Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008570.1 Hibiscus syriacus cultivar Beakdansim tig00111495_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: 912507
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 2 of 5
Found at i:178576 original size:60 final size:58
Alignment explanation
Indices: 178471--178603 Score: 144
Period size: 59 Copynumber: 2.3 Consensus size: 58
178461 TAATTAAGGG
* * * *
178471 TAAAG-TACATAAATGGTCCCTAACTATAGGATGTTGCTTTATTGAGTCTCTAGA-TAATT
1 TAAAGTTACA-AAATGATCCCTAACTATAGCATGTTACTTTATTGAGTC-CCAGACT-ATT
* * *
178530 TAAAGTTACAAAATGATCCTCTAACTATAGCATGTTATTTTGTTGAGTCCCCGACTATT
1 TAAAGTTACAAAATGATCC-CTAACTATAGCATGTTACTTTATTGAGTCCCAGACTATT
*
178589 AAAAGTTACAAAATG
1 TAAAGTTACAAAATG
178604 GTCTCTTAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 33 0.52
60 30 0.48
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (58 bp):
TAAAGTTACAAAATGATCCCTAACTATAGCATGTTACTTTATTGAGTCCCAGACTATT
Found at i:190165 original size:57 final size:56
Alignment explanation
Indices: 190020--190216 Score: 164
Period size: 57 Copynumber: 3.5 Consensus size: 56
190010 TGTCAGGTTT
** * * * *
190020 CAAGATTGACACACGGAGGTGCTCAAT-CGTTCTTGAACGCACAGAGGTGCCAGCC
1 CAAGATTGATGCACAGAGGTGCTCAATCCTTTCTTGAAGGCACAGAGGTGACAGCC
* * **
190075 CAAGATTGATGTACAGAGGTACTCAATCCTTTCTTGAAGGCACAGAGGTGACAGTTT
1 CAAGATTGATGCACAGAGGTGCTCAATCCTTTCTTGAAGGCACAGAGGTGACAG-CC
* * * * * * * *
190132 TAGGTTTGATGCACATAGGTGCTCAATCCTTTCTTAAAGGAACATAGGTG-CTAGTTC
1 CAAGATTGATGCACAGAGGTGCTCAATCCTTTCTTGAAGGCACAGAGGTGAC-AG-CC
* * *
190189 CTAGATTGTTGCACAGAGGTACTCAATC
1 CAAGATTGATGCACAGAGGTGCTCAATC
190217 ATTGATTAAA
Statistics
Matches: 112, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
55 22 0.20
56 24 0.21
57 66 0.59
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (56 bp):
CAAGATTGATGCACAGAGGTGCTCAATCCTTTCTTGAAGGCACAGAGGTGACAGCC
Found at i:193605 original size:33 final size:34
Alignment explanation
Indices: 193546--193611 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
193536 ACCATGTGCA
* *
193546 AAGTTGGCCACCTACCTAAGATGAATTTTCCAAT
1 AAGTTGACCACCAACCTAAGATGAATTTTCCAAT
193580 AAGTTGACCACCAACC-AAGATGAATTTTCCAA
1 AAGTTGACCACCAACCTAAGATGAATTTTCCAA
193612 CTTGCCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 16 0.53
34 14 0.47
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (34 bp):
AAGTTGACCACCAACCTAAGATGAATTTTCCAAT
Found at i:197573 original size:33 final size:33
Alignment explanation
Indices: 197505--197600 Score: 156
Period size: 33 Copynumber: 2.9 Consensus size: 33
197495 CCCATGTGCA
* *
197505 AAGTTGGCCACCTACCAAAGATGAATTTTCTAAT
1 AAGTTGGCCACCAACC-AAGATGAATTTTCCAAT
*
197539 AAGTTGGCCACCAACCAAGATGAAATTTCCAAT
1 AAGTTGGCCACCAACCAAGATGAATTTTCCAAT
197572 AAGTTGGCCACCAACCAAGATGAATTTTC
1 AAGTTGGCCACCAACCAAGATGAATTTTC
197601 GAACTTGCCA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 43 0.74
34 15 0.26
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (33 bp):
AAGTTGGCCACCAACCAAGATGAATTTTCCAAT
Found at i:199231 original size:21 final size:22
Alignment explanation
Indices: 199188--199240 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
199178 ACGTATAATT
199188 ATAAATTAATTAAAAATTAAAAG
1 ATAAATT-ATTAAAAATTAAAAG
*
199211 ATAAATTATTTAAAA-TAAAAG
1 ATAAATTATTAAAAATTAAAAG
*
199232 GTAAATTAT
1 ATAAATTAT
199241 ACCAGTGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 14 0.50
22 7 0.25
23 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (22 bp):
ATAAATTATTAAAAATTAAAAG
Found at i:200807 original size:11 final size:11
Alignment explanation
Indices: 200791--200823 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
200781 ATAATTTACC
200791 TTTAAAAATTA
1 TTTAAAAATTA
200802 TTTAAAAATTA
1 TTTAAAAATTA
200813 -TTAAAAATTA
1 TTTAAAAATTA
200823 T
1 T
200824 GGGAAATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAAAATTA
Found at i:200816 original size:10 final size:10
Alignment explanation
Indices: 200792--200823 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
200782 TAATTTACCT
200792 TTAAAAATTA
1 TTAAAAATTA
200802 TTTAAAAATTA
1 -TTAAAAATTA
200813 TTAAAAATTA
1 TTAAAAATTA
200823 T
1 T
200824 GGGAAATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:208271 original size:598 final size:598
Alignment explanation
Indices: 206573--208366 Score: 3407
Period size: 598 Copynumber: 3.0 Consensus size: 598
206563 AATATGGTGA
*
206573 AAATAGTAGTTTCAAACCAACCGTAAAAACTATGATTTCTAGCTTTTTCATTTTCAACTTTACGT
1 AAATAGTAGTTTCAAACCAACCGCAAAAACTATGATTTCTAGCTTTTTCATTTTCAACTTTACGT
*
206638 TTTGGAAGCAAATATAATTTTACCTTTACTAATGTATGTGTTTCACTCAATTATGTATTTATATT
66 TTTGGAAGCAAATATAATTTTACCTTTACTAATGCATGTGTTTCACTCAATTATGTATTTATATT
206703 TTATTTTAATAATTTAATACTAACATCCTTAAAAATTTATTACTTTTAATAATTTATTTTAATTA
131 TTATTTTAATAATTTAATACTAACATCCTTAAAAATTTATTACTTTTAATAATTTATTTTAATTA
206768 TTTAAAAGTAAATAAAATTTATGATTTATATATTAAAATATTAGTAGTGAGTTATATAAAATATG
196 TTTAAAAGTAAATAAAATTTATGATTTATATATTAAAATATTAGTAGTGAGTTATATAAAATATG
206833 TTTTTATTATAATTATATTTTGGGGTAAAATGCAGAGTTGGTCACTTTTGTTTCATTCTTTTAAA
261 TTTTTATTATAATTATATTTTGGGGTAAAATGCAGAGTTGGTCACTTTTGTTTCATTCTTTTAAA
206898 CCTATAGTCACTCGATCCATAAACGTCAATACTTGGTCACTTTTGTTTCGTTTTAATTAAGATGT
326 CCTATAGTCACTCGATCCATAAACGTCAATACTTGGTCACTTTTGTTTCGTTTTAATTAAGATGT
*
206963 GGTCACTGAGACGTTAGCTGTCGTGAGTTGGATGATGTGGCACGTTAGTAAAAAGTTTAAATTTT
391 GGTCACTGAGACGTTAGCTGTCGTGAGTTGGATGATGTGGCACGTTAGTAAAAAGTTTGAATTTT
207028 TATTTGAGCCCTTAAACTTGAGATAAATTACTCATTATGGGTCTTTTTGTAAATCTAAAATAATT
456 TATTTGAGCCCTTAAACTTGAGATAAATTACTCATTATGGGTCTTTTTGTAAATCTAAAATAATT
207093 CAGGGAT-AAAAAATCAATTAACCCTCTTTCCCTCATATATTTTATTCCCAAATCAGAAATGGAA
521 CAGGGATAAAAAAATCAATTAACCCTCTTTCCCTCATATATTTTATTCCCAAATCAGAAATGGAA
207157 AATCCCTAAAATC
586 AATCCCTAAAATC
* *
207170 AAATAGTAGTTTCAAATCAACCGCAAAACCTATGATTTCTAGCTTTTTCATTTTCAACTTTACGT
1 AAATAGTAGTTTCAAACCAACCGCAAAAACTATGATTTCTAGCTTTTTCATTTTCAACTTTACGT
207235 TTTGGAAGCAAATATAATTTTACCTTTACTAATGCATGTGTTTCACTCAATTATGTATTTATATT
66 TTTGGAAGCAAATATAATTTTACCTTTACTAATGCATGTGTTTCACTCAATTATGTATTTATATT
207300 TTATTTTAATAATTTAATACTAACATCCTTAAAAATTTATTACTTTTAATAATTTATTTTAATTA
131 TTATTTTAATAATTTAATACTAACATCCTTAAAAATTTATTACTTTTAATAATTTATTTTAATTA
207365 TTTAAAAGTAAAT-AAATTTATGA-TT-TATATTAAAATATTAGTAGTGAGTTATATAAAATATG
196 TTTAAAAGTAAATAAAATTTATGATTTATATATTAAAATATTAGTAGTGAGTTATATAAAATATG
207427 TTTTTATTATAATTATATTTTGGGGTAAAATGCAGAGTTGGTCACTTTTGTTTCATTCTTTTAAA
261 TTTTTATTATAATTATATTTTGGGGTAAAATGCAGAGTTGGTCACTTTTGTTTCATTCTTTTAAA
207492 CCTATAGTCACTCGATCCATAAACGTCAATACTTGGTCACTTTTGTTTCGTTTTAATTAAGATGT
326 CCTATAGTCACTCGATCCATAAACGTCAATACTTGGTCACTTTTGTTTCGTTTTAATTAAGATGT
207557 GGTCACTGAGACGTTAGCTGTCGTGAGTTGGATGATGTGGCACGTTAGTAAAAAGTTTGAATTTT
391 GGTCACTGAGACGTTAGCTGTCGTGAGTTGGATGATGTGGCACGTTAGTAAAAAGTTTGAATTTT
207622 TATTTGAGCCCTTAAACTTGAGATAAATTACTCATTATGGGTCTTTTTGTAAATCTAAAATAATT
456 TATTTGAGCCCTTAAACTTGAGATAAATTACTCATTATGGGTCTTTTTGTAAATCTAAAATAATT
207687 CAGGGATAAAAAAATCAATTAACCCTCTTTCCCTCATATATTTTATTCCCAAATCAGAAATGGAA
521 CAGGGATAAAAAAATCAATTAACCCTCTTTCCCTCATATATTTTATTCCCAAATCAGAAATGGAA
*
207752 AATCCCTAAGATC
586 AATCCCTAAAATC
207765 AAATAGTAGTTTCAAACCAACCGCAAAAACTATGATTTCTAGCTTTTTCATTTTCAACTTTACGT
1 AAATAGTAGTTTCAAACCAACCGCAAAAACTATGATTTCTAGCTTTTTCATTTTCAACTTTACGT
*
207830 TTTGGAAGCAAATATAATTTTACCTTTACTAATCCATGTGTTTCACTCAATTATGTATTTATATT
66 TTTGGAAGCAAATATAATTTTACCTTTACTAATGCATGTGTTTCACTCAATTATGTATTTATATT
*
207895 TTATTTTAATAATTTAATACTAACATCCTTAAAAAATTATTACTTTTAATAATTTATTTTAATTA
131 TTATTTTAATAATTTAATACTAACATCCTTAAAAATTTATTACTTTTAATAATTTATTTTAATTA
207960 TTTAAAAGTAAATAAAATTTATGATTTATATATTAAAATATTAGTAGTGAGTTATATAAAATATG
196 TTTAAAAGTAAATAAAATTTATGATTTATATATTAAAATATTAGTAGTGAGTTATATAAAATATG
* *
208025 TTTTTATTACAATTATATTTTGGGGTAAAATGTAGAGTTGGTCACTTTTGTTTCATTCTTTTAAA
261 TTTTTATTATAATTATATTTTGGGGTAAAATGCAGAGTTGGTCACTTTTGTTTCATTCTTTTAAA
*
208090 CCTATAGTCACTTGATCCATAAACGTCAATACTTGGTCACTTTTGTTTCGTTTTAATTAAGATGT
326 CCTATAGTCACTCGATCCATAAACGTCAATACTTGGTCACTTTTGTTTCGTTTTAATTAAGATGT
* * *
208155 GGTCATTGAGACGTTAGCTATCATGAGTTGGATGATGTGGCACGTTAGTAAAAAGTTTGAATTTT
391 GGTCACTGAGACGTTAGCTGTCGTGAGTTGGATGATGTGGCACGTTAGTAAAAAGTTTGAATTTT
208220 TATTTGAGCCCTTAAACTTGAGATAAATTACTCATTATGGGTCTTTTTGTAAATCTAAAATAATT
456 TATTTGAGCCCTTAAACTTGAGATAAATTACTCATTATGGGTCTTTTTGTAAATCTAAAATAATT
* *
208285 CAGGGATAAAAAAATCAATTAACCCTCTTTCCCTCATATGTTTTATTCCCAAATCATAAATGGAA
521 CAGGGATAAAAAAATCAATTAACCCTCTTTCCCTCATATATTTTATTCCCAAATCAGAAATGG-A
208350 AAATCCCTAAAATC
585 AAATCCCTAAAATC
208364 AAA
1 AAA
208367 CCCCCAAATT
Statistics
Matches: 1173, Mismatches: 19, Indels: 8
0.98 0.02 0.01
Matches are distributed among these distances:
594 303 0.26
595 275 0.23
596 20 0.02
597 206 0.18
598 352 0.30
599 17 0.01
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (598 bp):
AAATAGTAGTTTCAAACCAACCGCAAAAACTATGATTTCTAGCTTTTTCATTTTCAACTTTACGT
TTTGGAAGCAAATATAATTTTACCTTTACTAATGCATGTGTTTCACTCAATTATGTATTTATATT
TTATTTTAATAATTTAATACTAACATCCTTAAAAATTTATTACTTTTAATAATTTATTTTAATTA
TTTAAAAGTAAATAAAATTTATGATTTATATATTAAAATATTAGTAGTGAGTTATATAAAATATG
TTTTTATTATAATTATATTTTGGGGTAAAATGCAGAGTTGGTCACTTTTGTTTCATTCTTTTAAA
CCTATAGTCACTCGATCCATAAACGTCAATACTTGGTCACTTTTGTTTCGTTTTAATTAAGATGT
GGTCACTGAGACGTTAGCTGTCGTGAGTTGGATGATGTGGCACGTTAGTAAAAAGTTTGAATTTT
TATTTGAGCCCTTAAACTTGAGATAAATTACTCATTATGGGTCTTTTTGTAAATCTAAAATAATT
CAGGGATAAAAAAATCAATTAACCCTCTTTCCCTCATATATTTTATTCCCAAATCAGAAATGGAA
AATCCCTAAAATC
Found at i:209099 original size:52 final size:52
