Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009343.1 Hibiscus syriacus cultivar Beakdansim tig00113123_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: 2141224
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:607444 original size:71 final size:71
Alignment explanation
Indices: 607323--607460 Score: 197
Period size: 71 Copynumber: 1.9 Consensus size: 71
607313 TACATATTTT
* * *
607323 TTTAAGATAGATTTTCAGCTACTCCTTGGTGCTCAAGATCTTTTAGTTGTTTGTCTCCCAGGATA
1 TTTAAGACAGATTTTCAGCTAATCCTTGGTGCTCAAGATCTTTTAATTGTTTGTCTCCCAGGATA
607388 CAGTTC
66 CAGTTC
* * * *
607394 TTTAAGACAGATTTTC-GGTCAATCCTTGGTTCTCGAGATCTTTTAATTGTTTGTCTCCCAGTAT
1 TTTAAGACAGATTTTCAGCT-AATCCTTGGTGCTCAAGATCTTTTAATTGTTTGTCTCCCAGGAT
607458 ACA
65 ACA
607461 ACAACTAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 2 0.03
71 57 0.97
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (71 bp):
TTTAAGACAGATTTTCAGCTAATCCTTGGTGCTCAAGATCTTTTAATTGTTTGTCTCCCAGGATA
CAGTTC
Found at i:611618 original size:3 final size:3
Alignment explanation
Indices: 611610--611648 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
611600 GTAAGGTTTG
* *
611610 AAT AAT AAT AAT ATT TAT AAT -AT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
611649 TAGGTGGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:611636 original size:17 final size:17
Alignment explanation
Indices: 611614--611650 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
611604 GGTTTGAATA
* *
611614 ATAATAATATTTATAAT
1 ATAATAATAATAATAAT
611631 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
611648 ATA
1 ATA
611651 GGTGGGTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:612328 original size:23 final size:23
Alignment explanation
Indices: 612299--612348 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
612289 TGTAACATGT
612299 TCTCTGTCTTTATGGCACGTTTA
1 TCTCTGTCTTTATGGCACGTTTA
* *
612322 TCTCTGTCTTTGTGGCACGTTTT
1 TCTCTGTCTTTATGGCACGTTTA
612345 TCTC
1 TCTC
612349 CGCCTTTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.08, C:0.24, G:0.18, T:0.50
Consensus pattern (23 bp):
TCTCTGTCTTTATGGCACGTTTA
Found at i:612355 original size:23 final size:23
Alignment explanation
Indices: 612306--612355 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
612296 TGTTCTCTGT
* *
612306 CTTTATGGCACGTTTATCTCTGT
1 CTTTATGGCACGTTTATCTCCGC
* *
612329 CTTTGTGGCACGTTTTTCTCCGC
1 CTTTATGGCACGTTTATCTCCGC
612352 CTTT
1 CTTT
612356 TGGTAGCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.08, C:0.26, G:0.18, T:0.48
Consensus pattern (23 bp):
CTTTATGGCACGTTTATCTCCGC
Found at i:615529 original size:22 final size:22
Alignment explanation
Indices: 615504--615560 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
615494 CACTCTCTAA
* *
615504 GACGACATCCGTCCCCATCTCT
1 GACGAAATCCGTCCCCATCTCC
*
615526 GACGAAATCAGTCCCCATCTCC
1 GACGAAATCCGTCCCCATCTCC
*
615548 GGCGAAATCCGTC
1 GACGAAATCCGTC
615561 TATCTCCATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.23, C:0.40, G:0.18, T:0.19
Consensus pattern (22 bp):
GACGAAATCCGTCCCCATCTCC
Found at i:615982 original size:20 final size:20
Alignment explanation
Indices: 615923--616009 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 20
615913 AGAATCGCAA
*
615923 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCATTTTCGCGT
615942 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTTCATTTTCGCGT
** *
615961 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
*
615981 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
616001 TGCGATTTT
1 TGCGATTTT
616010 AAGTTTCAGA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
19 26 0.43
20 35 0.57
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.49
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGCGT
Found at i:617565 original size:21 final size:21
Alignment explanation
Indices: 617517--617566 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
