 final size:21
Alignment explanation
Indices: 884203--884242 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
884193 TTTTCAAAGG
884203 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
884224 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
884243 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:884292 original size:19 final size:19
Alignment explanation
Indices: 884268--884306 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
884258 TCGAATGCAT
884268 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
884287 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
884306 T
1 T
884307 GATTTAATTA
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:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:884331 original size:64 final size:64
Alignment explanation
Indices: 884203--884415 Score: 195
Period size: 64 Copynumber: 3.3 Consensus size: 64
884193 TTTTCAAAGG
* * *
884203 CATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGC
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGC
884266 ATT
62 ATT
884269 CCATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATT
1 -CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCA-T
884333 T
64 T
* * ** * * * *
884334 GATGCATCGATGCACAATCCATGTATCAATGCAC-CAGGCTATTT--TTCAAACATCGAATGCAC
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCA-
884396 TT
63 TT
*
884398 CATGCATCGATGCACTCT
1 CATGCACCGATGCACTCT
884416 TATTGTACCG
Statistics
Matches: 125, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
63 1 0.01
64 84 0.67
65 17 0.14
66 7 0.06
67 14 0.11
68 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATT
Found at i:888373 original size:64 final size:65
Alignment explanation
Indices: 888223--888383 Score: 209
Period size: 64 Copynumber: 2.5 Consensus size: 65
888213 GAATTAATTG
* *** * *
888223 AACATCGAATGCA-TTCTATGCACCGATGCACTTTCCATGCATCGATTCACTCTGAATATTTTCA
1 AACATCGAATGCATTTC-ATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCA
888287 A
65 A
* ** *
888288 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
888352 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
888384 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 42 0.50
65 40 0.48
66 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:894202 original size:20 final size:21
Alignment explanation
Indices: 894173--894228 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
894163 TTTGTGCTTC
*
894173 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
894193 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
894215 ATGCATCGATGCAT
1 ATGCATCGATGCAT
894229 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:895799 original size:21 final size:21
Alignment explanation
Indices: 895757--895800 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
895747 ACCCCGGGAG
*
895757 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
895778 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
895799 CT
1 CT
895801 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:898138 original size:13 final size:14
Alignment explanation
Indices: 898120--898148 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
898110 ACTATACTAC
898120 AATATATA-CATAT
1 AATATATAGCATAT
898133 AATATATAGCATAT
1 AATATATAGCATAT
898147 AA
1 AA
898149 AATTTATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (14 bp):
AATATATAGCATAT
Found at i:899956 original size:48 final size:48
Alignment explanation
Indices: 899888--900368 Score: 535
Period size: 48 Copynumber: 10.3 Consensus size: 48
899878 CCGCTGTCAC
* * * * ** *
899888 AGGGAATACCAAACCTTGGAAAAAAGAGATATGTTCCGCTT-CTTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTAC-TCTGA
* *
899936 AGGGAATATCAAATCATGGA-AAAAGAGACCTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* * * *
899983 AGGGAATGTCAGATC-T---G--G-TAGACTTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
*
900024 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* * * **
900072 AGGAAATATCAGATCTTGGAGAAGATAGATTTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* *
900120 AGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCCGCTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* * * **
900168 AGGAAATATCAGATCTTGGAGAAGATAGATTTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* *
900216 AGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCCGCTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* * * * *
900264 AGGGAATATCAGATC-T---G--G-CAGACTTATTCCACTTACTCTAA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