Alignment explanation
Indices: 208996--209104 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 52
208986 TTTTTATTTG
* * * **
208996 TATTTTTTTATAATTTAAATTGATATAATTCATATATAATTATAATTTTTTT
1 TATTTTGTTATAATTTAAATTGATATAATTCATATATAAGTACAAAATTTTT
* * *
209048 TATTTTGTTATAGTTTAAATTGATATGATTCATATATAAGTGCAAAATTTTT
1 TATTTTGTTATAATTTAAATTGATATAATTCATATATAAGTACAAAATTTTT
*
209100 AATTT
1 TATTT
209105 ACAACATAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (52 bp):
TATTTTGTTATAATTTAAATTGATATAATTCATATATAAGTACAAAATTTTT
Found at i:209336 original size:11 final size:11
Alignment explanation
Indices: 209320--209349 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
209310 AAAATATATC
209320 AATTTTATTAA
1 AATTTTATTAA
209331 AATTTTATTAA
1 AATTTTATTAA
209342 AATTTTAT
1 AATTTTAT
209350 ATTAAATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
AATTTTATTAA
Found at i:209354 original size:13 final size:13
Alignment explanation
Indices: 209325--209369 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
209315 ATATCAATTT
209325 TATTAAAA-TTT-
1 TATTAAAATTTTA
209336 TATTAAAATTTTA
1 TATTAAAATTTTA
*
209349 TATTAAATTCTTTA
1 TATTAAAAT-TTTA
209363 T-TTAAAA
1 TATTAAAA
209370 CTATTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 8 0.28
12 3 0.10
13 13 0.45
14 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
TATTAAAATTTTA
Found at i:209364 original size:12 final size:11
Alignment explanation
Indices: 209322--209364 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
209312 AATATATCAA
*
209322 TTTTATTAAAA
1 TTTTATTAAAT
209333 TTTTATTAAAAT
1 TTTTATT-AAAT
209345 TTTATATTAAAT
1 TTT-TATTAAAT
209357 TCTTTATT
1 T-TTTATT
209365 TAAAACTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 7 0.25
12 15 0.54
13 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTATTAAAT
Found at i:210183 original size:13 final size:13
Alignment explanation
Indices: 210159--210209 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
210149 TGAATTTAAG
210159 ATGACACGCATTT
1 ATGACACGCATTT
* *
210172 ATAACACACATTT
1 ATGACACGCATTT
*
210185 ATGACGCGCATTT
1 ATGACACGCATTT
*
210198 ATGACACTCATT
1 ATGACACGCATT
210210 GCGCGTCATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (13 bp):
ATGACACGCATTT
Found at i:210194 original size:26 final size:26
Alignment explanation
Indices: 210159--210209 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
210149 TGAATTTAAG
210159 ATGACACGCATTTATAACACACATTT
1 ATGACACGCATTTATAACACACATTT
* * *
210185 ATGACGCGCATTTATGACACTCATT
1 ATGACACGCATTTATAACACACATT
210210 GCGCGTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (26 bp):
ATGACACGCATTTATAACACACATTT
Found at i:210373 original size:2 final size:2
Alignment explanation
Indices: 210366--210410 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
210356 TGTCGTAAAT
210366 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
210408 TA T
1 TA T
210411 TGTAGATTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:223630 original size:19 final size:18
Alignment explanation
Indices: 223608--223679 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 18
223598 GTCGGGTCAG
223608 ACCGGTCAAACCAGTTCGA
1 ACCGGTCAAACC-GTTCGA
* * *
223627 ACCGGTCGAAATCGGTCAA
1 ACCGGTC-AAACCGTTCGA
223646 ACCGGTCAGAACCGGTT-GAAA
1 ACCGGTCA-AACC-GTTCG--A
223667 ACCGGTCAAACCG
1 ACCGGTCAAACCG
223680 GTTTCCAGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
18 1 0.02
19 22 0.52
20 10 0.24
21 9 0.21
ACGTcount: A:0.32, C:0.29, G:0.25, T:0.14
Consensus pattern (18 bp):
ACCGGTCAAACCGTTCGA
Found at i:223643 original size:29 final size:30
Alignment explanation
Indices: 223608--223681 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
223598 GTCGGGTCAG
*
223608 ACCGGTCAAACCAGTTC-GAACCGGTCG-AA
1 ACCGGTCAAACC-GGTCAGAACCGGTCGAAA
* *
223637 ATCGGTCAAACCGGTCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTCAGAACCGGTCGAAA
223667 ACCGGTCAAACCGGT
1 ACCGGTCAAACCGGT
223682 TTCCAGCCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 3 0.08
29 20 0.51
30 16 0.41
ACGTcount: A:0.31, C:0.28, G:0.26, T:0.15
Consensus pattern (30 bp):
ACCGGTCAAACCGGTCAGAACCGGTCGAAA
Found at i:223651 original size:9 final size:9
Alignment explanation
Indices: 223602--223681 Score: 70
Period size: 9 Copynumber: 8.3 Consensus size: 9
223592 GGTCAGGTCG
*
223602 GGTCAGACC
1 GGTCAAACC
223611 GGTCAAACC
1 GGTCAAACC
* *
223620 AGTTCGAACC
1 -GGTCAAACC
*
223630 GGTCGAAATC
1 GGTC-AAACC
223640 GGTCAAACC
1 GGTCAAACC
223649 GGTCAGAACC
1 GGTCA-AACC
*
223659 GGTTGAAAACC
1 GG-T-CAAACC
223670 GGTCAAACC
1 GGTCAAACC
223679 GGT
1 GGT
223682 TTCCAGCCCT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
9 28 0.49
10 21 0.37
11 7 0.12
12 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:223680 original size:20 final size:21
Alignment explanation
Indices: 223644--223682 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
223634 GAAATCGGTC
223644 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTCAGAACCGGTTGA
223665 AAACCGGTCA-AACCGGTT
1 AAACCGGTCAGAACCGGTT
223683 TCCAGCCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (21 bp):
AAACCGGTCAGAACCGGTTGA
Found at i:233726 original size:8 final size:7
Alignment explanation
Indices: 233697--233727 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
233687 AATGGATCTC
233697 TTCTTTCT
1 TTCTTT-T
233705 TTCTTTT
1 TTCTTTT
233712 TTCTTTT
1 TTCTTTT
233719 TTCTTTT
1 TTCTTTT
233726 TT
1 TT
233728 ACAATTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.74
8 6 0.26
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTCTTTT
Found at i:234013 original size:24 final size:27
Alignment explanation
Indices: 233979--234041 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 27
233969 CCAAAATTTT
*
233979 TAAAAACTCATCC-C-TCTTAAAATTA
1 TAAAAATTCATCCTCTTCTTAAAATTA
* *
234004 T-AAAATTCATCCTCTTCTTAAGATTT
1 TAAAAATTCATCCTCTTCTTAAAATTA
234030 TAAAAATTCATC
1 TAAAAATTCATC
234042 ATCATAACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 10 0.31
25 2 0.06
26 10 0.31
27 10 0.31
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.38
Consensus pattern (27 bp):
TAAAAATTCATCCTCTTCTTAAAATTA
Found at i:235941 original size:2 final size:2
Alignment explanation
Indices: 235934--235960 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
235924 AACAAGTGTG
235934 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
235961 GAAGTTTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:245194 original size:16 final size:16
Alignment explanation
Indices: 245173--245214 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
245163 AGCAGTCTCA
245173 TAAAATGAAAAAAATC
1 TAAAATGAAAAAAATC
245189 TAAAATGAAAAAAATC
1 TAAAATGAAAAAAATC
*
245205 TAAAAGGAAA
1 TAAAATGAAA
245215 TTTTGTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.17
Consensus pattern (16 bp):
TAAAATGAAAAAAATC
Found at i:250718 original size:20 final size:20
Alignment explanation
Indices: 250695--250733 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
250685 CCAGTATATT
*
250695 TTTACCGGTTACATTATAAA
1 TTTACCGGTTACATAATAAA
**
250715 TTTACTTGTTACATAATAA
1 TTTACCGGTTACATAATAA
250734 TTATCGATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (20 bp):
TTTACCGGTTACATAATAAA
Found at i:251314 original size:20 final size:20
Alignment explanation
Indices: 251264--251314 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
251254 CTGGTAGCGC
*
251264 TTTACCTGTTTTGTCATTTA
1 TTTACCTGTTTCGTCATTTA
** * *
251284 TAGACCGGTTTCGTCATTTT
1 TTTACCTGTTTCGTCATTTA
251304 TTTACCTGTTT
1 TTTACCTGTTT
251315 TATTGTTATG
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.18, G:0.14, T:0.55
Consensus pattern (20 bp):
TTTACCTGTTTCGTCATTTA
Found at i:251682 original size:110 final size:111
Alignment explanation
Indices: 251215--251910 Score: 1033
Period size: 112 Copynumber: 6.3 Consensus size: 111
251205 TTCCAAAAGT
* * * * *
251215 ATCGATAC-TTGTAATAAAGTATCGACAATATCAACATATCTGGTAGCGCTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATC-GGTAGCGCTTTACCTGTTTTGTC
* *
251279 ATTTATAGACCGGTTTCGTCATTTTTTTACCTGTTTTATTGTTATGG
65 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
* * *
251326 ATCGATACATTTTTATAAAGTATCGACACTATCAACATATTCGGTAGCGCTTTATCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATA-TCGGTAGCGCTTTACCTGTTTTGTC
*
251391 CTTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
65 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
*
251438 ATCGATACATTTTTATAAAGTACCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATAT-CGGTAGCGCTTTACCTGTTTTGTC
* * *
251503 ATTTATAGACTGGCTTTGTCATTTTTTTAACTGTTATATTGTTATGG
65 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
* * *
251550 ATCTATACATTTTTATAAAGTATTGACATTTTCAATATATTCGGTAGCG-TTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATA-TCGGTAGCGCTTTACCTGTTTTGTC
*
251614 ATTTATAGACTGGTTTTGTCA-TTTTTTACCTGTTATATTGTTAT-G
65 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
*
251659 AGTCGATACATTTTTATAAAGTATCAACACTTTCAATATATCGGTAGCGCTTTACCTGTTTTGTC
1 A-TCGATACATTTTTATAAAGTATCGACACTTTCAATATATCGGTAGCGCTTTACCTGTTTTGTC
*
251724 ATTTATAGACCGATTTTGTCA-TTTTTTACCTGTTATATTGTTATGG
65 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
* * *
251770 ATAGATACATTTTTATAAAGTATCGACACTTTCAATATATCTGATAGTGCTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATC-GGTAGCGCTTTACCTGTTTTGTC
* * **
251835 ATTTATAGACCGGTTTTGTTATTTTTGTATTTGTTATATTGTTATGG
65 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
* *