617507 GTTAGGGGAG
* *
617517 TTACGTGATGAGGTCAATGCC
1 TTACGTGAGGAGGTCAATACC
* * *
617538 TTGCGTGAGGAGGTCGATACT
1 TTACGTGAGGAGGTCAATACC
617559 TTACGTGA
1 TTACGTGA
617567 TGGCAATGGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (21 bp):
TTACGTGAGGAGGTCAATACC
Found at i:617773 original size:18 final size:18
Alignment explanation
Indices: 617724--617773 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
617714 TTTACTCGTA
*
617724 ATTTCACTTAGATGAACC
1 ATTTCACTTAGATTAACC
617742 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
617760 ATTTCACTTAGATT
1 ATTTCACTTAGATT
617774 GCTTAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:617865 original size:11 final size:11
Alignment explanation
Indices: 617845--617879 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
617835 AAGTTAGTAT
617845 TTGT-TTTTGG
1 TTGTCTTTTGG
617855 TTGTCTTTTGG
1 TTGTCTTTTGG
617866 TTGTCTTTTGG
1 TTGTCTTTTGG
617877 TTG
1 TTG
617880 AAGTAATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.00, C:0.06, G:0.29, T:0.66
Consensus pattern (11 bp):
TTGTCTTTTGG
Found at i:617957 original size:20 final size:20
Alignment explanation
Indices: 617932--617979 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
617922 TAGTTTACTT
*
617932 TCGCAATGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
**
617952 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
*
617972 TTGCAACG
1 TCGCAACG
617980 AAAGAATCGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:618047 original size:20 final size:20
Alignment explanation
Indices: 618022--618117 Score: 165
Period size: 20 Copynumber: 4.8 Consensus size: 20
618012 GCGATTCTCT
**
618022 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
618042 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
618062 CGTTGCGAGAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
618082 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
618102 CGTTGCGATAGTCATT
1 CGTTGCGATAGTCATT
618118 CGTGTTGCGA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:620138 original size:14 final size:14
Alignment explanation
Indices: 620103--620163 Score: 52
Period size: 15 Copynumber: 4.3 Consensus size: 14
620093 TTGCTTGTTT
*
620103 AATTGATTTATAAA
1 AATTGATTTGTAAA
620117 AATT-ATTTGTAAA
1 AATTGATTTGTAAA
* *
620130 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
620145 TATTGATGTGTAAA
1 AATTGATTTGTAAA
620159 TAATT
1 -AATT
620164 CTTATTTGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
13 11 0.31
14 12 0.33
15 13 0.36
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:620315 original size:20 final size:20
Alignment explanation
Indices: 620262--620315 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
620252 AGGTACACTT
* **
620262 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAAGACAAAA
*
620282 TCGCAATGCGAAAGACAAAA
1 TCGCAACGCGAAAGACAAAA
620302 TCGCAACGCGAAAG
1 TCGCAACGCGAAAG
620316 TCAATTCGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAGACAAAA
Found at i:620331 original size:19 final size:20
Alignment explanation
Indices: 620309--620351 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
620299 AAATCGCAAC
*
620309 GCGAAAGTC-AATTCGCATT
1 GCGAAAGTCTAATACGCATT
* *
620328 GCGATAGTCTAATACGCTTT
1 GCGAAAGTCTAATACGCATT
620348 GCGA
1 GCGA
620352 TTTTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (20 bp):
GCGAAAGTCTAATACGCATT
Found at i:620384 original size:20 final size:20
Alignment explanation
Indices: 620358--620662 Score: 309
Period size: 20 Copynumber: 15.8 Consensus size: 20
620348 GCGATTTTCT
*
620358 CGTTGCGATAGTCAAATAC-
1 CGTTGCGATAGTCAAATTCG
* *
620377 CTGTTGCGATAATCAAATTCT
1 C-GTTGCGATAGTCAAATTCG
*
620398 CGTTGCGATACTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
620418 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
620438 CGTTGCGATAGTCAAA-TAG
1 CGTTGCGATAGTCAAATTCG
* *