900305 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
*
900353 AGGGAATATCAGATCT
1 AGGGAATATCAAATCT
900369 GGGGGAGTTG
Statistics
Matches: 362, Mismatches: 55, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
41 66 0.18
42 3 0.01
44 1 0.00
45 2 0.01
46 1 0.00
47 38 0.10
48 251 0.69
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (48 bp):
AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
Found at i:900135 original size:96 final size:90
Alignment explanation
Indices: 899914--900368 Score: 621
Period size: 96 Copynumber: 5.0 Consensus size: 90
899904 TGGAAAAAAG
* * * * *
899914 AGATATGTTCCGCTT-CTTCTGAAGGGAATATCAAATCATGGA-AAAAGAGACCTGTTCCACTTA
1 AGATTTGTTCCACTTAC-TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTA
*
899977 CTCTGAAGGGAATGTCAGATC-TGGT
65 CTCTGAAGGGAATATCAGATCTTGGT
*
900002 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
1 AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
*
900067 TCTGAAGGAAATATCAGATCTTGGAGAAGAT
66 TCTGAAGGGAATATCAGATCTT---G--G-T
*
900098 AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCCGCTTAC
1 AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
*
900163 TCTGAAGGAAATATCAGATCTTGGAGAAGAT
66 TCTGAAGGGAATATCAGATCTT---G--G-T
*
900194 AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCCGCTTAC
1 AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
*
900259 TCTGAAGGGAATATCAGATC-TGGC
66 TCTGAAGGGAATATCAGATCTTGGT
* * * *
900283 AGACTTATTCCACTTACTCTAAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTAC
1 AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
900348 TCTGAAGGGAATATCAGATCT
66 TCTGAAGGGAATATCAGATCT
900369 GGGGGAGTTG
Statistics
Matches: 340, Mismatches: 17, Indels: 18
0.91 0.05 0.05
Matches are distributed among these distances:
88 36 0.11
89 119 0.35
90 2 0.01
92 1 0.00
93 1 0.00
95 2 0.01
96 179 0.53
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (90 bp):
AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
TCTGAAGGGAATATCAGATCTTGGT
Found at i:901505 original size:7 final size:7
Alignment explanation
Indices: 901490--901557 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
901480 TGAACCCTCC
*
901490 TTTTATT
1 TTTTCTT
901497 TTTTCTT
1 TTTTCTT
901504 TTCTT-TT
1 TT-TTCTT
901511 TTTTCTT
1 TTTTCTT
*
901518 TCTTTCAT
1 T-TTTCTT
901526 TTTTCATT
1 TTTTC-TT
*
901534 TTTTGTCT
1 TTTTCT-T
*
901542 TTTTCAT
1 TTTTCTT
901549 TTTT-TT
1 TTTTCTT
901555 TTT
1 TTT
901558 CAAGCGAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
6 6 0.12
7 25 0.51
8 18 0.37
ACGTcount: A:0.06, C:0.12, G:0.01, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:901523 original size:17 final size:17
Alignment explanation
Indices: 901489--901558 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 17
901479 TTGAACCCTC
*
901489 CTTTTATTTTTTCTTTT
1 CTTTTTTTTTTTCTTTT
901506 CTTTTTTTTCTTTC-TTT
1 CTTTTTTTT-TTTCTTTT
901523 CATTTTTCATTTTTTGTCTTTTT
1 C--TTTT--TTTTTT-TC-TTTT
*
901546 CATTTTTTTTTTC
1 CTTTTTTTTTTTC
901559 AAGCGAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
17 12 0.28
18 6 0.14
19 10 0.23
20 2 0.05
21 9 0.21
23 4 0.09
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.79
Consensus pattern (17 bp):
CTTTTTTTTTTTCTTTT
Found at i:901536 original size:23 final size:23
Alignment explanation
Indices: 901509--901552 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
901499 TTCTTTTCTT
901509 TTTTTTCT-TTCTTTCATTTTTCA
1 TTTTTTCTCTT-TTTCATTTTTCA
*
901532 TTTTTTGTCTTTTTCATTTTT
1 TTTTTTCTCTTTTTCATTTTT
901553 TTTTTCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTTTTCTCTTTTTCATTTTTCA
Found at i:912937 original size:13 final size:14
Alignment explanation
Indices: 912919--912947 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
912909 ACTATACTAC
912919 AATATATA-CATAT
1 AATATATAGCATAT
912932 AATATATAGCATAT
1 AATATATAGCATAT
912946 AA
1 AA
912948 AATTTATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (14 bp):
AATATATAGCATAT
Found at i:917258 original size:24 final size:23
Alignment explanation
Indices: 917231--917310 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 23
917221 CACTTAACAA
917231 TGCATCGATGCATTCCTTTGAATG
1 TGCATCGATGCATTCC-TTGAATG
*
917255 TGCATCGATGCA-TCC--GCATG
1 TGCATCGATGCATTCCTTGAATG
* *
917275 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCATTCCTTGAATG
917299 TGCATCGATGCA
1 TGCATCGATGCA
917311 CAAGACCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 11 0.23
22 2 0.04
23 14 0.30
24 16 0.34
