Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008003.1 Hibiscus syriacus cultivar Beakdansim tig00110462_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: 3297763
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 14
Found at i:211011 original size:20 final size:21
Alignment explanation
Indices: 210975--211016 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
210965 TGACATGATT
*
210975 TATATATATGTCATATTGAAA
1 TATATACATGTCATATTGAAA
210996 TATATACATG-CATATTGAAA
1 TATATACATGTCATATTGAAA
211016 T
1 T
211017 GTTATGAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (21 bp):
TATATACATGTCATATTGAAA
Found at i:216991 original size:21 final size:20
Alignment explanation
Indices: 216952--216989 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
216942 AGTATGTTCA
*
216952 GGGGGTATCGATTCCCCCTG
1 GGGGGAATCGATTCCCCCTG
*
216972 GGGGGAATCTATTCCCCC
1 GGGGGAATCGATTCCCCC
216990 CTAAAGGAAA
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:0.13, C:0.32, G:0.32, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCCCTG
Found at i:217428 original size:22 final size:21
Alignment explanation
Indices: 217403--217475 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
217393 ATATATGAAA
217403 TGATATATGAATATGCAATACG
1 TGATATATGAATATG-AATACG
* * **
217425 TGATACATGTGATATGATATTAAA
1 TGATATATG-AATATGA-A-TACG
*
217449 TGACATATGAATATGTAATACG
1 TGATATATGAATATG-AATACG
217471 TGATA
1 TGATA
217476 CATGTGATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
22 15 0.41
23 12 0.32
24 10 0.27
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (21 bp):
TGATATATGAATATGAATACG
Found at i:217440 original size:23 final size:22
Alignment explanation
Indices: 217413--217487 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 22
217403 TGATATATGA
217413 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* * *
217436 ATATG-ATA-TTAAATGACATATG
1 ATATGAATACGT-GAT-ACATGTG
217458 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
217482 ATATGA
1 ATATGA
217488 TATGAAATAC
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 1 0.03
21 5 0.12
22 7 0.17
23 15 0.38
24 6 0.15
25 5 0.12
26 1 0.03
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:217457 original size:46 final size:46
Alignment explanation
Indices: 217387--217499 Score: 178
Period size: 46 Copynumber: 2.5 Consensus size: 46
217377 GAGATAAGCT
*
217387 ATGTGA-AT-ATATGAAATGATATATGAATATGCAATACGTGATAC
1 ATGTGATATGATATGAAATGACATATGAATATGCAATACGTGATAC
* *
217431 ATGTGATATGATATTAAATGACATATGAATATGTAATACGTGATAC
1 ATGTGATATGATATGAAATGACATATGAATATGCAATACGTGATAC
217477 ATGTGATATGATATGAAAT-ACAT
1 ATGTGATATGATATGAAATGACAT
217500 GGTTACACAT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
44 6 0.10
45 6 0.10
46 51 0.81
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (46 bp):
ATGTGATATGATATGAAATGACATATGAATATGCAATACGTGATAC
Found at i:217699 original size:17 final size:17
Alignment explanation
Indices: 217677--217741 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
217667 ACAGATTACA
217677 TCCTTCGGGATGACAGG
1 TCCTTCGGGATGACAGG
*
217694 TCCTTCGGGA-CACAGATG
1 TCCTTCGGGATGACAG--G
*
217712 ACATCCTTCGGGATGATAGG
1 ---TCCTTCGGGATGACAGG
217732 TCCTTCGGGA
1 TCCTTCGGGA
217742 CATTTATACG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
16 4 0.10
17 20 0.51
18 1 0.03
20 1 0.03
21 10 0.26
22 3 0.08
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.25
Consensus pattern (17 bp):
TCCTTCGGGATGACAGG
Found at i:217705 original size:38 final size:38
Alignment explanation
Indices: 217648--217743 Score: 156
Period size: 38 Copynumber: 2.5 Consensus size: 38
217638 TATAAGATAT
* * *
217648 ATGATAGGTCCTACAGGACACAGATTACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
*
217686 ATGACAGGTCCTTCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
217724 ATGATAGGTCCTTCGGGACA
1 ATGATAGGTCCTTCGGGACA
217744 TTTATACGAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
Found at i:217933 original size:20 final size:21
Alignment explanation
Indices: 217897--217938 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
217887 TGACATGATT
*
217897 TATATATATGTCATATTGAAA
1 TATATACATGTCATATTGAAA
217918 TATATACATG-CATATTGAAA
1 TATATACATGTCATATTGAAA
217938 T
1 T
217939 GTTATGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (21 bp):
TATATACATGTCATATTGAAA
Found at i:219743 original size:51 final size:51
Alignment explanation
Indices: 219667--219768 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
219657 TTTTCAGAAT
* *
219667 TATTGATTCGTTGACGGAATTGTTGTATTAATTTATAAGTTGAGAGGAGAG
1 TATTGACTCGTTGACAGAATTGTTGTATTAATTTATAAGTTGAGAGGAGAG
219718 TATTGACTCGTTGACAGAATTGTTGTATTAATTTATAAGTTGAGAGGAGAG
1 TATTGACTCGTTGACAGAATTGTTGTATTAATTTATAAGTTGAGAGGAGAG
219769 ATGTGAAGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.30, C:0.05, G:0.26, T:0.38
Consensus pattern (51 bp):
TATTGACTCGTTGACAGAATTGTTGTATTAATTTATAAGTTGAGAGGAGAG
Found at i:220593 original size:16 final size:17
Alignment explanation
Indices: 220572--220623 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
220562 TTTTTAATTT
220572 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
220588 AATTACTCATAA-TTT--
1 AATTACTC-TAACTTTCA
*
220603 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
220620 AATT
1 AATT
220624 TATTTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 10 0.34
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:221169 original size:3 final size:3
Alignment explanation
Indices: 221161--221215 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
221151 CCCTAAAACA
221161 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
221209 A-T ATT AT
1 ATT ATT AT
221216 CATGAAAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:224189 original size:20 final size:20
Alignment explanation
Indices: 224164--224220 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
224154 TTTTTTGGTG
224164 TTGATATCCATATAAAAATA
1 TTGATATCCATATAAAAATA
* *
224184 TTGATA-CCATCTTAACAATA
1 TTGATATCCAT-ATAAAAATA
* *
224204 TTGATATTCGTATAAAA
1 TTGATATCCATATAAAA
224221 TTATCAATAC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 4 0.14
20 23 0.79
21 2 0.07
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (20 bp):
TTGATATCCATATAAAAATA
Found at i:233668 original size:2 final size:2
Alignment explanation
Indices: 233661--233686 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
233651 ATGAATTTCA
233661 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
233687 TAAAAACGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:234375 original size:29 final size:29
Alignment explanation
Indices: 234333--234426 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
234323 AAAATATTTA
* *
234333 ATATTTTATTCTTATCTTT-ACTTAAAATT
1 ATATTTTATTCTTAT-TTTAAATTAAAAAT
234362 ATATTTTATTCTTATTTTAAATTAAAAAT
1 ATATTTTATTCTTATTTTAAATTAAAAAT
** * *
234391 ATATTTTATAATTATATTAACTTGTAAAAAT
1 ATATTTTATTCTTATTTTAA-AT-TAAAAAT
234422 ATATT
1 ATATT
234427 AAAATATTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 3 0.05
29 40 0.71
30 1 0.02
31 12 0.21
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.54
Consensus pattern (29 bp):
ATATTTTATTCTTATTTTAAATTAAAAAT
Found at i:234627 original size:29 final size:30
Alignment explanation
Indices: 234590--234650 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
234580 AAATATATAC
*
234590 AAAATATATTTAATAAATTAAGACAAAAAT
1 AAAATATATTTAATAAATTAAAACAAAAAT
* *
234620 AAAA-ATATTTAATAAGTTAAAACTAAAAT
1 AAAATATATTTAATAAATTAAAACAAAAAT
234649 AA
1 AA
234651 GGAGATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (30 bp):
AAAATATATTTAATAAATTAAAACAAAAAT
Found at i:239461 original size:16 final size:16
Alignment explanation
Indices: 239442--239475 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
239432 CAATATACGA
239442 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
239458 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
239474 AT
1 AT
239476 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:239549 original size:16 final size:18
Alignment explanation
Indices: 239517--239550 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
239507 TATTAATGTA
239517 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
239535 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
239551 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:240248 original size:130 final size:130
Alignment explanation
Indices: 240015--240262 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
240005 AATTTTCTTC
* *
240015 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
240080 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
240145 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
240210 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
240263 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:240709 original size:35 final size:35
Alignment explanation
Indices: 240659--240734 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
240649 AATTGAATTT
* * *
240659 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATAA
*
240694 AATTGAATTACTTTGGAAATTGGGGTTTAGAATAA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATAA
240729 AATTGA
1 AATTGA
240735 GGACTGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.01, G:0.22, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATAA
Found at i:242025 original size:2 final size:2
Alignment explanation
Indices: 242018--242042 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
242008 CATTATACAT
242018 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 T
242043 GATTATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:242287 original size:6 final size:6
Alignment explanation
Indices: 242276--242327 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
242266 GTATTTTCAT
*