620457 CCGTTGCGATAATCAATTTCG
1 -CGTTGCGATAGTCAAATTCG
620478 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
620498 CGTTGAGATAGAT-AAATTCG
1 CGTTGCGATAG-TCAAATTCG
620518 CGTTGCGATAGAT-AAATTCG
1 CGTTGCGATAG-TCAAATTCG
*
620538 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
*
620552 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
620572 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
620592 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
620606 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
620626 CGTTGCGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTCG
*
620646 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
620663 GAATGTGTAA
Statistics
Matches: 242, Mismatches: 27, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
14 23 0.10
16 2 0.01
17 1 0.00
18 1 0.00
19 2 0.01
20 209 0.86
21 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:620413 original size:40 final size:40
Alignment explanation
Indices: 620318--620662 Score: 284
Period size: 40 Copynumber: 9.1 Consensus size: 40
620308 CGCGAAAGTC
* * *
620318 AATTCGCATTGCGATAGTCTAATACGCTTTGCGAT--T--
1 AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATAATCA
*
620354 --TTCTCGTTGCGATAGTCAAATAC-CTGTTGCGATAATCA
1 AATTCGCGTTGCGATAGTCAAATACGC-GTTGCGATAATCA
* * * *
620392 AATTCTCGTTGCGATACTCAAATTCGCGTTGCGATAGTCA
1 AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATAATCA
*
620432 AATTCACGTTGCGATAGTCAAATA-GCCGTTGCGATAATCA
1 AATTCGCGTTGCGATAGTCAAATACG-CGTTGCGATAATCA
* * *
620472 ATTTCGCGTTGCGATAGTCAAATTCGCGTTGAGATAGAT-A
1 AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATA-ATCA
*
620512 AATTCGCGTTGCGATAGAT-AAATTCGCGTTGCGAT--T--
1 AATTCGCGTTGCGATAG-TCAAATACGCGTTGCGATAATCA
* * * * *
620548 --TTTGCGTTGCGATAGTCATATTCGTGTTGCGATAGTCA
1 AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATAATCA
** *
620586 AATTCGCGTTGCGAT--T----TTTGAGTTGCGATAATCA
1 AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATAATCA
** *
620620 AATTCGCGTTGCGATAGTCAAATTTGCGTTGCGATATTCA
1 AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATAATCA
620660 AAT
1 AAT
620663 GAATGTGTAA
Statistics
Matches: 258, Mismatches: 26, Indels: 46
0.78 0.08 0.14
Matches are distributed among these distances:
33 2 0.01
34 85 0.33
36 3 0.01
37 1 0.00
38 1 0.00
39 1 0.00
40 160 0.62
41 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (40 bp):
AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATAATCA
Found at i:620579 original size:54 final size:54
Alignment explanation
Indices: 620379--620654 Score: 252
Period size: 54 Copynumber: 4.9 Consensus size: 54
620369 TCAAATACCT
* * * *
620379 GTTGCGATAATCAAATTCTCGTTGCGATACTCAAATTCGCGTTGCGATAGTCAAATTCA
1 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT--T---TTTGA
* * * * * *
620438 CGTTGCGATAGTCAAA-TAGCCGTTGCGATAATCAATTTCGCGTTGCGATAGTCAAATTCGC
1 -GTTGCGATAATCAAATTCG-CGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTTGA
* *
620499 GTTGAGATAGAT-AAATTCGCGTTGCGATAGAT-AAATTCGCGTTGCGATTTTTGC
1 GTTGCGATA-ATCAAATTCGCGTTGCGATAG-TCAAATTCGCGTTGCGATTTTTGA
* * *
620553 GTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
1 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
*
620607 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTTGCGTTGCGAT
1 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
620655 ATTCAAATGA
Statistics
Matches: 184, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
53 2 0.01
54 93 0.51
58 1 0.01
59 1 0.01
60 80 0.43
61 7 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (54 bp):
GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
Found at i:620986 original size:18 final size:18
Alignment explanation
Indices: 620963--620997 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
620953 AAGCCGGTTG
*
620963 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
620981 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