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.29
Consensus pattern (23 bp):
TGCATCGATGCATTCCTTGAATG
Found at i:919873 original size:21 final size:21
Alignment explanation
Indices: 919849--919888 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
919839 TTTTCAAAGG
919849 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
919870 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
919889 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:919938 original size:19 final size:19
Alignment explanation
Indices: 919914--919952 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
919904 TCGAACGCAT
919914 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
919933 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
919952 T
1 T
919953 GATTTAATTA
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:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:919978 original size:64 final size:64
Alignment explanation
Indices: 919849--920078 Score: 204
Period size: 64 Copynumber: 3.5 Consensus size: 64
919839 TTTTCAAAGG
* * * *
919849 CATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAACGC
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGC
919912 ATT
62 ATT
919915 CCATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATT
1 -CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCA-T
919979 T
64 T
* * ** * *
919980 GATGCATCGATGCACAATCCATGCATCGATGCAC-CAGGCTATTT--TTCAAACATCGAATGCAC
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCA-
920042 TT
63 TT
* * *
920044 CATGCATCGATGCACTCT-TAGTGCACCGATGCACT
1 CATGCACCGATGCACTCTCCA-TGCATCGATGCACT
920079 AGGAGTCCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 18
0.80 0.09 0.10
Matches are distributed among these distances:
63 2 0.01
64 97 0.70
65 17 0.12
66 7 0.05
67 14 0.10
68 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATT
Found at i:920058 original size:17 final size:19
Alignment explanation
Indices: 920030--920078 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
920020 ATTTTTCAAA
920030 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
920048 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
920067 CACCGATGCACT
1 CATCGATGCACT
920079 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:922642 original size:125 final size:125
Alignment explanation
Indices: 922490--922740 Score: 493
Period size: 125 Copynumber: 2.0 Consensus size: 125
922480 CAAGGGTTGA
922490 AGAGATAACTCAATCACTATTGTGAGGATTGAAAAGAACTAAAAATAACTTTGAGTTATTTTCTC
1 AGAGATAACTCAATCACTATTGTGAGGATTGAAAAGAACTAAAAATAACTTTGAGTTATTTTCTC
922555 AATATTTTGGAGGAATAAGATTGGTAATTGACTTATATTTTTAAAATCAAAACGCTTTTT
66 AATATTTTGGAGGAATAAGATTGGTAATTGACTTATATTTTTAAAATCAAAACGCTTTTT
*
922615 AGAGATGACTCAATCACTATTGTGAGGATTGAAAAGAACTAAAAATAACTTTGAGTTATTTTCTC
1 AGAGATAACTCAATCACTATTGTGAGGATTGAAAAGAACTAAAAATAACTTTGAGTTATTTTCTC
922680 AATATTTTGGAGGAATAAGATTGGTAATTGACTTATATTTTTAAAATCAAAACGCTTTTT
66 AATATTTTGGAGGAATAAGATTGGTAATTGACTTATATTTTTAAAATCAAAACGCTTTTT
922740 A
1 A
922741 ATCAAATAGT
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (125 bp):
AGAGATAACTCAATCACTATTGTGAGGATTGAAAAGAACTAAAAATAACTTTGAGTTATTTTCTC
AATATTTTGGAGGAATAAGATTGGTAATTGACTTATATTTTTAAAATCAAAACGCTTTTT
Found at i:924524 original size:23 final size:22
Alignment explanation
Indices: 924486--924529 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
924476 GATTTTTGGT
*
924486 TTTTGTTATTTGTTTTACTTTC
1 TTTTGTTATTTCTTTTACTTTC
*
924508 TTTTGTTATTTTCTTTTTCTTT
1 TTTTGTTA-TTTCTTTTACTTT
924530 TCCTTTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.07, C:0.09, G:0.07, T:0.77
Consensus pattern (22 bp):
TTTTGTTATTTCTTTTACTTTC
Found at i:925765 original size:117 final size:120
Alignment explanation
Indices: 925560--925862 Score: 508
Period size: 120 Copynumber: 2.6 Consensus size: 120
925550 TTACCACATA
* *
925560 AAATAAAACAAAATTTAAGGGGAAATATATT-AAAAATTGGGTGGCT-AAATCAATTGAAATGAG
1 AAATAAAACAAAATTTAAGGGAAAATATATTAAAAAATTGGGTGGCTAAAATCGATTGAAATGAG
* *
925623 ATACGGCAGAATGAAGTCCACACTCAACATAACGATGCATTA-A-ATATATATAT
66 ATACGGCAGAATGAAGTCAACACTCAACACAACGATGCATTATATATATATATAT
*
925676 -AATAAAACAAAATTTAAGGGAAAATATATTAAAAAATTGGGTGGCTAAAATTGATTGAAATGAG
1 AAATAAAACAAAATTTAAGGGAAAATATATTAAAAAATTGGGTGGCTAAAATCGATTGAAATGAG
*
925740 ATACGGCAGAATGAAGTCAACACTCAGCACAACGATGCATTATATATATATATAT
66 ATACGGCAGAATGAAGTCAACACTCAACACAACGATGCATTATATATATATATAT
*
925795 AAATAAAACAAAATTTAAGGGAAAATATATTAAAAAATTGGGTGGCTAAAATCGATTCAAATGAG
1 AAATAAAACAAAATTTAAGGGAAAATATATTAAAAAATTGGGTGGCTAAAATCGATTGAAATGAG