251882 ATCAATATATTTTTATAAAGTATCGACAC
1 ATCGATACATTTTTATAAAGTATCGACAC
251911 AAACCGACAA
Statistics
Matches: 537, Mismatches: 39, Indels: 17
0.91 0.07 0.03
Matches are distributed among these distances:
109 11 0.02
110 151 0.28
111 86 0.16
112 286 0.53
113 3 0.01
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (111 bp):
ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCGGTAGCGCTTTACCTGTTTTGTCA
TTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
Found at i:251873 original size:332 final size:336
Alignment explanation
Indices: 251228--251909 Score: 1070
Period size: 332 Copynumber: 2.0 Consensus size: 336
251218 GATACTTGTA
251228 ATAAAGTATCGACAATATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACAATATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
251293 TTCGTCATTTTTTTACCTGTTTTATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTAT
66 TTCGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACTAT
* * *
251358 CAACATATTCGGTAGCGCTTTATCTGTTTTGTCCTTTATAGACCGGTTTTGTCATTTTTTTACCT
131 CAACATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCT
* *
251423 GTTATATTGTTATGGATCGATACATTTTTATAAAGTACCGACACTTTCAATATATCCGGTAGCGC
196 GTTATATTGTTATGGATAGATACATTTTTATAAAGTACCGACACTTTCAATATATCCGATAGCGC
* *
251488 TTTACCTGTTTTGTCATTTATAGACTGGCTTTGTCATTTTTTTAACTGTTATATTGTTATGGATC
261 TTTACCTGTTTTGTCATTTATAGACCGGCTTTGTCATTTTTGTAACTGTTATATTGTTATGGATC
*
251553 TATACATTTTT
326 AATACATTTTT
* * * * *
251564 ATAAAGTATTGACATTTTCAATATAT-TCGGTAGCG-TTTACCTGTTTTGTCATTTATAGACTGG
1 ATAAAGTATCGACAATATCAACATATCT-GGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGG
*
251627 TTTTGTCA-TTTTTTACCTGTTATATTGTTAT-GAGTCGATACATTTTTATAAAGTATCAACACT
65 TTTCGTCATTTTTTTACCTGTTATATTGTTATGGA-TCGATACATTTTTATAAAGTATCAACACT
* *
251690 TTCAATATA-TCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCA-TTTTTTAC
129 ATCAACATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTAC
* * *
251753 CTGTTATATTGTTATGGATAGATACATTTTTATAAAGTATCGACACTTTCAATATATCTGATAGT
194 CTGTTATATTGTTATGGATAGATACATTTTTATAAAGTACCGACACTTTCAATATATCCGATAGC
* * **
251818 GCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTTATTTTTGTATTTGTTATATTGTTATGGA
259 GCTTTACCTGTTTTGTCATTTATAGACCGGCTTTGTCATTTTTGTAACTGTTATATTGTTATGGA
*
251883 TCAATATATTTTT
324 TCAATACATTTTT
251896 ATAAAGTATCGACA
1 ATAAAGTATCGACA
251910 CAAACCGACA
Statistics
Matches: 317, Mismatches: 27, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
332 151 0.48
333 45 0.14
334 57 0.18
335 35 0.11
336 29 0.09
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (336 bp):
ATAAAGTATCGACAATATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTCGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACTAT
CAACATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCT
GTTATATTGTTATGGATAGATACATTTTTATAAAGTACCGACACTTTCAATATATCCGATAGCGC
TTTACCTGTTTTGTCATTTATAGACCGGCTTTGTCATTTTTGTAACTGTTATATTGTTATGGATC
AATACATTTTT
Found at i:253695 original size:25 final size:26
Alignment explanation
Indices: 253647--253704 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
253637 ATACTATAAA
253647 TAAATATTTAAATTATATTATTTTATC
1 TAAATATTTAAA-TATATTATTTTATC
* *
253674 TAAATATTTAAA-ATATTTTTTTGTC
1 TAAATATTTAAATATATTATTTTATC
*
253699 AAAATA
1 TAAATA
253705 AACGTCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 16 0.57
27 12 0.43
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (26 bp):
TAAATATTTAAATATATTATTTTATC
Found at i:255214 original size:21 final size:21
Alignment explanation
Indices: 255167--255214 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
255157 TTAGTATGTT
*
255167 TATTTATCTAATTTCAATATA
1 TATTTATCTAATTGCAATATA
* *
255188 TTTTTATCTATATTGCAATTTA
1 TATTTATCTA-ATTGCAATATA
255210 -ATTTA
1 TATTTA
255215 CTTGAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (21 bp):
TATTTATCTAATTGCAATATA
Found at i:256905 original size:18 final size:18
Alignment explanation
Indices: 256882--256938 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
256872 TGCATTATAT
*
256882 AATTTAAACTATAATAAA
1 AATTTAAAATATAATAAA
* *
256900 AATTTAAAATACAA-ATA
1 AATTTAAAATATAATAAA
* *
256917 AATATATAATTATAATAAA
1 AATTTA-AAATATAATAAA
256936 AAT
1 AAT
256939 ATATCTTATA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 7 0.23
18 18 0.60
19 5 0.17
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTTAAAATATAATAAA
Found at i:257014 original size:11 final size:12
Alignment explanation
Indices: 256979--257014 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
256969 AATATATAAA
256979 TTATAATTA-TT
1 TTATAATTATTT
256990 TTATAATTATTT
1 TTATAATTATTT
257002 TTA-AATTATTT
1 TTATAATTATTT
257013 TT
1 TT
257015 TAAGAATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATAATTATTT
Found at i:262608 original size:11 final size:10
Alignment explanation
Indices: 262586--262630 Score: 54
Period size: 11 Copynumber: 4.2 Consensus size: 10
262576 ATCAAGAACA
262586 AACAAGAAAAG
1 AACAA-AAAAG
262597 AAGCAAAAAAG
1 AA-CAAAAAAG
*
262608 AAAAAAACAAG
1 AACAAAA-AAG
262619 AACAAAAAAG
1 AACAAAAAAG
262629 AA
1 AA
262631 AAGAAGCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.30
11 18 0.60
12 3 0.10
ACGTcount: A:0.78, C:0.09, G:0.13, T:0.00
Consensus pattern (10 bp):
AACAAAAAAG
Found at i:262642 original size:15 final size:16
Alignment explanation
Indices: 262579--262630 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
262569 AGATTCAATC
262579 AAGAAC-AAACAAGAA
1 AAGAACAAAACAAGAA
262594 AAGAAGCAAAA-AAGAA
1 AAGAA-CAAAACAAGAA
*
262610 AAAAACAAGAACAA-AA
1 AAGAACAA-AACAAGAA
262626 AAGAA
1 AAGAA
262631 AAGAAGCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 8 0.26
16 18 0.58
17 5 0.16
ACGTcount: A:0.77, C:0.10, G:0.13, T:0.00
Consensus pattern (16 bp):
AAGAACAAAACAAGAA
Found at i:262648 original size:22 final size:22
Alignment explanation
Indices: 262600--262648 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
262590 AGAAAAGAAG
*
262600 CAAAAAAGAAAA-AAACAAGAA
1 CAAAAAAGAAAAGAAACAAAAA
*
262621 CAAAAAAGAAAAGAAGCAAAAA
1 CAAAAAAGAAAAGAAACAAAAA
262643 TCAAAA
1 -CAAAA
262649 GGAAAAGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.50
22 7 0.29
23 5 0.21
ACGTcount: A:0.78, C:0.10, G:0.10, T:0.02
Consensus pattern (22 bp):
CAAAAAAGAAAAGAAACAAAAA
Found at i:262649 original size:21 final size:19
Alignment explanation
Indices: 262589--262642 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
262579 AAGAACAAAC
262589 AAGAAAAGAAGCAAAAAAGA
1 AAGAAAAGAAGCAAAAAA-A
* *
262609 AA-AAAACAAG-AACAAAA
1 AAGAAAAGAAGCAAAAAAA
262626 AAGAAAAGAAGCAAAAA
1 AAGAAAAGAAGCAAAAA
262643 TCAAAAGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 3 0.11
18 12 0.43
19 11 0.39
20 2 0.07
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (19 bp):
AAGAAAAGAAGCAAAAAAA
Found at i:262665 original size:37 final size:36
Alignment explanation
Indices: 262578--262648 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
262568 AAGATTCAAT
*
262578 CAAGAACAAACAAGAAAAGAAGCAAAAAAGAAAAAAA
1 CAAGAACAAA-AAGAAAAGAAGCAAAAAACAAAAAAA
*
262615 CAAGAACAAAAAAGAAAAGAAGCAAAAATCAAAA
1 CAAGAAC-AAAAAGAAAAGAAGCAAAAAACAAAA
262649 GGAAAAGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.75, C:0.11, G:0.13, T:0.01
Consensus pattern (36 bp):
CAAGAACAAAAAGAAAAGAAGCAAAAAACAAAAAAA
Found at i:265211 original size:106 final size:106
Alignment explanation
Indices: 265038--265499 Score: 649
Period size: 106 Copynumber: 4.3 Consensus size: 106
265028 CACACATCCA
* * *
265038 CAATTTCAACTCCACAACGGAGGATATCGTGCCAC-CTGAGACAACACAAGTTCAACTTCACAAC
1 CAATTTCAACTTCACAACGAAGGATAT--TG-GACTC-GAGACAACACAAGTTCAACTTCACAAC
* * *
265102 GAAGGGACGATTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
62 GAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAAC
*
265147 CAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
* * * *
265212 GGACGGCTGGTTGTCAACAAATAATTTCCTAATTTCAGAGC
66 GGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAAC
* **
265253 CAATTTCAACTTCACAGCGAAGGGCATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
**
265318 GGACGGTTGGTTGTCAACAAACAATTTCCCAATTTCAGAAC
66 GGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAAC
* * *
265359 CAATTTCAACTTCACAATGAAGGATATTGGACTCGAGACAACACAAGTTTAACTTCAAAACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
* *
265424 GGAC-AGCTGGTTGTCAACAAACAATTTCCCAGTTCCAGAAC
66 GGACGA-CTGGTTGTCAACAAACAATTTCCCAATTTCAGAAC
** *
265465 CAATTTCAACTTCACGGCGGAGGATATTGGACTCG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCG
265500 GAACAATACA
Statistics
Matches: 320, Mismatches: 31, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
106 292 0.91
107 3 0.01
109 25 0.08
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (106 bp):
CAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
GGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAAC
Found at i:267054 original size:4 final size:4
Alignment explanation
Indices: 267045--267121 Score: 50
Period size: 4 Copynumber: 18.5 Consensus size: 4
267035 TTCCCTTCGT
* * * * *
267045 TTTA TTTA TTTA TTT- TATT- TTTA TTTTC TTTA TTCA TTGA TTCA TTTT
1 TTTA TTTA TTTA TTTA T-TTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA
267093 TTCTA TTTTA TTTA TTTA TTTA TCTTA TT
1 TT-TA -TTTA TTTA TTTA TTTA T-TTA TT
267122 CCATTGTCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
3 3 0.05
4 44 0.75
5 10 0.17
6 2 0.03
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:267241 original size:14 final size:14
Alignment explanation