242276 GAATGA GAATGA GAATGA GAATGA GAATGA GAATGA GAATGA GACTGA
1 GAATGA GAATGA GAATGA GAATGA GAATGA GAATGA GAATGA GAATGA
242324 GAAT
1 GAAT
242328 TGAAAGAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.48, C:0.02, G:0.33, T:0.17
Consensus pattern (6 bp):
GAATGA
Found at i:252049 original size:21 final size:22
Alignment explanation
Indices: 252020--252060 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
252010 CGGGATAAAT
252020 TTTAAAAAA-ATTAGAAGATGA
1 TTTAAAAAATATTAGAAGATGA
* *
252041 TTTATAAAATTTTAGAAGAT
1 TTTAAAAAATATTAGAAGAT
252061 AAAAATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (22 bp):
TTTAAAAAATATTAGAAGATGA
Found at i:255130 original size:10 final size:10
Alignment explanation
Indices: 255113--255143 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
255103 ATTATAGTTA
255113 TTTA-TTTTT
1 TTTAGTTTTT
255122 TTTAGTTTTT
1 TTTAGTTTTT
255132 TTTAGTTTTT
1 TTTAGTTTTT
255142 TT
1 TT
255144 ATTACTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (10 bp):
TTTAGTTTTT
Found at i:256190 original size:10 final size:10
Alignment explanation
Indices: 256175--256208 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
256165 TTCATTTACC
256175 ATTTATTTTT
1 ATTTATTTTT
256185 ATTTATTTTT
1 ATTTATTTTT
* *
256195 ATCTATTTCT
1 ATTTATTTTT
256205 ATTT
1 ATTT
256209 TACTAACGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:266617 original size:105 final size:105
Alignment explanation
Indices: 266431--267341 Score: 1655
Period size: 105 Copynumber: 8.7 Consensus size: 105
266421 GGTTTTAGCT
266431 AGAG-CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
266495 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTC
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTC
266535 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
266600 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTC
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTC
*
266640 AGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
266705 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTC
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTC
266745 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
266810 TGAAGGGACCGCTGGTTGTCACCAAACATCTCTCCAATTC
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTC
*
266850 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAGCTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
266915 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTC
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTC
266955 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
267020 CGAAGGGACCGCTGTTTGTCACCAAACATCTCTCCAATTC
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTC
*
267060 AGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
267125 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCTAATTC
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTC
267165 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
267230 CGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTC
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTC
* *
267270 AGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCGACTTCACTG
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-G
267335 -CGAAGGG
65 ACGAAGGG
267342 TATCATACCC
Statistics
Matches: 784, Mismatches: 21, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
104 4 0.01
105 779 0.99
106 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTC
Found at i:267802 original size:11 final size:11
Alignment explanation
Indices: 267769--267809 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
267759 CTCTTTTTTT
267769 CATATATATATA
1 CATATATAT-TA
* *
267781 TATACATATTA
1 CATATATATTA
267792 CATATATATTA
1 CATATATATTA
267803 CATATAT
1 CATATAT
267810 GTTATTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (11 bp):
CATATATATTA
Found at i:270548 original size:29 final size:29
Alignment explanation
Indices: 270503--270560 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
270493 GTGTTGGCCG
*
270503 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* *
270532 TAGGTCGTCATGTCTTCCCGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
270561 AAGAGATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.36, G:0.26, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:270613 original size:10 final size:10
Alignment explanation
Indices: 270600--270646 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
270590 ACACGCTGGG
270600 CATCCGAGGC
1 CATCCGAGGC
*
270610 CATCCGAAAG-
1 CATCCG-AGGC
270620 CATCCGAGGC
1 CATCCGAGGC
270630 CATCCGAGGC
1 CATCCGAGGC
270640 CATCCGA
1 CATCCGA
270647 CCGAGCTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.26, C:0.38, G:0.26, T:0.11
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:270646 original size:20 final size:20
Alignment explanation
Indices: 270599--270636 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
270589 AACACGCTGG
270599 GCATCCGAGGCCATCCGAAA
1 GCATCCGAGGCCATCCGAAA
270619 GCATCCGAGGCCATCCGA
1 GCATCCGAGGCCATCCGA
270637 GGCCATCCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (20 bp):
GCATCCGAGGCCATCCGAAA
Found at i:270667 original size:33 final size:32
Alignment explanation
Indices: 270597--270704 Score: 130
Period size: 33 Copynumber: 3.4 Consensus size: 32
270587 CCAACACGCT
* *
270597 GGGCATCCGAGGCCATCCGA-AAGC-ATCCGA
1 GGGCATCCGAGGCCATCCGACGAGCTATGCGA
*
270627 GGCCATCCGAGGCCATCCGACCGAGCTATGCGA
1 GGGCATCCGAGGCCATCCGA-CGAGCTATGCGA
* *
270660 GGGCATCCGAGGTCAACCGAGCGAGCTATGCGA
1 GGGCATCCGAGGCCATCCGA-CGAGCTATGCGA
*
270693 GGGAATCCGAGG
1 GGGCATCCGAGG
270705 GCAACCGAGC
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
30 19 0.28
32 3 0.04
33 45 0.67
ACGTcount: A:0.24, C:0.31, G:0.34, T:0.11
Consensus pattern (32 bp):
GGGCATCCGAGGCCATCCGACGAGCTATGCGA
Found at i:270710 original size:33 final size:33
Alignment explanation
Indices: 270631--270717 Score: 129
Period size: 33 Copynumber: 2.6 Consensus size: 33
270621 ATCCGAGGCC
* * *
270631 ATCCGAGGCCATCCGACCGAGCTATGCGAGGGC
1 ATCCGAGGCCAACCGAGCGAGCTATGCGAGGGA
*
270664 ATCCGAGGTCAACCGAGCGAGCTATGCGAGGGA
1 ATCCGAGGCCAACCGAGCGAGCTATGCGAGGGA
*
270697 ATCCGAGGGCAACCGAGCGAG
1 ATCCGAGGCCAACCGAGCGAG
270718 GGTAGGTCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.25, C:0.29, G:0.36, T:0.10
Consensus pattern (33 bp):
ATCCGAGGCCAACCGAGCGAGCTATGCGAGGGA
Found at i:270798 original size:23 final size:23
Alignment explanation
Indices: 270764--270846 Score: 123
Period size: 23 Copynumber: 3.6 Consensus size: 23
270754 CTCGGTTGCC
270764 CTCGGATT-CCCTCGCATAGCTCG
1 CTCGG-TTGCCCTCGCATAGCTCG
270787 CTCGGTTGCCCTCGCATAGCTCG
1 CTCGGTTGCCCTCGCATAGCTCG
270810 CTCGGTTGCCCTCGCATAGCTCG
1 CTCGGTTGCCCTCGCATAGCTCG
* * *
270833 TTCGGATGGCCTCG
1 CTCGGTTGCCCTCG
270847 GTCGGATGGC
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
22 2 0.04
23 54 0.96
ACGTcount: A:0.10, C:0.37, G:0.27, T:0.27
Consensus pattern (23 bp):
CTCGGTTGCCCTCGCATAGCTCG
Found at i:270897 original size:14 final size:14
Alignment explanation
Indices: 270829--270896 Score: 118
Period size: 14 Copynumber: 4.9 Consensus size: 14
270819 CCTCGCATAG
*
270829 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
270843 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
270857 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
*
270871 CTCGGTCGGATGAC
1 CTCGGTCGGATGGC
270885 CTCGGTCGGATG
1 CTCGGTCGGATG
270897 AATGCCCAGC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 52 1.00
ACGTcount: A:0.09, C:0.28, G:0.40, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:272763 original size:18 final size:20
Alignment explanation
Indices: 272721--272767 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
272711 GGTATGATTA
272721 ATTTTTTTAAGGAATTTGATC
1 ATTTTTTTAA-GAATTTGATC
*
272742 ATTTTTTTAA-AATTT-ATG
1 ATTTTTTTAAGAATTTGATC
272760 ATTTTTTT
1 ATTTTTTT
272768 TGGATAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 5 0.20
21 10 0.40
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.62
Consensus pattern (20 bp):
ATTTTTTTAAGAATTTGATC
Found at i:284221 original size:3 final size:3
Alignment explanation
Indices: 284208--284250 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
284198 TTCCACACAA
*
284208 TTC TCTC TTC TTC TTC TTC TTC TTC TTC TTC CT- TTC TTC TTC T
1 TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
284251 CCACCGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 32 0.89
4 3 0.08
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:285707 original size:22 final size:22
Alignment explanation
Indices: 285677--285718 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
285667 AGTCGAGGGT
*
285677 TTCATAGGTCATTCGAGACATA
1 TTCACAGGTCATTCGAGACATA
*
285699 TTCACAGGTCATTCGGGACA
1 TTCACAGGTCATTCGAGACA
285719 AAATTTCATA
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:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (22 bp):
TTCACAGGTCATTCGAGACATA
Found at i:286276 original size:21 final size:21
Alignment explanation
Indices: 286250--286319 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
286240 GTAGCCGTAT
286250 TGTAGCAGTGCATCAGTACAC
1 TGTAGCAGTGCATCAGTACAC
*
286271 TGTAGCAGTACATCAGTACAC
1 TGTAGCAGTGCATCAGTACAC
*
286292 TGTAGCAGTGCATC-GATACAA
1 TGTAGCAGTGCATCAG-TACAC
286313 TGTAGCA
1 TGTAGCA
286320 CTGTTCATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 1 0.02
21 44 0.98
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (21 bp):
TGTAGCAGTGCATCAGTACAC
Found at i:290776 original size:4 final size:4
Alignment explanation
Indices: 290767--292059 Score: 1761
Period size: 4 Copynumber: 330.2 Consensus size: 4
290757 TGCCAACAGT
290767 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
*
290815 ACGC ACGC ACGC ACGC ACGC ACTC ACGC ACGC ACGC ACGC ACGC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
*