925860 ATA
66 ATA
925863 AGTCCACACT
Statistics
Matches: 174, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
115 29 0.17
116 15 0.09
117 54 0.31
118 1 0.01
119 10 0.06
120 65 0.37
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.25
Consensus pattern (120 bp):
AAATAAAACAAAATTTAAGGGAAAATATATTAAAAAATTGGGTGGCTAAAATCGATTGAAATGAG
ATACGGCAGAATGAAGTCAACACTCAACACAACGATGCATTATATATATATATAT
Found at i:930517 original size:20 final size:20
Alignment explanation
Indices: 930488--930538 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
930478 CCCAGTTTTC
930488 AAATTCGCAACGCAAATCTGT
1 AAATT-GCAACGCAAATCTGT
** *
930509 AAATTGCAACGTGAATTTGT
1 AAATTGCAACGCAAATCTGT
*
930529 AAATCGCAAC
1 AAATTGCAAC
930539 ACAGAAGTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (20 bp):
AAATTGCAACGCAAATCTGT
Found at i:930555 original size:20 final size:19
Alignment explanation
Indices: 930532--930858 Score: 248
Period size: 20 Copynumber: 16.3 Consensus size: 19
930522 AATTTGTAAA
930532 TCGCAACACAGAAGTCAAAT
1 TCGCAACAC-GAAGTCAAAT
*
930552 TCGCAACATAGAAGTCAAAT
1 TCGCAACA-CGAAGTCAAAT
*
930572 TCGCAACTCGATAGTCAAAT
1 TCGCAACACGA-AGTCAAAT
* *
930592 TTGCAACGCGATAGTCAAAT
1 TCGCAACACGA-AGTCAAAT
*
930612 TCGCAACGCGATAGTCAAAT
1 TCGCAACACGA-AGTCAAAT
930632 TCGCAACACTGAAGTCAAAT
1 TCGCAACAC-GAAGTCAAAT
* *
930652 TCGCAACACAAAAGTAAAAT
1 TCGCAACAC-GAAGTCAAAT
* *
930672 TCGCAACGCGATATTCAAAT
1 TCGCAACACGA-AGTCAAAT
**
930692 TCGCAATGCGAA-TCTGTAAA-
1 TCGCAACACGAAGTC---AAAT
*
930712 TCGCAACGCGAATTTGT-AAA-
1 TCGCAACACGAA---GTCAAAT
**
930732 TCGTTACACTGAAGTCAAAT
1 TCGCAACAC-GAAGTCAAAT
* *
930752 TCACAACACATAAGTCAAAT
1 TCGCAACAC-GAAGTCAAAT
*
930772 TCGCAACGCGATAGTCAAAT
1 TCGCAACACGA-AGTCAAAT
* *
930792 TCGCAACATTGAATTTCAAAT
1 TCGCAACA-CGAA-GTCAAAT
*
930813 TCGCAACACAAAAGTCAAAT
1 TCGCAACAC-GAAGTCAAAT
*
930833 TCGCAACGCGATAGTCAAAT
1 TCGCAACACGA-AGTCAAAT
930853 TCGCAA
1 TCGCAA
930859 AGCGTGTTTA
Statistics
Matches: 253, Mismatches: 35, Indels: 38
0.78 0.11 0.12
Matches are distributed among these distances:
18 4 0.02
19 9 0.04
20 213 0.84
21 26 0.10
24 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (19 bp):
TCGCAACACGAAGTCAAAT
Found at i:930578 original size:60 final size:61
Alignment explanation
Indices: 930486--930718 Score: 193
Period size: 60 Copynumber: 3.9 Consensus size: 61
930476 AACCCAGTTT
* *
930486 TCAAATTCGCAACGCAAATCTGT-AAATT-GCAACGTGAATTTGT-AAA-TCGCAACACAGAAG
1 TCAAATTCGCAACGC-GAT-AGTCAAATTCGCAACGTGAA-TTGTCAAATTCGCAACACAGAAG
** * * *
930546 TCAAATTCGCAACATAGA-AGTCAAATTCGCAAC-TCG-ATAGTCAAATTTGCAACGC-GATAG
1 TCAAATTCGCAAC-GCGATAGTCAAATTCGCAACGT-GAATTGTCAAATTCGCAACACAGA-AG
* *
930606 TCAAATTCGCAACGCGATAGTCAAATTCGCAACACTGAA--GTCAAATTCGCAACACAAAAG
1 TCAAATTCGCAACGCGATAGTCAAATTCGCAAC-GTGAATTGTCAAATTCGCAACACAGAAG
* * * *
930666 TAAAATTCGCAACGCGATATTCAAATTCGCAATGCGAATCTGT-AAA-TCGCAAC
1 TCAAATTCGCAACGCGATAGTCAAATTCGCAACGTGAAT-TGTCAAATTCGCAAC
930719 GCGAATTTGT
Statistics
Matches: 141, Mismatches: 17, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
58 5 0.04
59 17 0.12
60 110 0.78
61 5 0.04
62 4 0.03
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.22
Consensus pattern (61 bp):
TCAAATTCGCAACGCGATAGTCAAATTCGCAACGTGAATTGTCAAATTCGCAACACAGAAG
Found at i:930600 original size:100 final size:99
Alignment explanation
Indices: 930486--930798 Score: 398
Period size: 100 Copynumber: 3.1 Consensus size: 99
930476 AACCCAGTTT
* *
930486 TCAAATTCGCAACGCAAATCTGTAAATTGCAACGTGAATTTGTAAATCGCAACACAGAAGTCAAA
1 TCAAATTCGCAACGC-AATCTGTAAATTGCAACGCGAATTTGTAAATCGCAACACTGAAGTCAAA
* * *
930551 TTCGCAACATAGAAGTCAAATTCGCAACTCGATAG
65 TTCGCAACACAAAAGTCAAATTCGCAACGCGATAG
* * * *
930586 TCAAATTTGCAACGCGAT-AGTCAAATTCGCAACGCG-A-TAGTCAAATTCGCAACACTGAAGTC
1 TCAAATTCGCAACGCAATCTGT-AAATT-GCAACGCGAATTTGT-AAA-TCGCAACACTGAAGTC
* *
930648 AAATTCGCAACACAAAAGTAAAATTCGCAACGCGATAT
62 AAATTCGCAACACAAAAGTCAAATTCGCAACGCGATAG
* * **
930686 TCAAATTCGCAATGCGAATCTGTAAATCGCAACGCGAATTTGTAAATCGTTACACTGAAGTCAAA
1 TCAAATTCGCAACGC-AATCTGTAAATTGCAACGCGAATTTGTAAATCGCAACACTGAAGTCAAA
* *
930751 TTCACAACACATAAGTCAAATTCGCAACGCGATAG
65 TTCGCAACACAAAAGTCAAATTCGCAACGCGATAG
930786 TCAAATTCGCAAC
1 TCAAATTCGCAAC
930799 ATTGAATTTC
Statistics
Matches: 181, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
98 5 0.03
99 11 0.06
100 150 0.83
101 10 0.06
102 5 0.03
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (99 bp):
TCAAATTCGCAACGCAATCTGTAAATTGCAACGCGAATTTGTAAATCGCAACACTGAAGTCAAAT