Indices: 267222--267259 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
267212 TTTTTATCTC
267222 TTCTTTATTTCATT
1 TTCTTTATTTCATT
*
267236 TTCTTTACTTCATT
1 TTCTTTATTTCATT
267250 TTCTTTATTT
1 TTCTTTATTT
267260 TCAATTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (14 bp):
TTCTTTATTTCATT
Found at i:278127 original size:55 final size:55
Alignment explanation
Indices: 278058--278258 Score: 350
Period size: 55 Copynumber: 3.7 Consensus size: 55
278048 TTTGTATGAG
* *
278058 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATTGAATGCCATT
1 TGTGTATCGATACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGCCATT
278113 TGTGTATCGATACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGCCATT
1 TGTGTATCGATACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGCCATT
* *
278168 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGCTATT
1 TGTGTATCGATACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGCCATT
278223 TGTGTATCGATACACT-AGGGAGTGTATCGATACCCT
1 TGTGTATCGATACACTGA-GGAGTGTATCGATACCCT
278259 TAAGTATGAA
Statistics
Matches: 140, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
54 1 0.01
55 139 0.99
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (55 bp):
TGTGTATCGATACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGCCATT
Found at i:279120 original size:28 final size:28
Alignment explanation
Indices: 279061--279121 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
279051 GTCGAGGGTT
*
279061 CTACGTGGTCCTACGGAACATATGTGTT
1 CTACGTGGTCCTACGGAACATATGTGTC
* * *
279089 CTACGTGGTCTTTCGGGACATA-GTGGTC
1 CTACGTGGTCCTACGGAACATATGT-GTC
279117 CTACG
1 CTACG
279122 GGACAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.31
Consensus pattern (28 bp):
CTACGTGGTCCTACGGAACATATGTGTC
Found at i:282461 original size:55 final size:55
Alignment explanation
Indices: 282392--282592 Score: 325
Period size: 55 Copynumber: 3.7 Consensus size: 55
282382 TTTGTATGAG
* *
282392 TGTGTATCGGTACACT-GAGGAGTGTATCGATACCCTCAAAACATCGAATGCCATT
1 TGTGTATCGATACACTAG-GGAGTGTATCGATACCCTCAAAACATCGAATGCTATT
282447 TGTGTATCGATACACT-GAGGAGTGTATCGATACCCTCAAAACATCGAATGCTATT
1 TGTGTATCGATACACTAG-GGAGTGTATCGATACCCTCAAAACATCGAATGCTATT
* *
282502 TATGTATCGATACACTAGGGAGTGTATCGATACCCTCAAAACATCAAATGCTATT
1 TGTGTATCGATACACTAGGGAGTGTATCGATACCCTCAAAACATCGAATGCTATT
*
282557 TGTGTATTGATACACTAGGGAGTGTATCGATACCCT
1 TGTGTATCGATACACTAGGGAGTGTATCGATACCCT
282593 TAAGTATGAA
Statistics
Matches: 139, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
55 138 0.99
56 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (55 bp):
TGTGTATCGATACACTAGGGAGTGTATCGATACCCTCAAAACATCGAATGCTATT
Found at i:283457 original size:28 final size:29
Alignment explanation
Indices: 283397--283457 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
283387 GTTGAGGGTT
*
283397 ATACGTGGTCCTACGAGACATATGTGTTC
1 ATACGTGGTCCTACGAGACATATGTGGTC
* *
283426 -TACGTGGTCCTTCGGGACATA-GTGGTC
1 ATACGTGGTCCTACGAGACATATGTGGTC
283453 ATACG
1 ATACG
283458 GGATAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (29 bp):
ATACGTGGTCCTACGAGACATATGTGGTC
Found at i:283810 original size:15 final size:16
Alignment explanation
Indices: 283790--283827 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
283780 GAGTTATATT
283790 ATATAT-TTAGGTCAA
1 ATATATCTTAGGTCAA
283805 ATATATGCTTAGGTCAA
1 ATATAT-CTTAGGTCAA
283822 ATATAT
1 ATATAT
283828 GCTCATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
17 15 0.71
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (16 bp):
ATATATCTTAGGTCAA
Found at i:283816 original size:17 final size:17
Alignment explanation
Indices: 283796--283830 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
283786 TATTATATAT
283796 TTAGGTCAAATATATGC
1 TTAGGTCAAATATATGC
283813 TTAGGTCAAATATATGC
1 TTAGGTCAAATATATGC
283830 T
1 T
283831 CATATGATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (17 bp):
TTAGGTCAAATATATGC
Found at i:285503 original size:36 final size:33
Alignment explanation
Indices: 285449--285609 Score: 101
Period size: 34 Copynumber: 4.9 Consensus size: 33
285439 ATAAGATATC
* *
285449 TTTTAATATT-CAAATCAAAATAGATAATAATATA
1 TTTTAATATTAAAAAT-TAAATAGATAATAAT-TA
*
285483 TTTTAAT-TTAAAATATTCAAA-AGAT-ATATATACA
1 TTTTAATATTAAAA-ATT-AAATAGATAATA-AT-TA
* *
285517 TTTTACTATTAAAACTTAAA-A-A-AAT-ATTA
1 TTTTAATATTAAAAATTAAATAGATAATAATTA
285546 TTTTAAT-TTAAAATATTAGAA-ATGAT-ATAATTA
1 TTTTAATATTAAAA-ATTA-AATA-GATAATAATTA
*
285579 TATTTAATATTTAAAATTAAATAGATAATAA
1 T-TTTAATATTAAAAATTAAATAGATAATAA
285610 ATACCCTTTA
Statistics
Matches: 102, Mismatches: 9, Indels: 32
0.71 0.06 0.22
Matches are distributed among these distances:
28 6 0.06
29 10 0.10
30 5 0.05
32 6 0.06
33 19 0.19
34 40 0.39
35 16 0.16
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.42
Consensus pattern (33 bp):
TTTTAATATTAAAAATTAAATAGATAATAATTA
Found at i:285508 original size:34 final size:32
Alignment explanation
Indices: 285470--285595 Score: 107
Period size: 34 Copynumber: 3.8 Consensus size: 32
285460 AAATCAAAAT
285470 AGATAATAATATATTTTAATTTAAAATATTCAAA
1 AGAT-ATAATATATTTTAATTTAAAATATT-AAA
* * *
285504 AGATATATATACATTTTACTATTAAAA-CTTAAA
1 AGATATA-ATATATTTTAAT-TTAAAATATTAAA
*
285537 A-AAAT-AT-TATTTTAATTTAAAATATTAGAA
1 AGATATAATATATTTTAATTTAAAATATTA-AA
*
285567 ATGATATAATTATATTTAATATTTAAAAT
1 A-GATATAA-TATATTTTA-ATTTAAAAT
285596 TAAATAGATA
Statistics
Matches: 73, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
28 6 0.08
29 10 0.14
30 5 0.07
32 6 0.08
33 8 0.11
34 17 0.23
35 12 0.16
36 9 0.12
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (32 bp):
AGATATAATATATTTTAATTTAAAATATTAAA
Found at i:285599 original size:63 final size:62
Alignment explanation
Indices: 285477--285599 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 62
285467 AATAGATAAT
*
285477 AATATATTTTAATTTAAAATATTCAAAAGATATATATACATTTTACTATTAAAACTTAAAAA
1 AATATATTTTAATTTAAAATATTCAAAAGATATATATACATTTTAATATTAAAACTTAAAAA
*
285539 AATATTATTTTAATTTAAAATATT-AGAAATGATATA-AT-TATATTTAATATTTAAAA-TTAAA
1 AATA-TATTTTAATTTAAAATATTCA-AAA-GATATATATACAT-TTTAATA-TTAAAACTTAAA
285600 TAGATAATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
62 7 0.13
63 35 0.65
64 12 0.22
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (62 bp):
AATATATTTTAATTTAAAATATTCAAAAGATATATATACATTTTAATATTAAAACTTAAAAA
Found at i:293371 original size:22 final size:22
Alignment explanation
Indices: 293344--293385 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
293334 CTGTTACATG
293344 TTTAATGCAAGAGTTACAAAGC
1 TTTAATGCAAGAGTTACAAAGC
* *
293366 TTTAATGTATGAGTTACAAA
1 TTTAATGCAAGAGTTACAAA
293386 TTGTTGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (22 bp):
TTTAATGCAAGAGTTACAAAGC
Found at i:297917 original size:2 final size:2
Alignment explanation
Indices: 297912--297952 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
297902 TACTTGTGTG
297912 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
297953 CTTACACATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:298568 original size:21 final size:22
Alignment explanation
Indices: 298537--298586 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
298527 TTTGTGAGCT
298537 GTTAC-AAG-TTTAATGCAAGA
1 GTTACAAAGTTTTAATGCAAGA
* *
298557 GTTACAAAGTTTTATTGCATGA
1 GTTACAAAGTTTTAATGCAAGA
298579 GTTACAAA
1 GTTACAAA
298587 CTGTTGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 5 0.19
21 3 0.12
22 18 0.69
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (22 bp):
GTTACAAAGTTTTAATGCAAGA
Found at i:300529 original size:26 final size:26
Alignment explanation
Indices: 300499--300561 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
300489 ACGTGCTTTC
300499 ATGTTTATTTTATTTCCCACATTTTT
1 ATGTTTATTTTATTTCCCACATTTTT
300525 ATGTTTATTTTATTTCCCACATTTTT
1 ATGTTTATTTTATTTCCCACATTTTT
300551 ATGTTTATTTT
1 ATGTTTATTTT
300562 TTAAAAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.19, C:0.13, G:0.05, T:0.63
Consensus pattern (26 bp):
ATGTTTATTTTATTTCCCACATTTTT
Found at i:303429 original size:15 final size:15
Alignment explanation
Indices: 303411--303443 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
303401 TCACTTTTAG
303411 ATTAATCAAAATAA-A
1 ATTAAT-AAAATAATA
303426 ATTAATAAAATAATA
1 ATTAATAAAATAATA
303441 ATT
1 ATT
303444 TCAATTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTAATAAAATAATA
Found at i:304540 original size:36 final size:36
Alignment explanation
Indices: 304493--304561 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
304483 ACAGTTTTCG
* * *
304493 TAATGGCAGTTTGTAATGGTGGGTGAAAGCTTTTTA
1 TAATGACAGTTTGTAATGATGGATGAAAGCTTTTTA
*
304529 TAATGACAGTTTGTAATGATGGATGAACGCTTT
1 TAATGACAGTTTGTAATGATGGATGAAAGCTTT
304562 GATTTCCAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (36 bp):
TAATGACAGTTTGTAATGATGGATGAAAGCTTTTTA
Found at i:304611 original size:19 final size:19
Alignment explanation
Indices: 304587--304630 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
304577 TTTTAGGATG
* *
304587 TTATGTTGTAATGGTGGTA
1 TTATGTTGTAATGGTAGAA
304606 TTATGTTGTAATGGTAGAA
1 TTATGTTGTAATGGTAGAA
304625 TTATGT
1 TTATGT
304631 AATGAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (19 bp):
TTATGTTGTAATGGTAGAA
Found at i:305084 original size:21 final size:20
Alignment explanation
Indices: 305055--305093 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
305045 GTAAATCGCG
305055 TTGCAATTTTCCAAATTCGAA
1 TTGCAA-TTTCCAAATTCGAA
*
305076 TTGCGATTTCCAAATTCG
1 TTGCAATTTCCAAATTCG