290863 ACGC -CGC ACGC ACGC ACGC ACGC ACGC ACTC ACGC ACGC ACGC A--C
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
*
290908 ACGC ACGC ACGC ACGC ACTC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
* * * *
290956 AC-C ACGC ACTC -CTC ACGC ACGC ACTC ACGC ACGC ACGC ACGC ACTC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
* * *
291002 ACGC ACGC ACGC ACGC ACGC ACTC ACGC ACGC ACTC ACGC ACGC ACTC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
* * * * *
291050 ACTC ACTC ACTC ACGC ACGC ACGC ACTC ACGC A--C ACGC ACTC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
* * *
291096 ACTC ACGC AC-C ACGC ACGC AACAGC ACGC ACGC ACTC ACGC ACGC ACTC
1 ACGC ACGC ACGC ACGC ACGC -AC-GC ACGC ACGC ACGC ACGC ACGC ACGC
* * * * *
291145 ACTC ACTC ACGC ACTC ACTC ACTC ACGC ACGC ACGC ACGC AC-C ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
* * * * *
291192 ACGC ACTC ACGC A--C ACGC ACTC ACTC AC-C ACTC ACTC A--C ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
* * * * * * *
291235 ACTTC ACTC ACGC ACGC ACTC ACGC ACTC ACTC ACTC ACGC ACGG ACGC
1 AC-GC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
* * *
291284 ACTC ACTC ACGC ACAGC ACGC ACGC ACCGC ACGC A-GC ACGC ACGC ACTC
1 ACGC ACGC ACGC AC-GC ACGC ACGC A-CGC ACGC ACGC ACGC ACGC ACGC
* * *
291333 ACGC ACTC AC-C ACGC ACGC ACGC ACTC ACGC ACTC ACGC ACGC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
* * * *
291380 ACTC ACGC ACTC ACTC ACGC ACGC ACG- ACGC ACGC ACGC ACTC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
*
291427 ACGC ACGC ACGC ACGC ACGC ACTC ACGC ACGC ACGC ACGC ACGC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
*
291475 ACTC ACGC AC-C ACGC ACGC ACGC ACGC ACGC ACGC AC-C ACGC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
* *
291521 ACGC ACGC ACTC ACGC ACTC ACGC ACGC ACGC ACGC ACGC ACGC AC-C
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
*
291568 ACTC ACGC ACGC ACGC ACGC ACGC ACGC AC-C ACGC ACGC AC-C AC-C
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
291613 ACGC ACGC ACGC ACGC ACGC ACGC AC-C AC-C ACGC ACGC ACGC A--C
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
* * *
291657 ACGC ACGC ACTC ACTC ACGC ACGC ACGC ACGC AC-C ACGC ACGC ACTC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
*
291704 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACTC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
*
291752 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACTC ACGC ACGC ACGC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
*
291800 ACGC ACGC ACGC ACGC ACTC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
*
291848 ACGC A--C ACGC ACGC ACGC ACGC ACTC ACGC ACGC ACGC ACGC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
*
291894 ACGC ACGC ACTC ACGC A--C ACGC ACGC ACGC ACGC ACGC ACGC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
*
291940 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACTC ACGC ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
* *
291988 ACGC ACGC ACGC ACGC ACGC ACTC ACGC ACGC ACGC ACTC AC-C ACGC
1 ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC ACGC
292035 ACGC ACGC ACGC ACGC ACGC ACGC A
1 ACGC ACGC ACGC ACGC ACGC ACGC A
292060 TATATGCGTA
Statistics
Matches: 1169, Mismatches: 84, Indels: 72
0.88 0.06 0.05
Matches are distributed among these distances:
2 14 0.01
3 57 0.05
4 1081 0.92
5 15 0.01
6 2 0.00
ACGTcount: A:0.26, C:0.50, G:0.19, T:0.05
Consensus pattern (4 bp):
ACGC
Found at i:292085 original size:35 final size:36
Alignment explanation
Indices: 292042--292149 Score: 157
Period size: 35 Copynumber: 3.1 Consensus size: 36
292032 CGCACGCACG
*** *
292042 CACGCACGCACGCACGCATATATGCGTACATGCGTA
1 CACGCACGCACGCATATATACATGCGTACATGCGTA
292078 CAC-CACGCACGCATATATACATGC-TACATGCGTA
1 CACGCACGCACGCATATATACATGCGTACATGCGTA
*
292112 CACGCACGCACGCATATATACATGCGTACATGCATA
1 CACGCACGCACGCATATATACATGCGTACATGCGTA
292148 CA
1 CA
292150 TGCGTACATG
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
34 13 0.20
35 38 0.58
36 14 0.22
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (36 bp):
CACGCACGCACGCATATATACATGCGTACATGCGTA
Found at i:292141 original size:8 final size:8
Alignment explanation
Indices: 292130--292286 Score: 233
Period size: 8 Copynumber: 19.6 Consensus size: 8
292120 CACGCATATA
292130 TACATGCG
1 TACATGCG
*
292138 TACATGCA
1 TACATGCG
292146 TACATGCG
1 TACATGCG
292154 TACATGCG
1 TACATGCG
292162 TACATGCG
1 TACATGCG
*
292170 TACATGCA
1 TACATGCG
292178 TACATGCG
1 TACATGCG
*
292186 TACATGCA
1 TACATGCG
292194 TACATGCG
1 TACATGCG
*
292202 TACATGCA
1 TACATGCG
292210 TACATGCG
1 TACATGCG
*
292218 TACATGCA
1 TACATGCG
292226 TACATGCG
1 TACATGCG
*
292234 TACATGCA
1 TACATGCG
292242 TACATGCG
1 TACATGCG
*
292250 TACATGCA
1 TACATGCG
292258 TACATGCG
1 TACATGCG
*
292266 TACATGCA
1 TACATGCG
*
292274 TACATGCA
1 TACATGCG
292282 TACAT
1 TACAT
292287 ATTATCTTGT
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 134 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (8 bp):
TACATGCG
Found at i:292150 original size:16 final size:16
Alignment explanation
Indices: 292129--292286 Score: 298
Period size: 16 Copynumber: 9.9 Consensus size: 16
292119 GCACGCATAT
292129 ATACATGCGTACATGC
1 ATACATGCGTACATGC
292145 ATACATGCGTACATGC
1 ATACATGCGTACATGC
*
292161 GTACATGCGTACATGC
1 ATACATGCGTACATGC
292177 ATACATGCGTACATGC
1 ATACATGCGTACATGC
292193 ATACATGCGTACATGC
1 ATACATGCGTACATGC
292209 ATACATGCGTACATGC
1 ATACATGCGTACATGC
292225 ATACATGCGTACATGC
1 ATACATGCGTACATGC
292241 ATACATGCGTACATGC
1 ATACATGCGTACATGC
292257 ATACATGCGTACATGC
1 ATACATGCGTACATGC
*
292273 ATACATGCATACAT
1 ATACATGCGTACAT
292287 ATTATCTTGT
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 139 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (16 bp):
ATACATGCGTACATGC
Found at i:299030 original size:15 final size:16
Alignment explanation
Indices: 298992--299032 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
298982 GAATACTAAT
298992 TTTAAATATATTTAACA
1 TTTAAA-ATATTTAACA
*
299009 ATTAAAATATTT-ACA
1 TTTAAAATATTTAACA
299024 TTTAAAATA
1 TTTAAAATA
299033 ATTAGACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 11 0.50
16 6 0.27
17 5 0.23
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTAAAATATTTAACA
Found at i:314545 original size:24 final size:24
Alignment explanation
Indices: 314515--314593 Score: 131
Period size: 24 Copynumber: 3.3 Consensus size: 24
314505 CTTTTCGGCG
*
314515 GCCATTCATTCGCTGTTAACAGGC
1 GCCATTCATTCGCTGTTATCAGGC
314539 GCCATTCATTCGCTGTTATCAGGC
1 GCCATTCATTCGCTGTTATCAGGC
*
314563 GGCATTCATTCGCTGTTATCAGGC
1 GCCATTCATTCGCTGTTATCAGGC
*
314587 GGCATTC
1 GCCATTC
314594 TGGTATCAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.32
Consensus pattern (24 bp):
GCCATTCATTCGCTGTTATCAGGC
Found at i:321466 original size:15 final size:15
Alignment explanation
Indices: 321449--321478 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
321439 ATCTTTCTTT
321449 CCCGTTCTGGATTTTC
1 CCCG-TCTGGATTTTC
321465 CCCGTCTGGATTTT
1 CCCGTCTGGATTTT
321479 GATCTGCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.07, C:0.30, G:0.20, T:0.43
Consensus pattern (15 bp):
CCCGTCTGGATTTTC
Found at i:327540 original size:2 final size:2
Alignment explanation
Indices: 327535--327566 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
327525 TGCGCGTGTG
*
327535 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
327567 ATTTTTTGGT
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:329531 original size:6 final size:6
Alignment explanation
Indices: 329520--329544 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
329510 CAAAAGTCAT
329520 GGAGAA GGAGAA GGAGAA GGAGAA G
1 GGAGAA GGAGAA GGAGAA GGAGAA G
329545 CCAAGTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GGAGAA
Found at i:332015 original size:16 final size:16
Alignment explanation
Indices: 331974--332034 Score: 86
Period size: 16 Copynumber: 3.6 Consensus size: 16
331964 TCACGGAATG
331974 TAAGATTACCAGTGGGAA
1 TAAGATTACCA--GGGAA
331992 TGTAAGATTACCAGGGAA
1 --TAAGATTACCAGGGAA
332010 TAAGATTACCAGGGAA
1 TAAGATTACCAGGGAA
332026 TAAGATTAC
1 TAAGATTAC
332035 TGAGAATGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
16 25 0.61
18 5 0.12
20 11 0.27
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (16 bp):
TAAGATTACCAGGGAA
Found at i:351696 original size:22 final size:19
Alignment explanation
Indices: 351652--351697 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
351642 TTCACTTCTC
351652 TAATTAGATTTTTTTTAAT
1 TAATTAGATTTTTTTTAAT
351671 TAATTAGATATTTTATTTCAAT
1 TAATTAGAT-TTTT-TTT-AAT
351693 TAATT
1 TAATT
351698 TATTTCCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.38
20 4 0.17
21 3 0.12
22 8 0.33
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
TAATTAGATTTTTTTTAAT
Found at i:360556 original size:29 final size:29
Alignment explanation
Indices: 360514--360599 Score: 136
Period size: 29 Copynumber: 3.0 Consensus size: 29
360504 ATGTTTGGTG
* ** *
360514 TATATTAATTCCAAACAAATTTCATGCTC
1 TATAGTAATTCCAATTAAATTACATGCTC
360543 TATAGTAATTCCAATTAAATTACATGCTC
1 TATAGTAATTCCAATTAAATTACATGCTC
360572 TATAGTAATTCCAATTAAATTACATGCT
1 TATAGTAATTCCAATTAAATTACATGCT
360600 TACATAGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (29 bp):
TATAGTAATTCCAATTAAATTACATGCTC
Found at i:372877 original size:35 final size:35
Alignment explanation
Indices: 372830--372915 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
372820 AAAACAGTCA
* * *
372830 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
372865 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
372900 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
372916 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:372909 original size:21 final size:21
Alignment explanation