TCGCAACACAAAAGTCAAATTCGCAACGCGATAG
Found at i:931046 original size:22 final size:22
Alignment explanation
Indices: 931018--931068 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
931008 CTACGGCGAC
931018 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* *
931040 ATTCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
931062 ATCCGTC
1 ATCCGTC
931069 TATCTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:931438 original size:20 final size:21
Alignment explanation
Indices: 931409--931447 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
931399 TTTGAAACTT
*
931409 AAATTCGCAACACGAAAATGA
1 AAATTCGCAACACCAAAATGA
931430 AAATT-GCAACACCAAAAT
1 AAATTCGCAACACCAAAAT
931448 CGCAACGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.54, C:0.21, G:0.10, T:0.15
Consensus pattern (21 bp):
AAATTCGCAACACCAAAATGA
Found at i:931501 original size:14 final size:14
Alignment explanation
Indices: 931502--931535 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
931492 TGCGATTTTC
*
931502 ATTTTCGCGTTGCG
1 ATTTTCGCGTTCCG
*
931516 ATTTTCTCGTTCCG
1 ATTTTCGCGTTCCG
931530 ATTTTC
1 ATTTTC
931536 ATTTTCGCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.09, C:0.24, G:0.18, T:0.50
Consensus pattern (14 bp):
ATTTTCGCGTTCCG
Found at i:931509 original size:20 final size:20
Alignment explanation
Indices: 931474--931547 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
931464 AAATCACAAC
*
931474 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
931493 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
931513 GCGATTTTC----T--CGTT
1 GCGATTTTCATTTTCGCGTT
*
931527 CCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
931547 G
1 G
931548 TGAATTTAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
14 12 0.27
16 1 0.02
18 1 0.02
19 8 0.18
20 23 0.51
ACGTcount: A:0.09, C:0.20, G:0.22, T:0.49
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:933420 original size:21 final size:21
Alignment explanation
Indices: 933374--933423 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
933364 CAATGGTGCG
* *
933374 CTACGTGATGAGGTATCTACT
1 CTACGTGATGAGGTAGCCACT
* *
933395 TTACGTGATGAGGTAGCCGCT
1 CTACGTGATGAGGTAGCCACT
933416 CTACGTGA
1 CTACGTGA
933424 GATTGTTTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (21 bp):
CTACGTGATGAGGTAGCCACT
Found at i:933767 original size:21 final size:21
Alignment explanation
Indices: 933743--933799 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
933733 TCAAAAGTTT
933743 CCTCTCATCATTCAAGAGGCC
1 CCTCTCATCATTCAAGAGGCC
* *
933764 CCTCCCACCATTCAAGAGGCC
1 CCTCTCATCATTCAAGAGGCC
* *
933785 CCTGTCATCGTTCAA
1 CCTCTCATCATTCAA
933800 TGGGTCCCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.40, G:0.14, T:0.23
Consensus pattern (21 bp):
CCTCTCATCATTCAAGAGGCC
Found at i:935237 original size:28 final size:28
Alignment explanation
Indices: 935192--935245 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
935182 GCTTGTTTAA
*
935192 TTGATTTGTAAAAGTTGATTTGTAAAAG
1 TTGATTTGTAAAAGTTGATGTGTAAAAG
** *
935220 TTGATTTGTTTAATTTGATGTGTAAA
1 TTGATTTGTAAAAGTTGATGTGTAAA
935246 TAAGAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.48
Consensus pattern (28 bp):
TTGATTTGTAAAAGTTGATGTGTAAAAG
Found at i:935238 original size:14 final size:14
Alignment explanation
Indices: 935192--935228 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
935182 GCTTGTTTAA
935192 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
935206 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
935220 TTGATTTGT
1 TTGATTTGT
935229 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:935279 original size:80 final size:78
Alignment explanation
Indices: 935138--935294 Score: 278
Period size: 80 Copynumber: 2.0 Consensus size: 78
935128 TTTTACATTG
935138 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTGATTTGTAA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTGATTTGTAA
935203 AAGTTGATTTGTA
66 AAGTTGATTTGTA
* *
935216 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA-TTTTTTGCTTGTTTAATTGATTTGT
935281 AAAAGTTGATTTGT
64 AAAAGTTGATTTGT
935295 TGTTTTAAAT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
78 17 0.23
79 19 0.25
80 39 0.52
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.50
Consensus pattern (78 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTGATTTGTAA
AAGTTGATTTGTA
Found at i:935449 original size:54 final size:54
Alignment explanation
Indices: 935349--935465 Score: 135
Period size: 54 Copynumber: 2.2 Consensus size: 54