620998 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:623038 original size:14 final size:14
Alignment explanation
Indices: 623019--623055 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
623009 TCCCGTGGCA
623019 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
623033 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
623047 TTCTTCTTC
1 TT-TTCTTC
623056 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:623279 original size:24 final size:24
Alignment explanation
Indices: 623245--623298 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
623235 CTGAAACATC
623245 ATCAAAATCCGAGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* * *
623269 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
623293 ATCAAA
1 ATCAAA
623299 TTTCAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:624157 original size:20 final size:20
Alignment explanation
Indices: 624071--624156 Score: 136
Period size: 20 Copynumber: 4.3 Consensus size: 20
624061 AAATTCAGTG
* *
624071 TTGCGACAGTCAGAATCGCG
1 TTGCGACAGTCATAATCGCA
*
624091 TTGCGACAGTCAGAATCGCA
1 TTGCGACAGTCATAATCGCA
624111 TTGCGACAGTCATAATCGCA
1 TTGCGACAGTCATAATCGCA
*
624131 TTGCGATAGTCATAATCGCA
1 TTGCGACAGTCATAATCGCA
624151 TTGCGA
1 TTGCGA
624157 TTTACATATT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (20 bp):
TTGCGACAGTCATAATCGCA
Found at i:624164 original size:20 final size:20
Alignment explanation
Indices: 624071--624181 Score: 134
Period size: 20 Copynumber: 5.5 Consensus size: 20
624061 AAATTCAGTG
* * *
624071 TTGCGACAGTCAGAATCGCG
1 TTGCGATAGTCATAATCGCA
* *
624091 TTGCGACAGTCAGAATCGCA
1 TTGCGATAGTCATAATCGCA
*
624111 TTGCGACAGTCATAATCGCA
1 TTGCGATAGTCATAATCGCA
624131 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCATAATCGCA
* *
624151 TTGCGAT-TTACATATTCGCA
1 TTGCGATAGT-CATAATCGCA
624171 TTGCGATAGTC
1 TTGCGATAGTC
624182 GGAAAATCAC
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
19 1 0.01
20 81 0.98
21 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (20 bp):
TTGCGATAGTCATAATCGCA
Found at i:627991 original size:41 final size:40
Alignment explanation
Indices: 627904--628002 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
627894 TACAATCGCT
* *
627904 GCTAAAGACTTGTACTTTAGTGTCATTTTATATAAACACC
1 GCTAAAGACTCGTACTTTAGTGTCATTTTATACAAACACC
* ***
627944 GCTAAAGGCTCGTACTTTAGTGTCATTTTTATACAAAGGTC
1 GCTAAAGACTCGTACTTTAGTGTCA-TTTTATACAAACACC
*
627985 GTTAAAGACTCGTA-TTTA
1 GCTAAAGACTCGTACTTTA
628003 CAAACGCCGC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
40 27 0.54
41 23 0.46
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (40 bp):
GCTAAAGACTCGTACTTTAGTGTCATTTTATACAAACACC
Found at i:631129 original size:32 final size:31
Alignment explanation
Indices: 631067--631139 Score: 94
Period size: 30 Copynumber: 2.3 Consensus size: 31
631057 ATTTTAGTAT
*
631067 TCGGGTTGGATTTTTTTTTAAAAAAATCGGGA
1 TCGGGTCGGA-TTTTTTTTAAAAAAATCGGGA
*
631099 TC-GGTCGGATTTTTTTTAAAAATAATTCGGGT
1 TCGGGTCGGATTTTTTTTAAAAA-AA-TCGGGA
631131 TCGGGTCGG
1 TCGGGTCGG
631140 GTCGAGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 13 0.36
31 8 0.22
32 9 0.25
33 6 0.17
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.40
Consensus pattern (31 bp):
TCGGGTCGGATTTTTTTTAAAAAAATCGGGA
Found at i:631138 original size:33 final size:33
Alignment explanation
Indices: 631066--631241 Score: 121
Period size: 32 Copynumber: 5.3 Consensus size: 33
631056 TATTTTAGTA
*
631066 TTCGGGTTGGATTTTTTTTTAAAAA-AA-TCGGG
1 TTCGGGTCGGA-TTTTTTTTAAAAATAATTCGGG
*
631098 ATC-GGTCGGATTTTTTTTAAAAATAATTCGGG
1 TTCGGGTCGGATTTTTTTTAAAAATAATTCGGG
* **** *
631130 TTCGGGTCGGGTCGAGTTTTTTTACGTTTGATATTTGGG
1 TTCGGGTC--G--GATTTTTTTTAAAAAT-A-ATTCGGG
* * *
631169 -TCGGGTCGGGTTTTTTTAAAAAAGAATTCGGG
1 TTCGGGTCGGATTTTTTTTAAAAATAATTCGGG
* * *
631201 ATCGGGTCAGA-TTTTTTTAAAAAAAATT-GGG
1 TTCGGGTCGGATTTTTTTTAAAAATAATTCGGG