Indices: 372884--372926 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
372874 TTCTAAACCC
372884 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
372905 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
372926 T
1 T
372927 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:373081 original size:16 final size:18
Alignment explanation
Indices: 373049--373082 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
373039 TATTAATGTA
373049 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
373067 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
373083 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:373756 original size:131 final size:130
Alignment explanation
Indices: 373552--373800 Score: 417
Period size: 131 Copynumber: 1.9 Consensus size: 130
373542 AATTTTCTTC
* *
373552 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCACGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACATGTGTCACCAATAACACATATCACGATCATGTGCTAACACATGTCAGAT
*
373617 CCTGATTAAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAA
66 CCTAATT-AAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAA
373682 A
130 A
* * * * *
373683 TAATTAGGTGGTAACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACATGTGTCACCAATAACACATATCACGATCATGTGCTAACACATGTCAGAT
373748 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
373801 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
130 46 0.42
131 64 0.58
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (130 bp):
TAATTAGGAGGTAACATGTGTCACCAATAACACATATCACGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:385562 original size:23 final size:24
Alignment explanation
Indices: 385536--385587 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
385526 GTTTGGCTCA
385536 TTTAGCT-TTTG-CAAACATGTTCG
1 TTTAGCTGTTTGTC-AACATGTTCG
* *
385559 TTTA-ATGTTTGTCAATATGTTCG
1 TTTAGCTGTTTGTCAACATGTTCG
385582 TTTAGC
1 TTTAGC
385588 ATTCGTGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
22 1 0.04
23 21 0.91
24 1 0.04
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.48
Consensus pattern (24 bp):
TTTAGCTGTTTGTCAACATGTTCG
Found at i:391526 original size:20 final size:20
Alignment explanation
Indices: 391503--391549 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
391493 AATATGTAAA
391503 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
* *
391523 TCGCAACATAAAAGTTAAAT
1 TCGCAACACAAAAGTCAAAT
391543 TCGCAAC
1 TCGCAAC
391550 GCGGAATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (20 bp):
TCGCAACACAAAAGTCAAAT
Found at i:391577 original size:19 final size:19
Alignment explanation
Indices: 391517--391588 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 19
391507 AACACAAAAG
* *
391517 TCAAATTCGCAACATAAAAGT
1 TCAAATTCGCAAC-T-GAATT
*
391538 T-AAATTCGCAACGCGGAATT
1 TCAAATTCGCAA--CTGAATT
391558 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
391577 TCAAATTCGCAA
1 TCAAATTCGCAA
391589 TTAGTTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 18 0.41
20 14 0.32
21 11 0.25
22 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:391784 original size:14 final size:15
Alignment explanation
Indices: 391765--391802 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
391755 TTCCCATCTC
391765 TAATTTTTTT-TACA
1 TAATTTTTTTATACA
*
391779 TAATTTTATTTATATA
1 TAATTTT-TTTATACA
391795 TAATTTTT
1 TAATTTTT
391803 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTATACA
Found at i:394870 original size:6 final size:6
Alignment explanation
Indices: 394859--394887 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
394849 AAGCAAAAGG
394859 AAATCA AAATCA AAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATC
394888 CCAATCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:395235 original size:14 final size:14
Alignment explanation
Indices: 395197--395235 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
395187 AAAGTCAAAT
395197 TCGCAACGCG-AAA
1 TCGCAACGCGAAAA
395210 TCGCAAAC-CGAAAA
1 TCGC-AACGCGAAAA
395224 TCGCAACGCGAA
1 TCGCAACGCGAA
395236 TTTGACTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.41, C:0.31, G:0.21, T:0.08
Consensus pattern (14 bp):
TCGCAACGCGAAAA
Found at i:395401 original size:37 final size:37
Alignment explanation
Indices: 395359--395494 Score: 112
Period size: 37 Copynumber: 3.5 Consensus size: 37
395349 CAAATCAACT
395359 TTTACAAATCAATTAAACAAGCAAAAAATAAATCTTA
1 TTTACAAATCAATTAAACAAGCAAAAAATAAATCTTA
* * *** *
395396 TTTACACATCAAATTAAACAAATCAACTTTTATAAATC-AA
1 TTTACAAATC-AATTAAAC-AAGCAA--AAAATAAATCTTA
* *
395436 CTTTTACAAATAAATTAAACAAGCAAAAAATAATTCTTA
1 --TTTACAAATCAATTAAACAAGCAAAAAATAAATCTTA
* **
395475 TTTCCTCATCAATTAAACAA
1 TTTACAAATCAATTAAACAA
395495 ATCAACTTTC
Statistics
Matches: 74, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
37 25 0.34
38 14 0.19
39 6 0.08
40 6 0.08
41 15 0.20
42 8 0.11
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.31
Consensus pattern (37 bp):
TTTACAAATCAATTAAACAAGCAAAAAATAAATCTTA
Found at i:395432 original size:14 final size:14
Alignment explanation
Indices: 395413--395446 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
395403 ATCAAATTAA
395413 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
395427 ATAAATCAACTTTT
1 ACAAATCAACTTTT
395441 ACAAAT
1 ACAAAT
395447 AAATTAAACA
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:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:395485 original size:79 final size:78
Alignment explanation
Indices: 395350--395503 Score: 263
Period size: 79 Copynumber: 2.0 Consensus size: 78
395340 TTAAAACAAC
*
395350 AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAATCTTATTTACACATCAAATTAAAC
1 AAATCAACTTTTACAAATAAATTAAACAAGCAAAAAATAAATCTTATTTACACATC-AATTAAAC
395415 AAATCAACTTTTAT
65 AAATCAACTTTTAT
* * *
395429 AAATCAACTTTTACAAATAAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTAAACA
1 AAATCAACTTTTACAAATAAATTAAACAAGCAAAAAATAAATCTTATTTACACATCAATTAAACA
395494 AATCAACTTT
66 AATCAACTTT
395504 CAATGTAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
78 19 0.27
79 52 0.73
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (78 bp):
AAATCAACTTTTACAAATAAATTAAACAAGCAAAAAATAAATCTTATTTACACATCAATTAAACA
AATCAACTTTTAT
Found at i:396474 original size:2 final size:2
Alignment explanation
Indices: 396463--396504 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
396453 TATGTTGTTT
396463 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
396504 T
1 T
396505 TAGTGAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:396928 original size:21 final size:21
Alignment explanation
Indices: 396884--397002 Score: 107
Period size: 21 Copynumber: 5.7 Consensus size: 21
396874 ATGAATCGGG
* * * *
396884 CTCTTGAACGACGAGCGAGAC
1 CTCTTGAACGATGAGAGGGGC
*
396905 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATGAGAGGGGC
*
396926 CTCTTGAACGGTGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
396947 TTCTTCG-ATGATGAGAGGGGC
1 CTCTT-GAACGATGAGAGGGGC
**
396968 CTCTTGAACGAT-AGGAGACGC
1 CTCTTGAACGATGA-GAGGGGC
*
396989 CTCTTGAATGATGA
1 CTCTTGAACGATGA
397003 TAGGTGCATC
Statistics
Matches: 79, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.03
21 75 0.95
22 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:397000 original size:42 final size:42
Alignment explanation
Indices: 396884--397002 Score: 118
Period size: 42 Copynumber: 2.8 Consensus size: 42
396874 ATGAATCGGG
* * *
396884 CTCTTGAACGACGAGCGA-GACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATGAGAGACG-CCTCTTGAATGATGACAGGGGC
* ** * *
396926 CTCTTGAACGGTGAGAGGGGCTTCTTCG-ATGATGAGAGGGGC
1 CTCTTGAACGATGAGAGACGCCTCTT-GAATGATGACAGGGGC
396968 CTCTTGAACGAT-AGGAGACGCCTCTTGAATGATGA
1 CTCTTGAACGATGA-GAGACGCCTCTTGAATGATGA
397003 TAGGTGCATC
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
41 2 0.03
42 58 0.94
43 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGATGAGAGACGCCTCTTGAATGATGACAGGGGC
Found at i:399243 original size:20 final size:20
Alignment explanation
Indices: 399204--399243 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
399194 TGCGATTTTG
* * *
399204 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGAATTTAAGTTTC
399224 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
399244 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:399596 original size:20 final size:21
Alignment explanation
Indices: 399571--399617 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
399561 TATGAGAGAT
399571 GGAGATAGGCA-GATTTCGTC
1 GGAGATAGGCAGGATTTCGTC
* *
399591 GGAGATGGGGATGGATTTCGTC
1 GGAGATAGGCA-GGATTTCGTC
399613 GGAGA
1 GGAGA
399618 CGGGGACGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
22 14 0.61
ACGTcount: A:0.23, C:0.11, G:0.43, T:0.23
Consensus pattern (21 bp):
GGAGATAGGCAGGATTTCGTC
Found at i:399609 original size:22 final size:22
Alignment explanation
Indices: 399582--399628 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
399572 GAGATAGGCA
* *
399582 GATTTCGTCGGAGATGGGGATG
1 GATTTCGTCGGAGACGGGGACG
399604 GATTTCGTCGGAGACGGGGACG
1 GATTTCGTCGGAGACGGGGACG
399626 GAT
1 GAT
399629 GTCGCCGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.13, G:0.45, T:0.23
Consensus pattern (22 bp):
GATTTCGTCGGAGACGGGGACG
Found at i:399768 original size:20 final size:20
Alignment explanation
Indices: 399743--399896 Score: 136
Period size: 20 Copynumber: 7.7 Consensus size: 20
399733 TTGTGTTTCA
399743 CGTTGCGAATTTGACTTTTG
1 CGTTGCGAATTTGACTTTTG
399763 CGTTGCGAATTTGACTTTTG
1 CGTTGCGAATTTGACTTTTG
* * * *
399783 TGTTGCGAATTTGGCTATCG
1 CGTTGCGAATTTGACTTTTG
*
399803 CGTTGCGAATTTGACTTATG
1 CGTTGCGAATTTGACTTTTG
* * *
399823 TGTTGCG-ATTT-ACAAATTCG
1 CGTTGCGAATTTGAC--TTTTG
*
399843 CGTTGCGAATTTGACTTATG
1 CGTTGCGAATTTGACTTTTG
* *
399863 TGTTGCG-ATTT-ACATATTCG
1 CGTTGCGAATTTGAC-T-TTTG
*
399883 CGTTGCAAATTTGA
1 CGTTGCGAATTTGA
399897 AAAATGCAAT