935339 GTTGAAGGTA
* * ** ** * * *
935349 CAAATTCGCAACGCGAAAGTCAAATTCGCATTGCGATTTTATCGTTGCGATTGT
1 CAAATTCACAACACGAAAGTCAAATTCGCAACGCGAAATAAGCGTTGCGATAGT
* *
935403 CAAATTCACAACACGAAAGTCAAATTCGCAACGTGAAATAAGCGTTGTGATAGT
1 CAAATTCACAACACGAAAGTCAAATTCGCAACGCGAAATAAGCGTTGCGATAGT
935457 CAAATTCAC
1 CAAATTCAC
935466 GTTGCGATTT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (54 bp):
CAAATTCACAACACGAAAGTCAAATTCGCAACGCGAAATAAGCGTTGCGATAGT
Found at i:935749 original size:18 final size:18
Alignment explanation
Indices: 935726--935761 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
935716 AAGCCGGTTG
935726 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
935744 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
935762 CCTTTTGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:936741 original size:496 final size:496
Alignment explanation
Indices: 935808--936800 Score: 1790
Period size: 496 Copynumber: 2.0 Consensus size: 496
935798 TGAGGATCCA
935808 TATTTTGGTAGAGGAAAAGATGATTGTGATGGCACTGGTGATCCACAGGTCAACCTTGTATGACC
1 TATTTTGGTAGAGGAAAAGATGATTGTGATGGCACTGGTGATCCACAGGTCAACCTTGTATGACC
* *
935873 ACTTTCCTTGCACCGACTACATGTCGATATCCTCTTCTCTTCACCCTTAGACGGTATATGATCGT
66 ACTTTCCTTGCACCGACTACATGTCGATATCCTCTTATCTTCACCCTTAGACGGTATACGATCGT
* *
935938 GATTTTTTGGTCGGCCAGGTAGCCTGCTGTCAATGACTGGTGGCAAAACTGTTTGTAAGTCATCT
131 GATTTTTTGGCCGGACAGGTAGCCTGCTGTCAATGACTGGTGGCAAAACTGTTTGTAAGTCATCT
* *
936003 GGTATGTCCTACTCAGAATGATGTGGAATAGGCTAGACAATCTCAGCATAAGTCTGTCGATATAC
196 GGTATGTCCTACTCAGAAGGATGTGGAATAGGCTAGACAATCTCAGCATAAGTCTATCGATATAC
*
936068 TTCTGTAGTGTAGCAATCCATAGCGTATGCGCTTGAATCATCTTGGTTTAGATGAAGAGCAACTT
261 TTCTGTAGTGTAGCAATCCATAGCGTATGCACTTGAATCATCTTGGTTTAGATGAAGAGCAACTT
*
936133 TTATAACATGACCACACGGATAACCAGATGTTTGTCATTTCTTAAAACTACACGTCTTTGCATTC
326 TTATAACATGACCACACGGATAACCAGATGTTTGCCATTTCTTAAAACTACACGTCTTTGCATTC
* *
936198 AGATCGACAAGCCCATTTAAGTTATTATCTAATACTTCAAACAAAGTGTTTGAACATGGTTCAAC
391 AGATCGACAAGCCCATTTAAGTTATTATCCAATACTTCAAACAAAGTGTTTGAACATGGTTAAAC
936263 TCTCCATGACGTTGACTTCACAACACGTTTCGTTATCTTTT
456 TCTCCATGACGTTGACTTCACAACACGTTTCGTTATCTTTT
936304 TATTTTGGTAGAGGAAAAGATGATTGTGATGGCACTGGTGATCCACAGGTCAACCTTGTATGACC
1 TATTTTGGTAGAGGAAAAGATGATTGTGATGGCACTGGTGATCCACAGGTCAACCTTGTATGACC
936369 ACTTTCCTTGCACCGACTACATGTCGATATCCTCTTATCTTCACCCTTAGACGGTATACGATCGT
66 ACTTTCCTTGCACCGACTACATGTCGATATCCTCTTATCTTCACCCTTAGACGGTATACGATCGT
* ** *
936434 GATTTTTTTGCCGGACAGGTTTCCTGCTGTCTATGACTGGTGGCAAAACTGTTTGTAAGTCATCT
131 GATTTTTTGGCCGGACAGGTAGCCTGCTGTCAATGACTGGTGGCAAAACTGTTTGTAAGTCATCT
* *
936499 GGTATGTCAC-ACTCAGAAGGATGTGGAATAGGGTAGACAATCTCGGCATAAGTCTATCGATATA
196 GGTATGTC-CTACTCAGAAGGATGTGGAATAGGCTAGACAATCTCAGCATAAGTCTATCGATATA
936563 CTTCTGTAGTGTAGCAATCCATAGCGTATGCACTTGAATCATCTTGGTTTAGATGAAGAGCAACT
260 CTTCTGTAGTGTAGCAATCCATAGCGTATGCACTTGAATCATCTTGGTTTAGATGAAGAGCAACT
* *
936628 TTTATAACATGGCCACACGGATAACCAGATGTTTGCCATTTCTTAAAACTACACGTCTTTGCTTT
325 TTTATAACATGACCACACGGATAACCAGATGTTTGCCATTTCTTAAAACTACACGTCTTTGCATT
* *
936693 TAGATCGACAATCCCATTTAAGTTATTATCCAATACTTCAAACAAAGTGTTTGAACATGGTTAAA
390 CAGATCGACAAGCCCATTTAAGTTATTATCCAATACTTCAAACAAAGTGTTTGAACATGGTTAAA
936758 CTCTCCATGACGTTGACTTCACAACACGTTTCGTTATCTTTT
455 CTCTCCATGACGTTGACTTCACAACACGTTTCGTTATCTTTT
936800 T
1 T
936801 TTCAGTCCAT
Statistics
Matches: 476, Mismatches: 20, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
496 475 1.00
497 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (496 bp):
TATTTTGGTAGAGGAAAAGATGATTGTGATGGCACTGGTGATCCACAGGTCAACCTTGTATGACC
ACTTTCCTTGCACCGACTACATGTCGATATCCTCTTATCTTCACCCTTAGACGGTATACGATCGT
GATTTTTTGGCCGGACAGGTAGCCTGCTGTCAATGACTGGTGGCAAAACTGTTTGTAAGTCATCT
GGTATGTCCTACTCAGAAGGATGTGGAATAGGCTAGACAATCTCAGCATAAGTCTATCGATATAC
TTCTGTAGTGTAGCAATCCATAGCGTATGCACTTGAATCATCTTGGTTTAGATGAAGAGCAACTT
TTATAACATGACCACACGGATAACCAGATGTTTGCCATTTCTTAAAACTACACGTCTTTGCATTC
AGATCGACAAGCCCATTTAAGTTATTATCCAATACTTCAAACAAAGTGTTTGAACATGGTTAAAC
TCTCCATGACGTTGACTTCACAACACGTTTCGTTATCTTTT
Found at i:938551 original size:24 final size:24
Alignment explanation
Indices: 938517--938584 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
938507 CTAAAACATC
938517 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
938541 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
938565 ATCAAATTTCGAATATTGAC
1 ATCAAAATCCGAGTATTGAC
938585 TAGTACTCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:939559 original size:20 final size:19
Alignment explanation
Indices: 939515--939625 Score: 118