305094 CAACATGATT
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:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (20 bp):
TTGCAATTTCCAAATTCGAA
Found at i:305103 original size:20 final size:21
Alignment explanation
Indices: 305080--305138 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
305070 TTCGAATTGC
305080 GATTTCCAAATTCGCAACA-T
1 GATTTCCAAATTCGCAACACT
305100 GATTTCCAAATTCGCAACACT
1 GATTTCCAAATTCGCAACACT
305121 GAATTT-CAAATTCGCAAC
1 G-ATTTCCAAATTCGCAAC
305139 TCAATTCTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
20 19 0.51
21 14 0.38
22 4 0.11
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.29
Consensus pattern (21 bp):
GATTTCCAAATTCGCAACACT
Found at i:305152 original size:40 final size:39
Alignment explanation
Indices: 305081--305216 Score: 101
Period size: 40 Copynumber: 3.4 Consensus size: 39
305071 TCGAATTGCG
* * **
305081 ATTTCCAAATTCGCAACATGATTTCCAAATTCGCAACACTGA
1 ATTT-CAAATTCGCAAC-TCAATTCTGAATTCGCAACAC-GA
* *
305123 ATTTCAAATTCGCAACTCAATTCTGAATTCGTAACGCGA
1 ATTTCAAATTCGCAACTCAATTCTGAATTCGCAACACGA
* ** * * * *
305162 ATTTTATTTTCACAACTCGATTTTCGAATTCACAACACGA
1 ATTTCAAATTCGCAACTCAATTCT-GAATTCGCAACACGA
* *
305202 ATTTTAATTTCGCAA
1 ATTTCAAATTCGCAA
305217 TAGGTTTTAG
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 20 0.26
40 40 0.53
41 12 0.16
42 4 0.05
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.34
Consensus pattern (39 bp):
ATTTCAAATTCGCAACTCAATTCTGAATTCGCAACACGA
Found at i:306031 original size:12 final size:12
Alignment explanation
Indices: 306010--306043 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
306000 ACCACATTTC
*
306010 CAATACCAAACA
1 CAATATCAAACA
306022 CAATATCAAACA
1 CAATATCAAACA
*
306034 CAATCTCAAA
1 CAATATCAAA
306044 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:306220 original size:24 final size:24
Alignment explanation
Indices: 306167--306222 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
306157 CAGTATTCGA
306167 AATTTGATCTTGGTCAATACCCGG
1 AATTTGATCTTGGTCAATACCCGG
* * *
306191 ACTTTGATCTTGGTCAATACTCGT
1 AATTTGATCTTGGTCAATACCCGG
306215 AATTTGAT
1 AATTTGAT
306223 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (24 bp):
AATTTGATCTTGGTCAATACCCGG
Found at i:308512 original size:18 final size:18
Alignment explanation
Indices: 308478--308518 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
308468 CAAGCAAAGG
**
308478 AAATCAAAATCGTAATCA
1 AAATCAAAATCCCAATCA
308496 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
*
308514 CAATC
1 AAATC
308519 GGCTTCACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.24, G:0.02, T:0.20
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:308718 original size:20 final size:20
Alignment explanation
Indices: 308693--308730 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
308683 GTTGCGATTG
308693 TTGCGAAAGTCAAATTCGCA
1 TTGCGAAAGTCAAATTCGCA
**
308713 TTGCGATTGTCAAATTCG
1 TTGCGAAAGTCAAATTCG
308731 AAACACGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (20 bp):
TTGCGAAAGTCAAATTCGCA
Found at i:308764 original size:20 final size:20
Alignment explanation
Indices: 308741--308783 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
308731 AAACACGAAA
308741 TCGCAATGCGAATTTGACTT
1 TCGCAATGCGAATTTGACTT
** *
308761 TCGCGTTGCGAATTTGATTT
1 TCGCAATGCGAATTTGACTT
308781 TCG
1 TCG
308784 TTGTGAAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (20 bp):
TCGCAATGCGAATTTGACTT
Found at i:308899 original size:33 final size:32
Alignment explanation
Indices: 308858--308950 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 32
308848 CAACAATTCA
308858 ACTTTTACAAATCAATTAAACAAGCAAAAAAT
1 ACTTTTACAAATCAATTAAACAAGCAAAAAAT
* * **
308890 ATTATTTACACATCAATT--A-AA-CAAATCA-
1 ACT-TTTACAAATCAATTAAACAAGCAAAAAAT
308918 ACTTTTACAAATCAATTAAACAAGCAAAAAAT
1 ACTTTTACAAATCAATTAAACAAGCAAAAAAT
308950 A
1 A
308951 ATTCTTATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
27 13 0.28
28 2 0.04
29 6 0.13
30 4 0.09
31 6 0.13
32 3 0.06
33 13 0.28
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (32 bp):
ACTTTTACAAATCAATTAAACAAGCAAAAAAT
Found at i:308941 original size:60 final size:62
Alignment explanation
Indices: 308849--308991 Score: 227
Period size: 60 Copynumber: 2.3 Consensus size: 62
308839 AATTTAAAAC
*
308849 AACAATTCAACTTTTACAAATCAATTAAACAAGCAAAAAAT-A-TTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTTATTTACACATCAATTA
* *
308909 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAA-T-TTATTTACACATCAATTA
308973 AACAAATCAACTTTTACAA
1 AACAAATCAACTTTTACAA
308992 TTACATCAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
60 40 0.53
61 1 0.01
64 35 0.46
ACGTcount: A:0.50, C:0.18, G:0.01, T:0.30
Consensus pattern (62 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTTATTTACACATCAATTA
Found at i:310371 original size:21 final size:20
Alignment explanation
Indices: 310345--310414 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
310335 GTGAATCGGG
310345 CTCTTGAACGGTGGGAGGGAC
1 CTCTTGAACGGTGGGAGGG-C
* **
310366 CTCTTGAACGATGACAGGGC
1 CTCTTGAACGGTGGGAGGGC
310386 CTCTTGAACGGTGGGAGAGGC
1 CTCTTGAACGGTGGGAG-GGC
310407 CTCTTGAA
1 CTCTTGAA
310415 GGATGATAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (20 bp):
CTCTTGAACGGTGGGAGGGC
Found at i:310402 original size:41 final size:41
Alignment explanation
Indices: 310345--310465 Score: 156
Period size: 41 Copynumber: 2.9 Consensus size: 41
310335 GTGAATCGGG
310345 CTCTTGAACGGTGGGAG-GGACCTCTTGAACGATGACAGGGC
1 CTCTTGAACGGTGGGAGAGG-CCTCTTGAACGATGACAGGGC
* *
310386 CTCTTGAACGGTGGGAGAGGCCTCTTGAAGGATGATAGGGGC
1 CTCTTGAACGGTGGGAGAGGCCTCTTGAACGATGACA-GGGC
* * *
310428 CTATTGAACGATAGGAGAGGCCT-TTCGAACGATGACAG
1 CTCTTGAACGGTGGGAGAGGCCTCTT-GAACGATGACAG
310466 ATGAATCGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
41 35 0.50
42 35 0.50
ACGTcount: A:0.25, C:0.19, G:0.36, T:0.21
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGAGGCCTCTTGAACGATGACAGGGC
Found at i:310445 original size:42 final size:41
Alignment explanation
Indices: 310348--310465 Score: 150
Period size: 42 Copynumber: 2.9 Consensus size: 41
310338 AATCGGGCTC
*
310348 TTGAACGGTGGGAG-GGACCTCTTGAACGATGACAGGGCCTC
1 TTGAACGGTGGGAGAGG-CCTCTTGAACGATGACAGGGCCTA
* *
310389 TTGAACGGTGGGAGAGGCCTCTTGAAGGATGATAGGGGCCTA
1 TTGAACGGTGGGAGAGGCCTCTTGAACGATGACA-GGGCCTA
* *
310431 TTGAACGATAGGAGAGGCCT-TTCGAACGATGACAG
1 TTGAACGGTGGGAGAGGCCTCTT-GAACGATGACAG
310466 ATGAATCGGG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
41 32 0.48
42 35 0.52
ACGTcount: A:0.25, C:0.18, G:0.36, T:0.20
Consensus pattern (41 bp):
TTGAACGGTGGGAGAGGCCTCTTGAACGATGACAGGGCCTA
Found at i:310449 original size:21 final size:20
Alignment explanation
Indices: 310345--310461 Score: 87
Period size: 21 Copynumber: 5.7 Consensus size: 20
310335 GTGAATCGGG
*
310345 CTCTTGAACGGTGG-GAGGGAC
1 CTCTTGAACGATGGAGA-GG-C
*
310366 CTCTTGAACGAT-GACAGGGC
1 CTCTTGAACGATGGAGA-GGC
*
310386 CTCTTGAACGGTGGGAGAGGC
1 CTCTTGAACGAT-GGAGAGGC
* * *
310407 CTCTTGAAGGATGATAGGGGC
1 CTCTTGAACGATG-GAGAGGC
*
310428 CTATTGAACGATAGGAGAGGC
1 CTCTTGAACGAT-GGAGAGGC
310449 CT-TTCGAACGATG
1 CTCTT-GAACGATG
310462 ACAGATGAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
20 17 0.22
21 57 0.73
22 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (20 bp):
CTCTTGAACGATGGAGAGGC
Found at i:310768 original size:21 final size:21
Alignment explanation
Indices: 310744--310795 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
310734 TGCAACAATC
* * *
310744 TCACGTAGAGTGGCTACCTCA
1 TCACGTAAAGTAGATACCTCA
310765 TCACGTAAAGTAGATACCTCA
1 TCACGTAAAGTAGATACCTCA
*
310786 CCACGTAAAG
1 TCACGTAAAG
310796 CACAATTGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (21 bp):
TCACGTAAAGTAGATACCTCA
Found at i:310878 original size:63 final size:63
Alignment explanation
Indices: 310757--310879 Score: 140
Period size: 63 Copynumber: 2.0 Consensus size: 63
310747 CGTAGAGTGG
* * **
310757 CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACAATTGTCATCGTGTAAAACCT
1 CTACCTCACCACGTAAAGTAGATACCTCACCACGCAAAGCACAATTGTCATCACGTAAAACCT
* * * * * *
310820 CTACCTCACCACGTAAAGATCG-TACCTCATCACGCCATGCACCATTGTCTTCACGTAAAA
1 CTACCTCACCACGTAAAG-TAGATACCTCACCACGCAAAGCACAATTGTCATCACGTAAAA
310880 TACCGATCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
63 47 0.96
64 2 0.04
ACGTcount: A:0.33, C:0.32, G:0.12, T:0.24
Consensus pattern (63 bp):
CTACCTCACCACGTAAAGTAGATACCTCACCACGCAAAGCACAATTGTCATCACGTAAAACCT
Found at i:312630 original size:20 final size:20
Alignment explanation
Indices: 312605--312649 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
312595 ACTAAAATCG
312605 TGTTGCGATTTTCATTTTCA
1 TGTTGCGATTTTCATTTTCA
312625 TGTTGCGATTTTCATTTTCA
1 TGTTGCGATTTTCATTTTCA
312645 TGTTG
1 TGTTG
312650 TGAATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.18, T:0.56
Consensus pattern (20 bp):
TGTTGCGATTTTCATTTTCA
Found at i:312663 original size:20 final size:20
Alignment explanation
Indices: 312605--312664 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
312595 ACTAAAATCG
* * *
312605 TGTTGCGATTTTCATTTTCA
1 TGTTGCGAATTTAAATTTCA
* * *
312625 TGTTGCGATTTTCATTTTCA
1 TGTTGCGAATTTAAATTTCA
*
312645 TGTTGTGAATTTAAATTTCA
1 TGTTGCGAATTTAAATTTCA
312665 AATAGTCTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.53
Consensus pattern (20 bp):
TGTTGCGAATTTAAATTTCA
Found at i:313210 original size:20 final size:20
Alignment explanation
Indices: 313185--313235 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