Statistics
Matches: 104, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
18 4 0.04
19 9 0.09
20 80 0.77
21 8 0.08
22 3 0.03
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (20 bp):
CGTTGCGAATTTGACTTTTG
Found at i:399788 original size:40 final size:39
Alignment explanation
Indices: 399744--399896 Score: 184
Period size: 40 Copynumber: 3.8 Consensus size: 39
399734 TGTGTTTCAC
* *
399744 GTTGCGAATTTGAC-TTTTGCGTTGCGAATTTGACTTTTGT
1 GTTGCG-ATTT-ACATTTCGCGTTGCGAATTTGACTTATGT
* *
399784 GTTGCGAATTTGGC-TATCGCGTTGCGAATTTGACTTATGT
1 GTTGCG-ATTT-ACATTTCGCGTTGCGAATTTGACTTATGT
*
399824 GTTGCGATTTACAAATTCGCGTTGCGAATTTGACTTATGT
1 GTTGCGATTTAC-ATTTCGCGTTGCGAATTTGACTTATGT
*
399864 GTTGCGATTTACATATTCGCGTTGCAAATTTGA
1 GTTGCGATTTACAT-TTCGCGTTGCGAATTTGA
399897 AAAATGCAAT
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 95 0.94
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (39 bp):
GTTGCGATTTACATTTCGCGTTGCGAATTTGACTTATGT
Found at i:399913 original size:80 final size:80
Alignment explanation
Indices: 399762--399931 Score: 200
Period size: 80 Copynumber: 2.1 Consensus size: 80
399752 TTTGACTTTT
* * * *** ***
399762 GCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGGCTATCGCGTTGCGAATTTGACTTATGTGTT
1 GCGTTGCGAATTTGACTTATGTGTTGCGAATTTGACTATCGCGTTGCAAATTTGAAAAATGCAAT
399827 GCGATTTACAAATTC
66 GCGATTTACAAATTC
399842 GCGTTGCGAATTTGACTTATGTGTTGCG-ATTT-ACATATTCGCGTTGCAAATTTGAAAAATGCA
1 GCGTTGCGAATTTGACTTATGTGTTGCGAATTTGAC-TA-TCGCGTTGCAAATTTGAAAAATGCA
* * *
399905 ATGTGATTTATATATTC
64 ATGCGATTTACAAATTC
399922 GCGTTGCGAA
1 GCGTTGCGAA
399932 ATTGGAGTTC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 1 0.01
79 6 0.08
80 69 0.91
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (80 bp):
GCGTTGCGAATTTGACTTATGTGTTGCGAATTTGACTATCGCGTTGCAAATTTGAAAAATGCAAT
GCGATTTACAAATTC
Found at i:400235 original size:41 final size:41
Alignment explanation
Indices: 400189--400273 Score: 134
Period size: 41 Copynumber: 2.1 Consensus size: 41
400179 GACTTTGTCC
* *
400189 TGATTAATTCAGATTAATCGGCATTACATACTTGATTTTAG
1 TGATTAATTCAGATTAACCGGCATTACATACATGATTTTAG
* *
400230 TGATTAATTCAGATTAACCGGTATTATATACATGATTTTAG
1 TGATTAATTCAGATTAACCGGCATTACATACATGATTTTAG
400271 TGA
1 TGA
400274 GTGAGTCTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (41 bp):
TGATTAATTCAGATTAACCGGCATTACATACATGATTTTAG
Found at i:403203 original size:31 final size:32
Alignment explanation
Indices: 403168--403257 Score: 82
Period size: 31 Copynumber: 2.9 Consensus size: 32
403158 AAAAATATTT
*
403168 TTTATTATTTCGGGTCGGGTCGGGTTTTAAA-
1 TTTATTATTTCGGGTCGGATCGGGTTTTAAAC
* * *
403199 TTTA-TATATTCGGGTTGGTTCGGG--TGAAAC
1 TTTATTAT-TTCGGGTCGGATCGGGTTTTAAAC
403229 TTTATT-TTGGTCGGGTCGGATCGGGTTTT
1 TTTATTATT--TCGGGTCGGATCGGGTTTT
403258 TTTAAGTGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
29 5 0.11
30 8 0.17
31 32 0.70
33 1 0.02
ACGTcount: A:0.14, C:0.10, G:0.31, T:0.44
Consensus pattern (32 bp):
TTTATTATTTCGGGTCGGATCGGGTTTTAAAC
Found at i:403548 original size:38 final size:38
Alignment explanation
Indices: 403466--403551 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
403456 TTTATTTTGT
* *
403466 TTGGGTC-GGATTTTTTAAGTGTGATATTCGGATCGAG
1 TTGGGTCGGGTTTTTTTAAGTGTAATATTCGGATCGAG
* *
403503 TTAGGTCGGGTTTTTTTATGTGTAATATTCAGG-TC-AG
1 TTGGGTCGGGTTTTTTTAAGTGTAATATTC-GGATCGAG
403540 ATTGGGTCGGGT
1 -TTGGGTCGGGT
403552 CGGGTTCGGG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
37 8 0.20
38 31 0.76
39 2 0.05
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (38 bp):
TTGGGTCGGGTTTTTTTAAGTGTAATATTCGGATCGAG
Found at i:404593 original size:44 final size:44
Alignment explanation
Indices: 404538--404621 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
404528 ATTTAACATG
* *
404538 TCTGCGAACCAAATAGAATATGAAATTGGA-TTCAAATTCCATTT
1 TCTGCCAACCAAACAGAATATGAAATTGGATTTC-AATTCCATTT
404582 TCTGCCAACCAAACAGAATATGAAATTGGATTTCAATTCC
1 TCTGCCAACCAAACAGAATATGAAATTGGATTTCAATTCC
404622 TACATATTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 34 0.92
45 3 0.08
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (44 bp):
TCTGCCAACCAAACAGAATATGAAATTGGATTTCAATTCCATTT
Found at i:406405 original size:225 final size:222
Alignment explanation
Indices: 406011--406453 Score: 746
Period size: 225 Copynumber: 2.0 Consensus size: 222
406001 GTAAATTATC
* * *
406011 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAATATATTATTATTATCTTTAGTTA
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAACATATTATTATTATATTTAGTTA
*
406076 ATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
66 ATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTTTG
*
406141 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
131 TGTAAATGAAATAATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
406206 ACATAAATTACATAACTTTCAAAAAGTA
196 ACATAAATTACATAACTTT-AAAAAGTA
*
406234 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TG-AAACATA-TTATTATTATATTTAG
*
406299 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTAT-AAATATCAAAACAATCAAAT-ATAAT
63 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAT-AT
* *
406362 TTTGTGTAAATTAAATAATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
127 TTTGTGTAAATGAAATAATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
406427 TGAAACATAAATTACATAACTTTAAAA
192 TGAAACATAAATTACATAACTTTAAAA
406454 GCAGTTTTAA
Statistics
Matches: 207, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
223 36 0.17
224 8 0.04
225 112 0.54
226 51 0.25
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (222 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAACATATTATTATTATATTTAGTTA
ATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTTTG
TGTAAATGAAATAATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
ACATAAATTACATAACTTTAAAAAGTA
Found at i:406559 original size:21 final size:20
Alignment explanation
Indices: 406519--406565 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
406509 CGATATACCA
406519 GGTAAAAATATGATAAAACC
1 GGTAAAAATATGATAAAACC
406539 GGTAACAAA-ATGATAAAAACC
1 GGTAA-AAATATGAT-AAAACC
406560 GGTAAA
1 GGTAAA
406566 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (20 bp):
GGTAAAAATATGATAAAACC
Found at i:406709 original size:20 final size:19
Alignment explanation
Indices: 406686--406732 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
406676 CGATATAACA
406686 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
406706 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
406726 GGTAAAA
1 GGTAAAA
406733 TGATACCGGA
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:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:406734 original size:17 final size:18
Alignment explanation
Indices: 406690--406737 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
406680 ATAACAGGTA
406690 AAAATATGATAAAACCGGT
1 AAAA-ATGATAAAACCGGT
406709 AACAAAATGATAAAACCGGT
1 -A-AAAATGATAAAACCGGT
406729 -AAAATGATA
1 AAAAATGATA
406738 CCGGATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (18 bp):
AAAAATGATAAAACCGGT
Found at i:409004 original size:21 final size:21
Alignment explanation
Indices: 408957--409021 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
408947 AAGACAATCA
* *
408957 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
408979 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
408999 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
409020 AG
1 AG
409022 GAATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:409094 original size:33 final size:33
Alignment explanation
Indices: 409052--409117 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
409042 AAATAGATGG
*
409052 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
409085 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
409118 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:410919 original size:19 final size:19
Alignment explanation
Indices: 410895--410943 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
410885 AATGTCGAGT
410895 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
410914 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
410933 TATTTTTGTAT
1 TAATTTTGTAT
410944 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:411638 original size:197 final size:199
Alignment explanation
Indices: 411062--412417 Score: 2548
Period size: 198 Copynumber: 6.9 Consensus size: 199
411052 CAATATGGCC
* * *
411062 AACAGGGTGCA-CCATAAAGTGTCGATCCATATA-AAAAAGTGTCAATCCTAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
411125 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
411190 AATATGTCTAAA-AATGTGTCGACACTAATATAGTTTGTGTCGATAC-TTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
411253 GGAA
196 GGAA
411257 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
411322 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
411387 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
411452 TGGAA
195 TGGAA
411457 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
411521 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACC-GTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
411585 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
411650 GGAA
196 GGAA
411654 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
411719 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
411783 AATATGTCT-AATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
411847 GGAA
196 GGAA
411851 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAA--ATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
411912 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
411977 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCAATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
412042 GG-A
196 GGAA
412045 AACAAGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