Period size: 19 Copynumber: 5.7 Consensus size: 19
939505 ACTAAAACCT
* *
939515 GTTGCGAAATT-AAATTCG
1 GTTGCGAATTTGAAAATCG
*
939533 TGTTGCGAATTCGAAAATCG
1 -GTTGCGAATTTGAAAATCG
*
939553 AGTTGCGAATTTGAAATTCG
1 -GTTGCGAATTTGAAAATCG
939573 GTTGCGAATTT-AAAATTCG
1 GTTGCGAATTTGAAAA-TCG
*
939592 GTTGCGAATTTGAAATTCAG
1 GTTGCGAATTTGAAAATC-G
939612 TGTTGCGAATTTGA
1 -GTTGCGAATTTGA
939626 CTATCGCGTT
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.04
19 36 0.46
20 27 0.34
21 13 0.16
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (19 bp):
GTTGCGAATTTGAAAATCG
Found at i:939577 original size:39 final size:39
Alignment explanation
Indices: 939515--939622 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 39
939505 ACTAAAACCT
*
939515 GTTGCGAAATT-AAATTCGTGTTGCGAATTCGAAAA-TCG
1 GTTGCGAATTTGAAATTCGTGTTGCGAATT-GAAAATTCG
*
939553 AGTTGCGAATTTGAAATTCG-GTTGCGAATTTAAAATTCG
1 -GTTGCGAATTTGAAATTCGTGTTGCGAATTGAAAATTCG
939592 GTTGCGAATTTGAAATTCAGTGTTGCGAATT
1 GTTGCGAATTTGAAATTC-GTGTTGCGAATT
939623 TGACTATCGC
Statistics
Matches: 63, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
38 22 0.35
39 24 0.38
40 17 0.27
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (39 bp):
GTTGCGAATTTGAAATTCGTGTTGCGAATTGAAAATTCG
Found at i:939643 original size:59 final size:59
Alignment explanation
Indices: 939515--939625 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 59
939505 ACTAAAACCT
*
939515 GTTGCGAAATT-AAATTCGTGTTGCGAATTCGAAAATCGAGTTGCGAATTTGAAATTCG
1 GTTGCGAATTTAAAATTCGTGTTGCGAATTCGAAAATCGAGTTGCGAATTTGAAATTCG
* * *
939573 GTTGCGAATTTAAAATTCG-GTTGCGAATTTGAAATTCAGTGTTGCGAATTTGA
1 GTTGCGAATTTAAAATTCGTGTTGCGAATTCGAAAATC-GAGTTGCGAATTTGA
939626 CTATCGCGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
58 26 0.55
59 21 0.45
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (59 bp):
GTTGCGAATTTAAAATTCGTGTTGCGAATTCGAAAATCGAGTTGCGAATTTGAAATTCG
Found at i:939652 original size:20 final size:20
Alignment explanation
Indices: 939629--939683 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
939619 AATTTGACTA
939629 TCGCGTTGCAATTTACAGAT
1 TCGCGTTGCAATTTACAGAT
* ** *
939649 TCGCATTGTGATTTATAGAT
1 TCGCGTTGCAATTTACAGAT
939669 TCGCGTTGCGAATTT
1 TCGCGTTGC-AATTT
939684 GACTTTTGTG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCAATTTACAGAT
Found at i:939698 original size:20 final size:20
Alignment explanation
Indices: 939673--939773 Score: 150
Period size: 20 Copynumber: 5.0 Consensus size: 20
939663 ATAGATTCGC
*
939673 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTCTGT
* *
939693 GTTGCGAATTTGACTCCAGT
1 GTTGCGAATTTGACTTCTGT
*
939713 GTTGCGAATTTGACTATC-GC
1 GTTGCGAATTTGACT-TCTGT
939733 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTCTGT
939753 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTCTGT
939773 G
1 G
939774 CTACGATTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 2 0.03
20 70 0.96
21 1 0.01
ACGTcount: A:0.17, C:0.16, G:0.26, T:0.42
Consensus pattern (20 bp):
GTTGCGAATTTGACTTCTGT
Found at i:939793 original size:60 final size:60
Alignment explanation
Indices: 939658--939796 Score: 174
Period size: 60 Copynumber: 2.3 Consensus size: 60
939648 TTCGCATTGT
* * * * *
939658 GATTTATAGATTCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTCCAGTGTTGC
1 GATTTACAAATTCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTCCAGTGCTAC
* * *
939718 GAATTTGAC-TA-TCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGCTAC
1 G-ATTT-ACAAATTCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTCCAGTGCTAC
939778 GATTTACAAATTCGCGTTG
1 GATTTACAAATTCGCGTTG
939797 TGATTTACAG
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
58 2 0.03
59 5 0.07
60 54 0.81
61 5 0.07
62 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (60 bp):
GATTTACAAATTCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTCCAGTGCTAC
Found at i:939803 original size:20 final size:20
Alignment explanation
Indices: 939778--939816 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
939768 TCTGTGCTAC
939778 GATTTACAAATTCGCGTTGT
1 GATTTACAAATTCGCGTTGT
*
939798 GATTTACAGATTCGCGTTG
1 GATTTACAAATTCGCGTTG
939817 CGAATTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (20 bp):
GATTTACAAATTCGCGTTGT
Found at i:939856 original size:20 final size:20
Alignment explanation
Indices: 939807--939860 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
939797 TGATTTACAG
*
939807 ATTCGCGTTGCGAATTTGGA
1 ATTCGCGTTGCGAAATTGGA
* *
939827 A-ACTGGGTTGCGAAATTGGA