313175 GTGTTACGAA
*
313185 TTACAGATTCGCGTTGTGAT
1 TTACAGATTCGCGTTGCGAT
313205 TTACAGATTCGCGTTGCGAT
1 TTACAGATTCGCGTTGCGAT
*
313225 TTACATATTCG
1 TTACAGATTCG
313236 TGTTACGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTACAGATTCGCGTTGCGAT
Found at i:313275 original size:21 final size:21
Alignment explanation
Indices: 313260--313305 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
313250 AAATCACGTT
*
313260 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCACAAC
* *
313281 GCGAATTTGGAAAATCGCAAT
1 GCGAATTTGGAAAATCACAAC
313302 GCGA
1 GCGA
313306 TTTATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (21 bp):
GCGAATTTGGAAAATCACAAC
Found at i:314854 original size:28 final size:28
Alignment explanation
Indices: 314822--314877 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
314812 ATATAAACTG
* *
314822 CCTCTAACTGTGATGCCACATTTAGTGC
1 CCTCTAACTATGATGCAACATTTAGTGC
*
314850 CCTCTAACTATGATGGAACATTTAGTGC
1 CCTCTAACTATGATGCAACATTTAGTGC
314878 TCTGTAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (28 bp):
CCTCTAACTATGATGCAACATTTAGTGC
Found at i:317402 original size:77 final size:77
Alignment explanation
Indices: 317271--317575 Score: 385
Period size: 77 Copynumber: 3.9 Consensus size: 77
317261 ATTACATATG
* *
317271 TAACATAGACTTGCACCAGTTAAATCATCACTTAATTCCAGTAGTGGTATATAACATATACTTAC
1 TAACATAGACTTACACCAGTTAAATCATCACTTAATTCCAGTAGTGGTATATAACATAGACTTAC
*
317336 ACCGGTGAAATT
66 ACCGGTGAAACT
* * * *
317348 TAATATAGACTTTCACCAGTTAAATCATCACTTAATTCCAATAGTGGTGTATAACATAGACTTAC
1 TAACATAGACTTACACCAGTTAAATCATCACTTAATTCCAGTAGTGGTATATAACATAGACTTAC
**
317413 ACATGTGAAACT
66 ACCGGTGAAACT
* * *
317425 TAACATAGACTTACTCCAGTTAAATCATCACTTAATTCTAGTAGTGGTTTATAACATAGACTTAA
1 TAACATAGACTTACACCAGTTAAATCATCACTTAATTCCAGTAGTGGTATATAACATAGACTT-A
* *
317490 CACTGGTGTAACT
65 CACCGGTGAAACT
* * * * *
317503 TAACATAGAGTTACACTAGTTAGTTAAATTTAACACTTAATTCCAGCAGTGGTATATAACATAGA
1 TAACATAGACTTACAC----CAGTTAAA-TCATCACTTAATTCCAGTAGTGGTATATAACATAGA
317568 CTTACACC
61 CTTACACC
317576 AGTAAAATCA
Statistics
Matches: 196, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
77 126 0.64
78 25 0.13
82 11 0.06
83 34 0.17
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.32
Consensus pattern (77 bp):
TAACATAGACTTACACCAGTTAAATCATCACTTAATTCCAGTAGTGGTATATAACATAGACTTAC
ACCGGTGAAACT
Found at i:322433 original size:34 final size:33
Alignment explanation
Indices: 322395--322473 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 33
322385 AACTTAATTT
322395 AAAAATATTTTTTTATTTTTTATTTATAATTAAA
1 AAAAATATTTTTTTATTTTTTATTTATAATT-AA
*
322429 AAAAATATTTTTTTTATTTTTTATTTATAATTTA
1 AAAAATA-TTTTTTTATTTTTTATTTATAATTAA
322463 AAAAATATTTT
1 AAAAATATTTT
322474 ATGTTAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
33 4 0.09
34 15 0.35
35 24 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
AAAAATATTTTTTTATTTTTTATTTATAATTAA
Found at i:322630 original size:30 final size:30
Alignment explanation
Indices: 322482--322631 Score: 88
Period size: 30 Copynumber: 5.1 Consensus size: 30
322472 TTATGTTAAA
322482 ATATTTT-AAAG-TTAAGATAAGAATAAAAT
1 ATATTTTAAAAGTTTAA-ATAAGAATAAAAT
* *
322511 ATA-TTTAATAA-TTTAAAGTAATAATATAAT
1 ATATTTTAA-AAGTTTAAA-TAAGAATAAAAT
*
322541 ATA-TTT---AG-TTAATTAAG-ATAAAAT
1 ATATTTTAAAAGTTTAAATAAGAATAAAAT
* * * *
322565 AGATACTTTGGAAAA-TTAAAATAATAATGAAAT
1 --ATA-TTT-TAAAAGTTTAAATAAGAATAAAAT
*
322598 ATATTTTAAAAGTTTAGATAAGAATAAAAT
1 ATATTTTAAAAGTTTAAATAAGAATAAAAT
322628 ATAT
1 ATAT
322632 ATTTTTAAAT
Statistics
Matches: 90, Mismatches: 15, Indels: 31
0.66 0.11 0.23
Matches are distributed among these distances:
24 6 0.07
25 3 0.03
26 8 0.09
28 5 0.06
29 9 0.10
30 43 0.48
31 3 0.03
32 7 0.08
33 6 0.07
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.37
Consensus pattern (30 bp):
ATATTTTAAAAGTTTAAATAAGAATAAAAT
Found at i:322653 original size:18 final size:19
Alignment explanation
Indices: 322620--322659 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
322610 TTTAGATAAG
*
322620 AATAAAATATATATTTTTA
1 AATAAAATAAATATTTTTA
322639 AATAAAA-AAATATTTTTA
1 AATAAAATAAATATTTTTA
322657 AAT
1 AAT
322660 TAAGTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAAAATAAATATTTTTA
Found at i:322700 original size:24 final size:24
Alignment explanation
Indices: 322636--322727 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 24
322626 ATATATATTT
*
322636 TTAA-ATAAAAAAATATTTTTAAA
1 TTAATATAAAAATATATTTTTAAA
*
322659 TTAAGTTAATAATTAAATATATTTATAAA
1 TTAA--T-ATAA--AAATATATTTTTAAA
322688 TTAATATAAAAATAT-TTTTTAAA
1 TTAATATAAAAATATATTTTTAAA
322711 GTTAATATATAAAATAT
1 -TTAATATA-AAAATAT
322728 TATGAATTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
23 11 0.19
24 14 0.24
25 7 0.12
26 4 0.07
27 5 0.09
29 17 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTAATATAAAAATATATTTTTAAA
Found at i:323063 original size:31 final size:31
Alignment explanation
Indices: 323025--323091 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
323015 ATTAATCCGT
323025 AGTGATCACATCTTAATTAAATAAAAACGAA
1 AGTGATCACATCTTAATTAAATAAAAACGAA
* * *
323056 AGTGATCATATTTTAATTAAATAAAAATGAA
1 AGTGATCACATCTTAATTAAATAAAAACGAA
323087 AGTGA
1 AGTGA
323092 CCATATTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (31 bp):
AGTGATCACATCTTAATTAAATAAAAACGAA
Found at i:323097 original size:31 final size:31
Alignment explanation
Indices: 323037--323098 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
323027 TGATCACATC
*
323037 TTAATTAAATAAAAACGAAAGTGATCATATT
1 TTAATTAAATAAAAACGAAAGTGACCATATT
*
323068 TTAATTAAATAAAAATGAAAGTGACCATATT
1 TTAATTAAATAAAAACGAAAGTGACCATATT
323099 ATGTTTTTTG
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:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (31 bp):
TTAATTAAATAAAAACGAAAGTGACCATATT
Found at i:325191 original size:23 final size:23
Alignment explanation
Indices: 325161--325300 Score: 179
Period size: 23 Copynumber: 6.4 Consensus size: 23
325151 ATTGCGATAG
325161 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTAT
*
325184 TCCAAGTT--CGTTGCGA--TAG
1 TCCAAGTTCGCGTTGCGATTTAT
*
325203 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTAT
325226 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTAT
* *
325249 TCCAAATT--CGTTGCGA--TAG
1 TCCAAGTTCGCGTTGCGATTTAT
*
325268 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTAT
325291 TCCAAGTTCG
1 TCCAAGTTCG
325301 TTGTGATAGT
Statistics
Matches: 99, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
19 17 0.17
21 32 0.32
23 50 0.51
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (23 bp):
TCCAAGTTCGCGTTGCGATTTAT
Found at i:325203 original size:42 final size:43
Alignment explanation
Indices: 325152--325244 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 43
325142 CATATTCGCA
325152 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT-CG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCCG
*
325194 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTC-CG
325238 TTGCGAT
1 TTGCGAT
325245 TTATTCCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 39 0.81
44 9 0.19
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.35
Consensus pattern (43 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCCG
Found at i:325237 original size:65 final size:65
Alignment explanation
Indices: 325161--325300 Score: 271
Period size: 65 Copynumber: 2.2 Consensus size: 65
325151 ATTGCGATAG
*
325161 TCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
325226 TCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
325291 TCCAAGTTCG
1 TCCAAGTTCG
325301 TTGTGATAGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 74 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (65 bp):
TCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
Found at i:325275 original size:42 final size:42
Alignment explanation
Indices: 325229--325311 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
325219 GATTTATTCC
325229 AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCG
1 AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCG
* *
325271 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGTGATAGTC
1 AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
325312 CAAAATCGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (42 bp):
AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCG
Found at i:325951 original size:6 final size:6
Alignment explanation
Indices: 325927--325963 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
325917 GTCCGTCTCG
*
325927 GGTCG- GGTCG- GGTCGT GGTCAT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
325964 AATACGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.03, C:0.16, G:0.51, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:326077 original size:21 final size:21
Alignment explanation
Indices: 326053--326093 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
326043 CGTTGCGATT
326053 TTGGACTATCGCAATGCGAAC
1 TTGGACTATCGCAATGCGAAC
*
326074 TTGGACTCTCGCAATGCGAA
1 TTGGACTATCGCAATGCGAA
326094 TATGTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (21 bp):
TTGGACTATCGCAATGCGAAC
Found at i:326132 original size:21 final size:21
Alignment explanation
Indices: 326102--326300 Score: 201
Period size: 21 Copynumber: 9.5 Consensus size: 21
326092 AATATGTAAA
*
326102 TCGCAATGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* * *
326123 TCGCATTGCGATTGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