412109 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
412172 AATATGTCTAAATAATGTGTCGACACTAATATAG-TTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
412236 GGAA
196 GGAA
412240 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
412305 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
412370 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
412418 AATTTAAATA
Statistics
Matches: 1138, Mismatches: 5, Indels: 32
0.97 0.00 0.03
Matches are distributed among these distances:
193 85 0.07
194 77 0.07
195 144 0.13
196 127 0.11
197 271 0.24
198 314 0.28
199 64 0.06
200 56 0.05
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
GGAA
Found at i:413879 original size:3 final size:3
Alignment explanation
Indices: 413871--413942 Score: 72
Period size: 3 Copynumber: 24.0 Consensus size: 3
413861 AAGCTGACGA
* * * ** * *
413871 GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT GAC GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
413919 GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT
413943 CCAACAAGTA
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:413908 original size:27 final size:28
Alignment explanation
Indices: 413857--413941 Score: 100
Period size: 27 Copynumber: 3.0 Consensus size: 28
413847 GGTCGCAGAA
*
413857 GATGAAGCTGACGAGATGATGATGATGAC
1 GATGAAGCTGA-GAGATGAAGATGATGAC
*
413886 GATGAAGCTG-GCGATGAAGATGATGAC
1 GATGAAGCTGAGAGATGAAGATGATGAC
* *
413913 GATGATGATGATGATGATGAAGATGATGA
1 GATGAAGCTGA-GA-GATGAAGATGATGA
413942 TCCAACAAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
27 23 0.48
29 11 0.23
30 14 0.29
ACGTcount: A:0.35, C:0.07, G:0.35, T:0.22
Consensus pattern (28 bp):
GATGAAGCTGAGAGATGAAGATGATGAC
Found at i:415728 original size:181 final size:183
Alignment explanation
Indices: 415133--415825 Score: 1216
Period size: 181 Copynumber: 3.8 Consensus size: 183
415123 ACAAAGTTTC
* * *
415133 ACACTTT-TAATATTGTGTCTGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* *
415197 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
*
415260 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAAACCTATATCG
128 TATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTAC-AACCTATATCG
*
415317 ACACTTTCTAATATTGTGTCGGTACTTTATATCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
415382 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
415447 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
415500 ACACTTTCTAATATTGTGTCGATACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
415565 AAAAAAGTGTCGACATTTACACATCGGAACCC-TATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
415629 AACCGGTATAAAAATACCGGTTTTATGAGCG-ATAGGTCTACAACCTTTATCG
131 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
415681 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
415746 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
415811 AACCGGTATAAAAAT
131 AACCGGTATAAAAAT
415826 GTGTCGATAC
Statistics
Matches: 491, Mismatches: 14, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
181 115 0.23
182 108 0.22
183 106 0.22
184 94 0.19
185 65 0.13
187 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (183 bp):
ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:415813 original size:364 final size:365
Alignment explanation
Indices: 415133--415825 Score: 1216
Period size: 364 Copynumber: 1.9 Consensus size: 365
415123 ACAAAGTTTC
415133 ACACTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCATTTA
1 ACACTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCATTTA
415198 AAAAAGTGTCGATTGAAAAAACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAGTGTCGATT--AAAAACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
415263 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAAACCTATATCGACACTTTCTAA
129 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAAACCTATATCGACACTTTCTAA
415328 TATTGTGTCGGTACTTTATATCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTC
194 TATTGTGTCGGTACTTTATATCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTC
415393 GACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAA
259 GACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAA
415458 AAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
324 AAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
415500 ACACTTTCTAATATTGTGTC-GATACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT
1 ACACTTT-TAATATTGTGTCTG-TACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCATT
* * *
415564 TAAAAAAGTGTCGACATT-TACACATCGGAACCC-TATTTATAATGTAATAGATAATTTTGTAAT
64 TAAAAAAGTGTCG--ATTAAAAACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAAT
*
415627 ATAACCGGTATAAAAATACCGGTTTTATGAGCG-ATAGGTCTAC-AACCTTTATCGACACTTTCT
127 ATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAAACCTATATCGACACTTTCT
* *
415690 AATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTG
192 AATATTGTGTCGGTACTTTATATCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTG
415755 TCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTAT
257 TCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTAT
415820 AAAAAT
322 AAAAAT
415826 GTGTCGATAC
Statistics
Matches: 313, Mismatches: 9, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
364 153 0.49
365 10 0.03
366 61 0.19
367 21 0.07
368 65 0.21
370 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (365 bp):
ACACTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCATTTA
AAAAAGTGTCGATTAAAAACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAA
CCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAAACCTATATCGACACTTTCTAATA
TTGTGTCGGTACTTTATATCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGA
CATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAAA
ATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:415857 original size:22 final size:22
Alignment explanation
Indices: 415821--415862 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
415811 AACCGGTATA
415821 AAAATGTGTCGATACCTTTTTAT
1 AAAATGTGTCGATA-CTTTTTAT
*
415844 AAAA-GTGTCTATACTTTTT
1 AAAATGTGTCGATACTTTTT
415863 CACTGTGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (22 bp):
AAAATGTGTCGATACTTTTTAT
Found at i:418740 original size:22 final size:23
Alignment explanation
Indices: 418685--418747 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
418675 ATAGGTAAAC
* *
418685 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCACTT
* *
418708 ATATAATGTAATAGGTATCATTT
1 ATATAATGTAATAGGTAGCACTT
418731 ATA-AATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
418748 TGGTTATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCACTT
Found at i:419055 original size:25 final size:24
Alignment explanation
Indices: 419022--419071 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
419012 ACAACAAATC
*
419022 AATTAACATTGTTGTGGGTACATT
1 AATTAACATTGTTATGGGTACATT
419046 AATTGAACATTGTTATGGGTACATT
1 AATT-AACATTGTTATGGGTACATT
419071 A
1 A
419072 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (24 bp):
AATTAACATTGTTATGGGTACATT
Found at i:419340 original size:18 final size:18
Alignment explanation
Indices: 419319--419355 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
419309 GTAATTGGAG
419319 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
419337 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
419355 T
1 T
419356 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:419363 original size:24 final size:24
Alignment explanation
Indices: 419311--419357 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
419301 TTTCATATGT
* *
419311 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
419335 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
419358 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:419656 original size:39 final size:39
Alignment explanation
Indices: 419613--419735 Score: 228
Period size: 39 Copynumber: 3.2 Consensus size: 39
419603 TCCGATGCTC
* *
419613 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
419652 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
419691 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
419730 ATCAAA
1 ATCAAA
419736 TCTACAACTT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
Found at i:420187 original size:22 final size:22
Alignment explanation
Indices: 420134--420192 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
420124 ATAGGTAAAC
420134 ATATGTAATAGGTAACCCTTAT
1 ATATGTAATAGGTAACCCTTAT
* **
420156 ATAATGTAATAGGTATCGTTTAT
1 AT-ATGTAATAGGTAACCCTTAT
420179 ATATGTAATAGGTA
1 ATATGTAATAGGTA
420193 GTGGTTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 14 0.42
23 19 0.58
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (22 bp):
ATATGTAATAGGTAACCCTTAT
Found at i:420200 original size:22 final size:21
Alignment explanation
Indices: 420134--420207 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
420124 ATAGGTAAAC
**
420134 ATATGTAATAGGTAACCCTTAT
1 ATATGTAATAGGT-ATGCTTAT
*
420156 ATAATGTAATAGGTATCGTTTAT
1 AT-ATGTAATAGGTAT-GCTTAT
*
420179 ATATGTAATAGGTAGTGGTTAT
1 ATATGTAATAGGTA-TGCTTAT
420201 AT-TGTAA
1 ATATGTAA
420208 AGTGTCTATC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
21 5 0.11
22 22 0.49
23 18 0.40
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.41
Consensus pattern (21 bp):
ATATGTAATAGGTATGCTTAT
Found at i:420613 original size:23 final size:23
Alignment explanation
Indices: 420584--420631 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
420574 AAATAGGTAA
*
420584 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAGTATATT
*
420607 ATATAAGCGCTACCTAGTATGTT
1 ATATAAGCGCTACCTAGTATATT
420630 AT
1 AT
420632 TGTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAGTATATT
Found at i:424196 original size:25 final size:25
Alignment explanation
Indices: 424154--424206 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
424144 GTTGAAAATC