1 ATTC-GCGTTGCGAAATTGGA
939847 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
939861 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.30
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:940612 original size:14 final size:14
Alignment explanation
Indices: 940591--940624 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
940581 AACTGAACCG
940591 AACCGAACCGAAAA
1 AACCGAACCGAAAA
*
940605 ATCCGAACCGAAAA
1 AACCGAACCGAAAA
940619 AACCGA
1 AACCGA
940625 TTTCGGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.29, G:0.15, T:0.03
Consensus pattern (14 bp):
AACCGAACCGAAAA
Found at i:941630 original size:30 final size:29
Alignment explanation
Indices: 941580--941651 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
941570 GTAAAAGAGT
**
941580 TTAATTAAGTTTTTAAAAAAAT-AAAGAA
1 TTAATTATTTTTTTAAAAAAATCAAAGAA
* *
941608 TTAAATTAATTTTTTTAGAAAAATCAAAGAC
1 TT-AATT-ATTTTTTTAAAAAAATCAAAGAA
941639 TTAATTATTTTTT
1 TTAATTATTTTTT
941652 AGTAAAGTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 2 0.05
29 11 0.30
30 17 0.46
31 7 0.19
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (29 bp):
TTAATTATTTTTTTAAAAAAATCAAAGAA
Found at i:945083 original size:24 final size:24
Alignment explanation
Indices: 945042--945087 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
945032 ATTAAATACT
*
945042 TTTAAGTATTTTTCATTTTTTATA
1 TTTAAGTATTTTTAATTTTTTATA
945066 TTTAA-TATTTTATAATTTTTTA
1 TTTAAGTATTTT-TAATTTTTTA
945088 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTAAGTATTTTTAATTTTTTATA
Found at i:946015 original size:19 final size:19
Alignment explanation
Indices: 945954--946015 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 19
945944 ATTAATATAA
* * *
945954 TTATATAAATATTATTTTT
1 TTATATAATTATAATTTAT
* * *
945973 TTATAAAAATAATATTTATAT
1 TTAT-ATAATTATAATT-TAT
945994 TTATATAATTATAATTTAT
1 TTATATAATTATAATTTAT
946013 TTA
1 TTA
946016 GAATTATTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 10 0.31
20 16 0.50
21 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATATAATTATAATTTAT
Found at i:947773 original size:21 final size:21
Alignment explanation
Indices: 947743--947790 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
947733 GCAGGGGTAC
* *
947743 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
*
947764 ATGCCAAGCCCACCAGTTCAT
1 ATGCCAAGCCCACCACTTCAT
947785 ATGCCA
1 ATGCCA
947791 TCTCCGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.21
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:947820 original size:21 final size:21
Alignment explanation
Indices: 947794--947908 Score: 171
Period size: 21 Copynumber: 5.5 Consensus size: 21
947784 TATGCCATCT
*
947794 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
947815 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
947836 CCGCCA-GGTTACATTCCGAGC
1 CCG-CAGGGTTACATTCCTAGC
947857 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
947878 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
947899 CCGCAGGGTT
1 CCGCAGGGTT
947909 TTATACCATA
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.05
21 78 0.91
22 4 0.05
ACGTcount: A:0.18, C:0.35, G:0.26, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:947847 original size:42 final size:42
Alignment explanation
Indices: 947800--947908 Score: 200
Period size: 42 Copynumber: 2.6 Consensus size: 42
947790 ATCTCCGCAG
947800 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
1 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
947842 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
1 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
* *
947884 GGTTACATGCCTAGCCCGCAGGGTT
1 GGTTACATTCCGAGCCCGCAGGGTT
947909 TTATACCATA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.18, C:0.34, G:0.26, T:0.22
Consensus pattern (42 bp):
GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
Found at i:948522 original size:34 final size:34
Alignment explanation
Indices: 948417--948523 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
948407 ATAAATGTTT
*
948417 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* *
948451 TAAAAATAAAAATAATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* * * *
948485 TTAAAATATAAATTATAGTATTTGAAATTTAACA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
948519 TTAAA
1 TTAAA
948524 TTTCAACTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 64 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (34 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAAA
Done.