*
326143 ATCGCAATGCGATAGTCCAAGT
1 -TCGCATTGCGATAGTCCAAGT
* *
326165 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
*
326185 ATCGCAATGCGATAGTCCAAGT
1 -TCGCATTGCGATAGTCCAAGT
* *
326207 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
326227 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
326248 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
326269 TCGCATTGCGATAGTCAAAGT
1 TCGCATTGCGATAGTCCAAGT
*
326290 TCGCGTTGCGA
1 TCGCATTGCGA
326301 ATCTGGAAAC
Statistics
Matches: 146, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
20 23 0.16
21 116 0.79
22 7 0.05
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:326153 original size:42 final size:42
Alignment explanation
Indices: 326101--326300 Score: 280
Period size: 42 Copynumber: 4.8 Consensus size: 42
326091 GAATATGTAA
*
326101 ATCGCAATGCGATAGTCCAAGTTCGCATTGCGATTGTCGACT
1 ATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACT
326143 ATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACT
1 ATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACT
326185 ATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACT
1 ATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACT
* * * * *
326227 ATCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAAGT
1 ATCGCAATGCGATAGTCCA-AGTTCGCATTGCGATAGT-CGACT
* * *
326269 -TCGCATTGCGATAGTCAAAGTTCGCGTTGCGA
1 ATCGCAATGCGATAGTCCAAGTTCGCATTGCGA
326301 ATCTGGAAAC
Statistics
Matches: 144, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
41 32 0.22
42 112 0.78
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (42 bp):
ATCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTCGACT
Found at i:331106 original size:58 final size:58
Alignment explanation
Indices: 331041--331216 Score: 331
Period size: 58 Copynumber: 3.1 Consensus size: 58
331031 AGTCGTACCT
331041 TATTTTTTGACTCGGTTTGTCCCGAGGCTATCCTATCCGATGTATCCAATGACATTGA
1 TATTTTTTGACTCGGTTTGTCCCGAGGCTATCCTATCCGATGTATCCAATGACATTGA
331099 TATTTTTTGACTCGGTTTGTCCCGAGGCTATCCTATCCGATGTATCCAATGACATTGA
1 TATTTTTTGACTCGGTTTGTCCCGAGGCTATCCTATCCGATGTATCCAATGACATTGA
331157 TA--TTTTGACTCGGTTTGTCCCGAGGCTATCCTATCCGATGTATCCAATGACATTGA
1 TATTTTTTGACTCGGTTTGTCCCGAGGCTATCCTATCCGATGTATCCAATGACATTGA
331213 -ATTT
1 TATTT
331217 AGGTAATATA
Statistics
Matches: 116, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
55 1 0.01
56 54 0.47
57 1 0.01
58 60 0.52
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (58 bp):
TATTTTTTGACTCGGTTTGTCCCGAGGCTATCCTATCCGATGTATCCAATGACATTGA
Found at i:331351 original size:41 final size:42
Alignment explanation
Indices: 331306--331387 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 42
331296 AAGAATAATT
**
331306 AAAAGATTTAT-TTAATCCTTAC-GGTAGGAAAAAGTAAAACA
1 AAAAGATTT-TCTTAATCCTTACAACTAGGAAAAAGTAAAACA
*
331347 AAAAGATTTTCTTAATCCTTTCAACTAGGAAAAAGTAAAAC
1 AAAAGATTTTCTTAATCCTTACAACTAGGAAAAAGTAAAAC
331388 CTCATAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 1 0.03
41 19 0.53
42 16 0.44
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (42 bp):
AAAAGATTTTCTTAATCCTTACAACTAGGAAAAAGTAAAACA
Found at i:333190 original size:14 final size:14
Alignment explanation
Indices: 333171--333210 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
333161 CGATAATCTA
333171 TTCATTTATGTTCG
1 TTCATTTATGTTCG
*
333185 TTCATTTATGTTGG
1 TTCATTTATGTTCG
*
333199 TTCGTTTATGTT
1 TTCATTTATGTT
333211 TATTTGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.60
Consensus pattern (14 bp):
TTCATTTATGTTCG
Found at i:333416 original size:10 final size:10
Alignment explanation
Indices: 333403--333446 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
333393 ATTAAATTTC
333403 TGTTCGTTTA
1 TGTTCGTTTA
333413 TGTTCGTTTA
1 TGTTCGTTTA
* *
333423 CGTTTGTTTA
1 TGTTCGTTTA
*
333433 TGTTCGTTTT
1 TGTTCGTTTA
333443 TGTT
1 TGTT
333447 TATCTACGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.07, C:0.09, G:0.20, T:0.64
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:333447 original size:20 final size:20
Alignment explanation
Indices: 333403--333470 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
333393 ATTAAATTTC
*
333403 TGTTCGTTTATGTTCGTTTA
1 TGTTTGTTTATGTTCGTTTA
* *
333423 CGTTTGTTTATGTTCGTTTT
1 TGTTTGTTTATGTTCGTTTA
* * * *
333443 TGTTTATCTACGTTCGTTCA
1 TGTTTGTTTATGTTCGTTTA
*
333463 TTTTTGTT
1 TGTTTGTT
333471 CATTTATAAT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.09, C:0.12, G:0.18, T:0.62
Consensus pattern (20 bp):
TGTTTGTTTATGTTCGTTTA
Found at i:333543 original size:21 final size:22
Alignment explanation
Indices: 333507--333547 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
333497 GAACGCAGTG
333507 GAGGATCCAGAAATTTAAGAAT
1 GAGGATCCAGAAATTTAAGAAT
*
333529 GAGGGTCCA-AAATTTAAGA
1 GAGGATCCAGAAATTTAAGA
333548 TTTCTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (22 bp):
GAGGATCCAGAAATTTAAGAAT
Found at i:334183 original size:21 final size:20
Alignment explanation
Indices: 334156--334254 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
334146 AATCAGTTTC
334156 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
334177 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
334198 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
334218 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
334239 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
334255 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:334283 original size:20 final size:20
Alignment explanation
Indices: 334221--334490 Score: 251
Period size: 20 Copynumber: 13.5 Consensus size: 20
334211 CGATTTTCCA
* ** *
334221 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
334241 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
334261 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
334281 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
334301 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
334321 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
334341 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
334361 AAATCGTAAAG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
334381 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
334401 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
334421 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
334441 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
334461 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
334481 AAATCACAAC
1 AAATCGCAAC
334491 ACTGAAATTT
Statistics
Matches: 206, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 202 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:334307 original size:40 final size:40
Alignment explanation
Indices: 334260--334490 Score: 279
Period size: 40 Copynumber: 5.8 Consensus size: 40
334250 CGCGAACACA
* * *
334260 TAAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGAT-AATCCG
* * *
334300 TATATCGCAACGCGTATCCGTAAATCGCAATGCG-T-ATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAA--CGATAATCCG
* * * * *
334340 TATATCGCAACGCGTATCCGTAAATCGTAAAGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
*
334380 TAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
*
334420 TAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
* *
334460 TAAATCGCAACGAGAATCTGTAAATCACAAC
1 TAAATCGCAACGAGAATCCGTAAATCGCAAC
334491 ACTGAAATTT
Statistics
Matches: 177, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 172 0.97
42 3 0.02
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (40 bp):
TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
Found at i:335209 original size:24 final size:24
Alignment explanation
Indices: 335170--335216 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
335160 AAATTTGGTC
335170 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
335194 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
335217 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:337725 original size:18 final size:19
Alignment explanation
Indices: 337646--337794 Score: 178
Period size: 19 Copynumber: 8.4 Consensus size: 19
337636 GCAACGAGAG
337646 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
337665 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
337679 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
337699 AATCACAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
337717 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
337736 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
337754 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
337768 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
337787 AATCGCAA
1 AATCGCAA
337795 CGAGAATCGC
Statistics
Matches: 111, Mismatches: 6, Indels: 26
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.01
14 21 0.19
16 5 0.05
17 1 0.01
18 27 0.24
19 41 0.37
20 15 0.14
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:337776 original size:51 final size:56
Alignment explanation
Indices: 337674--337794 Score: 180
Period size: 51 Copynumber: 2.2 Consensus size: 56
337664 AAATCCCAAC
337674 ATGAAAATCGCAATGCGGAAATGAAAATCACAATGCGAAATGAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCACAA-GCGAAATGAAATCGCAATGCGAA
* *
337731 ATGAAAATCGCAATGC-GAAATG-AAATCGCAA-CGAGA-G-AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCACAAGCGAAATGAAATCGCAATGCGAA
337782 ATGAAAATCGCAA
1 ATGAAAATCGCAA
337795 CGAGAATCGC
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
51 27 0.44
52 1 0.02
53 4 0.06
55 8 0.13
56 6 0.10
57 16 0.26