424154 GCGTTGCGACTTTCCATTTCGCGTT
1 GCGTTGCGACTTTCCATTTCGCGTT
* *
424179 GCGTTGCGATTTTTCATTTCGCGTT
1 GCGTTGCGACTTTCCATTTCGCGTT
424204 GCG
1 GCG
424207 ATAGTCTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.08, C:0.25, G:0.26, T:0.42
Consensus pattern (25 bp):
GCGTTGCGACTTTCCATTTCGCGTT
Found at i:424224 original size:22 final size:22
Alignment explanation
Indices: 424196--424252 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
424186 GATTTTTCAT
424196 TTCGCGTTGCGATAGTCTACAG
1 TTCGCGTTGCGATAGTCTACAG
424218 TTCGCGTTGCGATAGTCTACAG
1 TTCGCGTTGCGATAGTCTACAG
**
424240 TTATCGTTGCGAT
1 TTCGCGTTGCGAT
424253 TTTCTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (22 bp):
TTCGCGTTGCGATAGTCTACAG
Found at i:424372 original size:12 final size:12
Alignment explanation
Indices: 424351--424423 Score: 65
Period size: 10 Copynumber: 6.8 Consensus size: 12
424341 AGACACGTAT
424351 GACCACGACCAC
1 GACCACGACCAC
*
424363 GACCATGACCAC
1 GACCACGACCAC
*
424375 GATC-CGACC-C
1 GACCACGACCAC
424385 GACC-CGACC-C
1 GACCACGACCAC
424395 GACC-CGACC-C
1 GACCACGACCAC
424405 GACC-CGACC-C
1 GACCACGACCAC
424415 GACC-CGACC
1 GACCACGACC
424424 CGAGACGGAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
10 39 0.68
11 4 0.07
12 14 0.25
ACGTcount: A:0.25, C:0.53, G:0.19, T:0.03
Consensus pattern (12 bp):
GACCACGACCAC
Found at i:424388 original size:5 final size:5
Alignment explanation
Indices: 424378--424426 Score: 98
Period size: 5 Copynumber: 9.8 Consensus size: 5
424368 TGACCACGAT
424378 CCGAC CCGAC CCGAC CCGAC CCGAC CCGAC CCGAC CCGAC CCGAC CCGA
1 CCGAC CCGAC CCGAC CCGAC CCGAC CCGAC CCGAC CCGAC CCGAC CCGA
424427 GACGGACGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.20, C:0.59, G:0.20, T:0.00
Consensus pattern (5 bp):
CCGAC
Found at i:425017 original size:22 final size:22
Alignment explanation
Indices: 424988--425040 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
424978 AATTTGGAAA
424988 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
425010 ATTGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
425032 ATCGCAACG
1 ATCGCAACG
425041 CGAAATGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:434900 original size:39 final size:39
Alignment explanation
Indices: 434831--434967 Score: 168
Period size: 39 Copynumber: 3.5 Consensus size: 39
434821 AACCAAAGCA
* * * *
434831 GGACTTGCCA-CTCTTGACGCAGCAGAATGCTCATCATCC
1 GGACTTG-CAGCTCTCGATGCAACAGGATGCTCATCATCC
* * *
434870 GGACTTGCAACTCTCGATGTAACATGATGCTCATCATCC
1 GGACTTGCAGCTCTCGATGCAACAGGATGCTCATCATCC
*
434909 GGACTTGCAGCTCTCGATGCAACAGGATGCTCATCACCC
1 GGACTTGCAGCTCTCGATGCAACAGGATGCTCATCATCC
* *
434948 GGGCTTGCAGCTCTTGATGC
1 GGACTTGCAGCTCTCGATGC
434968 TCCAACATGT
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 2 0.02
39 83 0.98
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.25
Consensus pattern (39 bp):
GGACTTGCAGCTCTCGATGCAACAGGATGCTCATCATCC
Found at i:434982 original size:39 final size:39
Alignment explanation
Indices: 434857--434983 Score: 137
Period size: 39 Copynumber: 3.3 Consensus size: 39
434847 ACGCAGCAGA
* * * **
434857 ATGCTCATCATCCGGACTTGCAACTCTCGATGTAACATG
1 ATGCTCATCACCCGGACTTGCAGCTCTCGATGCAACAAC
* **
434896 ATGCTCATCATCCGGACTTGCAGCTCTCGATGCAACAGG
1 ATGCTCATCACCCGGACTTGCAGCTCTCGATGCAACAAC
* * **
434935 ATGCTCATCACCCGGGCTTGCAGCTCTTGATGCTCCAAC
1 ATGCTCATCACCCGGACTTGCAGCTCTCGATGCAACAAC
*
434974 ATGTTCATCA
1 ATGCTCATCA
434984 ACTGCGCCTA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (39 bp):
ATGCTCATCACCCGGACTTGCAGCTCTCGATGCAACAAC
Found at i:440837 original size:14 final size:14
Alignment explanation
Indices: 440820--440847 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
440810 TATTTGTATT
440820 TATTTGTATATACA
1 TATTTGTATATACA
440834 TATTTGTATATACA
1 TATTTGTATATACA
440848 AAGCCTGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TATTTGTATATACA
Found at i:451235 original size:23 final size:26
Alignment explanation
Indices: 451204--451267 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
451194 TTAGTATGAT
451204 AAAAAATTA-T-CA-AATTAGCCAAA
1 AAAAAATTAGTGCACAATTAGCCAAA
* *
451227 TAAAAATTAGTGCATCAATTATCCAAA
1 AAAAAATTAGTGCA-CAATTAGCCAAA
451254 AAAAAATTAGTGCA
1 AAAAAATTAGTGCA
451268 TCTCATTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.24
24 1 0.03
25 2 0.06
27 23 0.68
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (26 bp):
AAAAAATTAGTGCACAATTAGCCAAA
Found at i:451276 original size:28 final size:27
Alignment explanation
Indices: 451216--451269 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
451206 AAAATTATCA
* *
451216 AATTAGCCAAATAAAAATTAGTGCATC
1 AATTATCCAAAAAAAAATTAGTGCATC
451243 AATTATCCAAAAAAAAATTAGTGCATC
1 AATTATCCAAAAAAAAATTAGTGCATC
451270 TCATTATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (27 bp):
AATTATCCAAAAAAAAATTAGTGCATC
Found at i:451538 original size:2 final size:2
Alignment explanation
Indices: 451531--451608 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
451521 GTTTTATTTC
451531 AT AT AT 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 AT AT AT
451573 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
451609 GGTAATATTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:453989 original size:20 final size:19
Alignment explanation
Indices: 453957--454012 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
453947 GATCAACAAC
*
453957 GATATAACAGGTAAAAATAT
1 GATAAAACAGGTAAAAA-AT
* *
453977 GATAAAACTGGTATCAAAAT
1 GATAAAACAGGTA-AAAAAT
*
453997 GATGAAACAGGTAAAA
1 GATAAAACAGGTAAAA
454013 CGCTACCGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.54, C:0.07, G:0.18, T:0.21
Consensus pattern (19 bp):
GATAAAACAGGTAAAAAAT
Found at i:454139 original size:182 final size:182
Alignment explanation
Indices: 453754--454227 Score: 648
Period size: 182 Copynumber: 2.6 Consensus size: 182
453744 GATCCAAATT
* * * * * * *
453754 AAAAATGTATCGATCCACAACGATATAATAGGTAAAACTATGACAAAACCT-ATATTAAAATGAT
1 AAAAATGTATCAATCAACAACGATATAACAGGTAAAAATATGATAAAA-CTGGTATCAAAATGAT
* * ** * * * **
453818 AAAACCGGTAAAGCGGTACCAAATATATTTAAAGTGTCGGTACTTTAATATAATGATCGGTACTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
453883 CGTTAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
130 CGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
*
453936 AAAAATATAT-AGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGAT
1 AAAAATGTATCA-ATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGAT
* * * * *
454000 GAAACAGGTAAAACGCTACCGGATATATTGAAAGTGTCGAAACTTT-ATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
454064 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
130 CGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
*
454117 AAAAATGTATCAATCAAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATGTATCAATC-AACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGAT
*
454182 AAAACCGGTAAAATGATACCGGATATATTAAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
454228 CGTAAGTACG
Statistics
Matches: 256, Mismatches: 32, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
181 78 0.30
182 178 0.70
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCAATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:454171 original size:20 final size:19
Alignment explanation
Indices: 454148--454194 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
454138 CGATATAACA
454148 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
454168 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
454188 GGTAAAA
1 GGTAAAA
454195 TGATACCGGA
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:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:454196 original size:17 final size:19
Alignment explanation
Indices: 454157--454199 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
454147 AGGTAAAAAT
454157 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
454177 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
454194 ATGATA
1 ATGATA
454200 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:455527 original size:180 final size:180
Alignment explanation
Indices: 455225--456278 Score: 1715
Period size: 180 Copynumber: 5.9 Consensus size: 180
455215 TCCGATCATC
* * * *
455225 ATGTTGAAAGTGTCGATAA-TTATTATACGTATTGACACTTTTGGAATTTAAAATAGAAGAGTTA
1 ATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-ACTTTTGGAATTTAAAAGAGAAAAGTTA
*
455289 TAGCTCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAA
65 TAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAA
455354 ATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
130 ATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
455405 ATGTTGAAAGTGTCGATAATTTATTATAAGTATCG-ACTTTTGGAA-TTAATAAGAGAATAAGTT
1 ATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAACTTTTGGAATTTAA-AAGAGAA-AAGTT
*
455468 ATAGCGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAA
64 ATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAA
455533 AATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
129 AATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
455585 ATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTT-AAA-AG---AG--A
1 ATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-ACTTTTGGAATTTAAAAGAGAAAAGTTA
* *
455643 -A--GCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAA
65 TAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAA
*
455705 ATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGAT
130 ATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
455756 ATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAATAAGTT
1 ATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-ACTTTTGGAATTTAAAAGAGAA-AAGTT
* *
455821 ATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAA
64 ATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAA
455886 AATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