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (56 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCACAAGCGAAATGAAATCGCAATGCGAA
Found at i:337803 original size:31 final size:31
Alignment explanation
Indices: 337699--337823 Score: 144
Period size: 37 Copynumber: 3.8 Consensus size: 31
337689 CGGAAATGAA
* *
337699 AATCACAATGCGAAATGAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAATCGCAA--C---A-GAG
337736 AATCGCAATGCGAAATGAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAATCGCAAC-AGAG
337768 AATCGCAATGCGAAATGAAAATCGCAAC-GAG
1 AATCGCAATGCGAAATG-AAATCGCAACAGAG
*
337799 AATCGCAATGCGAAATTAAATCGCA
1 AATCGCAATGCGAAATGAAATCGCA
337824 TTGCGATTCT
Statistics
Matches: 83, Mismatches: 4, Indels: 9
0.86 0.04 0.09
Matches are distributed among these distances:
30 8 0.10
31 19 0.23
32 19 0.23
33 11 0.13
35 1 0.01
37 25 0.30
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (31 bp):
AATCGCAATGCGAAATGAAATCGCAACAGAG
Found at i:337878 original size:19 final size:19
Alignment explanation
Indices: 337838--337916 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
337828 GATTCTCCCG
337838 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
337858 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
337877 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
337891 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
337910 TTGCGAT
1 TTGCGAT
337917 AGTCAATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.12
16 7 0.13
17 7 0.13
19 17 0.33
20 15 0.29
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:338042 original size:14 final size:14
Alignment explanation
Indices: 338023--338059 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
338013 CATCAATTAC
338023 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
338037 ACAAATCATCTTTT
1 ACAAATCAACTTTT
338051 ACAAATCAA
1 ACAAATCAA
338060 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:340051 original size:14 final size:14
Alignment explanation
Indices: 340032--340088 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
340022 GCGAAATGAA
*
340032 AATCGCAACGACAG
1 AATCGCAACGAAAG
340046 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
340063 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
340079 AATCGCAACG
1 AATCGCAACG
340089 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:340059 original size:33 final size:33
Alignment explanation
Indices: 340013--340105 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
340003 GCGAAACCAA
*
340013 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
340046 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
340079 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
340106 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:340070 original size:19 final size:19
Alignment explanation
Indices: 339976--340110 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
339966 TAGTTTACTT
* *
339976 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
339996 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
340015 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
340034 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
340048 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
340067 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
340081 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
340100 TCGCAATGCGA
1 TCGCAACGCGA
340111 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:340128 original size:19 final size:19
Alignment explanation
Indices: 340106--340234 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
340096 AAAATCGCAA
340106 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
340125 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
340139 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
340158 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
340172 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
340191 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
340210 TGCGATTTTAAGTTTCGAGT
1 TGCGATTTT-GGTTTCGCGT
340230 TGCGA
1 TGCGA
340235 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:340148 original size:33 final size:33
Alignment explanation
Indices: 340106--340197 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
340096 AAAATCGCAA
340106 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
340139 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
340172 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
340198 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:340456 original size:93 final size:93
Alignment explanation
Indices: 340285--340748 Score: 903
Period size: 93 Copynumber: 5.0 Consensus size: 93
340275 GATTGCATAC
340285 TTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
1 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
*
340349 GAATTGGCAACAACCGAACAAATTTACT
66 GAATTGGCAGCAACCGAACAAATTTACT
340377 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
1 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
340442 GAATTGGCAGCAACCGAACAAATTTACT
66 GAATTGGCAGCAACCGAACAAATTTACT
340470 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
1 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
340535 GAATTGGCAGCAACCGAACAAATTTACT
66 GAATTGGCAGCAACCGAACAAATTTACT
340563 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
1 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
340628 GAATTGGCAGCAACCGAACAAATTTACT
66 GAATTGGCAGCAACCGAACAAATTTACT
340656 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
1 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
*
340721 GAATTGGCAGCAACCGAATAAATTTACT
66 GAATTGGCAGCAACCGAACAAATTTACT
340749 AAGCAATCTA
Statistics
Matches: 369, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 7 0.02
93 362 0.98
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
GAATTGGCAGCAACCGAACAAATTTACT
Found at i:342524 original size:14 final size:14
Alignment explanation
Indices: 342505--342561 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
342495 TTTGGTTTCG
342505 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
342519 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
342538 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
342552 CGTTGCGATT
1 CGTTGCGATT
342562 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:342537 original size:33 final size:33
Alignment explanation
Indices: 342489--342569 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
342479 AAAATCGCAA
**
342489 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
342522 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
342555 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
342570 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:342572 original size:21 final size:21
Alignment explanation
Indices: 342546--342621 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
342536 CGCGTTGCGA
342546 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
342567 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
342587 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
342608 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
342622 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:342602 original size:41 final size:41
Alignment explanation
Indices: 342545--342622 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
342535 TCGCGTTGCG
*
342545 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
342586 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
342623 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:342741 original size:33 final size:33
Alignment explanation
Indices: 342699--342769 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
342689 AATACTAACT
*
342699 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
342732 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
342765 TGAAA
1 TGAAA
342770 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:343003 original size:22 final size:22
Alignment explanation
Indices: 342951--343005 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
342941 TGGTTGTGAG
**
342951 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
342973 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
342995 GGATTTCTTCG
1 GGATTTCTTCG
343006 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:343177 original size:20 final size:20
Alignment explanation
Indices: 343152--343305 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
343142 CTTTAAATAT
343152 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
343172 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
343194 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
343213 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
343233 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
343253 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
343273 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
343293 CGCGTTGCGATTT
1 CGCGTTGCGATTT
343306 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:343279 original size:40 final size:40
Alignment explanation
Indices: 343151--343305 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
343141 GCTTTAAATA
*
343151 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
343192 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
343232 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
343272 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
343306 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Done.