129 AATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
* * *
455938 ATGTTGAAAGTGTTGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAGAGTTA
1 ATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-ACTTTTGGAATTTAAAAGAGAAAAGTTA
* *
456003 TAGCGCCAATAAAGTGTCGATAATTTATAAAAATGTATCGATTCATAACAATATAACATGTAAAA
65 TAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAA
456068 ATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
130 ATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
456119 ATGTTGAAAGTGTCGATAATTTATTATAAGTATCG-ACTTTTGGAA-TTAATAAGAGAAGAAGTT
1 ATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAACTTTTGGAATTTAA-AAGAGAA-AAGTT
* * * *
456182 ATAGCGCCAATAACGTATCGATACTTTATAAAAATGTATCAATCCATAATAATATAACATGTAAA
64 ATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAA
* **
456247 AATATGATAAAACCGGTCTATAAATGACAAAA
129 AATATGACAAAACCGGTCTCGAAATGACAAAA
456279 GGTGAACGCA
Statistics
Matches: 823, Mismatches: 32, Indels: 38
0.92 0.04 0.04
Matches are distributed among these distances:
171 158 0.19
172 3 0.00
173 3 0.00
174 1 0.00
176 2 0.00
177 2 0.00
178 8 0.01
179 34 0.04
180 268 0.33
181 165 0.20
182 177 0.22
183 2 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (180 bp):
ATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAACTTTTGGAATTTAAAAGAGAAAAGTTAT
AGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAA
TATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
Found at i:455943 original size:353 final size:356
Alignment explanation
Indices: 455225--456278 Score: 1771
Period size: 353 Copynumber: 2.9 Consensus size: 356
455215 TCCGATCATC
* *
455225 ATGTTGAAAGTGTCGATAA-TTATTATACGTATTGACACTTTTGGAATTTAAAATAGAAGAGTTA
1 ATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTT--AAGAGAAGAG-TA
*
455289 TAGCTCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAA
63 TAG--CCAATAAAGTGTCGATAATTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAA
455354 ATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTC
126 ATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTC
455419 GATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAATAAGTTATAGCGCCAATAACGT
191 GATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAATAAGTTATAGCGCCAATAACGT
455484 GTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGG
256 GTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGG
455549 TCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
321 TCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
*
455585 ATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTT-A-A-AAGAG-A-AG
1 ATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAGAGAAGAGTATAG
* *
455645 CCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATG
66 CCAATAAAGTGTCGATAATTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
*
455710 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAA
131 ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAA
*
455775 TTTATTATAAGTATCGACACTTTTGGAATTTAA-AAGAGAATAAGTTATAGCGCCAATAAAGTGT
196 TTTATTATAAGTATCG--ACTTTTGGAA-TTAATAAGAGAATAAGTTATAGCGCCAATAACGTGT
* *
455839 CGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACCGGTC
258 CGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTC
455904 TCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
323 TCGAAATGACAAAACAGGTAAAGCGCTACCGGTT
*
455938 ATGTTGAAAGTGTTGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAGAGTTA
1 ATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTT--AAGAGAAGAG-TA
*
456003 TAGCGCCAATAAAGTGTCGATAATTTATAAAAATGTATCGATTCATAACAATATAACATGTAAAA
63 TA--GCCAATAAAGTGTCGATAATTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAA
456068 ATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTC
126 ATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTC
*
456133 GATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAAGAAGTTATAGCGCCAATAACGT
191 GATAATTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAATAAGTTATAGCGCCAATAACGT
* * * *
456198 ATCGATACTTTATAAAAATGTATCAATCCATAATAATATAACATGTAAAAATATGATAAAACCGG
256 GTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGG
**
456263 TCTATAAATGACAAAA
321 TCTCGAAATGACAAAA
456279 GGTGAACGCA
Statistics
Matches: 655, Mismatches: 24, Indels: 29
0.93 0.03 0.04
Matches are distributed among these distances:
351 143 0.22
353 187 0.29
354 5 0.01
356 6 0.01
357 2 0.00
358 6 0.01
360 24 0.04
361 139 0.21
363 143 0.22
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (356 bp):
ATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAGAGAAGAGTATAG
CCAATAAAGTGTCGATAATTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATG
ACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAA
TTTATTATAAGTATCGACTTTTGGAATTAATAAGAGAATAAGTTATAGCGCCAATAACGTGTCGA
TACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCG
AAATGACAAAACAGGTAAAGCGCTACCGGTT
Found at i:455958 original size:182 final size:181
Alignment explanation
Indices: 455644--456278 Score: 1069
Period size: 182 Copynumber: 3.5 Consensus size: 181
455634 TAAAAGAGAA
*
455644 GCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
1 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
*
455709 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATA
66 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATA
455774 ATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGC
131 ATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAA-AAGTTATAGC
*
455826 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATAT
1 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
*
455891 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTTGATA
66 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATA
* *
455956 ATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAGAGTTATAGC
131 ATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAAAGTTATAGC
* * *
456007 GCCAATAAAGTGTCGATAATTTATAAAAATGTATCGATTCATAACAATATAACATGTAAAAATAT
1 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
456072 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATA
66 GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATA
456137 ATTTATTATAAGTATCG--ACTTTTGGAA-TTAATAAGAGAAGAAGTTATAGC
131 ATTTATTATAAGTATCGACACTTTTGGAATTTAA-AAGAGAA-AAGTTATAGC
* * * * *
456187 GCCAATAACGTATCGATACTTTATAAAAATGTATCAATCCATAATAATATAACATGTAAAAATAT
1 GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
* **
456252 GATAAAACCGGTCTATAAATGACAAAA
66 GACAAAACCGGTCTCGAAATGACAAAA
456279 GGTGAACGCA
Statistics
Matches: 429, Mismatches: 22, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
178 4 0.01
179 17 0.04
180 92 0.21
181 150 0.35
182 166 0.39
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (181 bp):
GCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATAT
GACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATA
ATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAAAGTTATAGC
Found at i:456443 original size:23 final size:23
Alignment explanation
Indices: 456414--456461 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
456404 AAATAGGTCA
*
456414 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAATATATT
*
456437 ATATAAGCGCTACTTAATATATT
1 ATATAAGCGCTACCTAATATATT
456460 AT
1 AT
456462 TGTACTTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATATATT
Found at i:456518 original size:87 final size:87
Alignment explanation
Indices: 456414--456576 Score: 265
Period size: 87 Copynumber: 1.9 Consensus size: 87
456404 AAATAGGTCA
* * *
456414 ATATAAGCGCTACCTATTATATTATATAAGCGCTACTTAATATATTATTGTACTT-ACTAATATT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTAATTGA-TAATATT
456478 TCCGGTTAAATACCTATTTTATT
65 TCCGGTTAAATACCTATTTTATT
* *
456501 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATATTATTGTAATTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTAATTGATAATATTT
456566 CCGGTTAAATA
66 CCGGTTAAATA
456577 ATATAACATA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
87 69 0.99
88 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTAATTGATAATATTT
CCGGTTAAATACCTATTTTATT
Found at i:456547 original size:23 final size:23
Alignment explanation
Indices: 456488--456548 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
456478 TCCGGTTAAA
*
456488 TACCTATTTTATTATATAAGCGC
1 TACCTATTATATTATATAAGCGC
* * *
456511 TATCTATTACATTATATAAGCGT
1 TACCTATTATATTATATAAGCGC
*
456534 TACCTAATATATTAT
1 TACCTATTATATTAT
456549 TGTAATTGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (23 bp):
TACCTATTATATTATATAAGCGC
Found at i:459764 original size:16 final size:16
Alignment explanation
Indices: 459731--459763 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
459721 ATCAATTTTG
*
459731 AATAAAATTTATTGAA
1 AATAAAATTTATAGAA
459747 AATAAAATTTA-AGAA
1 AATAAAATTTATAGAA
459762 AA
1 AA
459764 AATACAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
AATAAAATTTATAGAA
Found at i:469282 original size:31 final size:32
Alignment explanation
Indices: 469236--469306 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
469226 TTTATTTATT
* *
469236 AATT-TTTTTAATTTAATTACT-TAACTTTCA
1 AATTATTTCTAATTTAATCACTCTAACTTTCA
* *
469266 AATTATTTCTAATTTAATCACTCTAATTTTTA
1 AATTATTTCTAATTTAATCACTCTAACTTTCA
469298 AATTTATTT
1 AA-TTATTT
469307 ATTTTTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.12
31 15 0.44
32 9 0.26
33 6 0.18
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (32 bp):
AATTATTTCTAATTTAATCACTCTAACTTTCA
Found at i:469613 original size:20 final size:20
Alignment explanation
Indices: 469588--469640 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
469578 CGATTATAGT
469588 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
**
469608 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCAAA
*
469628 TTCGTGTTGCGAT
1 TTCGCGTTGCGAT
469641 TTTCATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Done.