631232 TTCGGGTCGG
1 TTCGGGTCGG
631242 GTCGGTTTTT
Statistics
Matches: 110, Mismatches: 24, Indels: 21
0.71 0.15 0.14
Matches are distributed among these distances:
30 13 0.12
31 19 0.17
32 30 0.27
33 13 0.12
34 8 0.07
35 1 0.01
36 1 0.01
37 11 0.10
38 8 0.07
39 6 0.05
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (33 bp):
TTCGGGTCGGATTTTTTTTAAAAATAATTCGGG
Found at i:631251 original size:33 final size:31
Alignment explanation
Indices: 631164--631243 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 31
631154 CGTTTGATAT
631164 TTGGGTCGGGTCGGGTTTTTTTAAAAAAGAA
1 TTGGGTCGGGTCGGGTTTTTTTAAAAAAGAA
* *
631195 TTCGGGATCGGGTCAGATTTTTTTAAAAAA-AA
1 TT-GGG-TCGGGTCGGGTTTTTTTAAAAAAGAA
631227 TTGGGTTCGGGTCGGGT
1 TTGGG-TCGGGTCGGGT
631244 CGGTTTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 14 0.33
32 7 0.17
33 21 0.50
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.35
Consensus pattern (31 bp):
TTGGGTCGGGTCGGGTTTTTTTAAAAAAGAA
Found at i:631326 original size:39 final size:37
Alignment explanation
Indices: 631238--631378 Score: 168
Period size: 39 Copynumber: 3.9 Consensus size: 37
631228 TGGGTTCGGG
* *
631238 TCGGGTC-GGTTTTTTTAAGTTTGATATTCGGGGCGGA-
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTC--AGCGGAT
631275 TCGGGTCGGGTTTTTTTAAGTGTGATATTCATGTCGGAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCA-G-CGGAT
* *
631314 TCAGGTCAGGTTTTTTTAAGTGTGATATTC-G-GG-T
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCAGCGGAT
631348 T-GGGTCGGGTTTTTTTAAGTGTGATATTCAG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCAG
631379 GTCAGGTTCG
Statistics
Matches: 93, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
33 26 0.28
34 3 0.03
35 2 0.02
37 9 0.10
38 25 0.27
39 28 0.30
ACGTcount: A:0.16, C:0.09, G:0.32, T:0.43
Consensus pattern (37 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATATTCAGCGGAT
Found at i:632392 original size:20 final size:20
Alignment explanation
Indices: 632363--632419 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
632353 CAATTTATTA
*
632363 TTATGAATTTCAAGTTT-TT
1 TTATGGATTTCAAGTTTGTT
632382 GTTATGGATTTCAAGTTTGTT
1 -TTATGGATTTCAAGTTTGTT
*
632403 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
632420 ATTGGATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 32 0.94
21 2 0.06
ACGTcount: A:0.23, C:0.05, G:0.19, T:0.53
Consensus pattern (20 bp):
TTATGGATTTCAAGTTTGTT
Found at i:632613 original size:31 final size:32
Alignment explanation
Indices: 632555--632615 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
632545 TTTTACATTC
*
632555 ACAAACGTCACTATATGGCATAACATTTAGGA
1 ACAAACGTCACCATATGGCATAACATTTAGGA
*
632587 ACAAACG-CACCATATGTCA-AAGCATTTAG
1 ACAAACGTCACCATATGGCATAA-CATTTAG
632616 CGTCGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 2 0.08
31 17 0.65
32 7 0.27
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (32 bp):
ACAAACGTCACCATATGGCATAACATTTAGGA
Found at i:633611 original size:180 final size:182
Alignment explanation
Indices: 633299--633646 Score: 501
Period size: 180 Copynumber: 1.9 Consensus size: 182
633289 GATTCAAAGA
* * *
633299 TTATGATATAATTTATAGGGTTTGAAATGAAGTTTATGATGCAATTTATAGAGTTTTGAATAAAC
1 TTATGATATAATTTATAGGGTTTGAAATAAAGTTTATGATACAATTTATAGAGTTTTGAATAAAA
* * * *
633364 TACAAAAAATATAAATAATTATGAGCTAATTTTGGGAGAAAATATACTTTTAATGACTAAATTGA
66 TACAAAAAATATAAATAATTATCAGCTAATTTTGAGAGAAAATATACTTTCAAAGACTAAATTGA
* *
633429 AC-AACATGAAATTAAAAAGTGAATTTTAAATAAATTACGATGTAGTATAAT
131 ACAAACATGAAATCAAAAAGTGAAATTTAAATAAATTACGATGTAGTATAAT
* *
633480 TTATGATAT-ATTTATAGGGTTTGAAATAAAGTTTATGATACGATTTATATG-GTTTAT-AGTAA
1 TTATGATATAATTTATAGGGTTTGAAATAAAGTTTATGATACAATTTATA-GAGTTT-TGAATAA
*
633542 AATACAAAAAATATAAATAATTATCAGCTAATTTCAT-ATA-AAAATATACTTTCAAAGACTAAA
64 AATACAAAAAATATAAATAATTATCAGCTAATTT--TGAGAGAAAATATACTTTCAAAGACTAAA
*
633605 TTGAACAAACATGAAATCAAAAAGTTAAATTTAAATAAATTA
127 TTGAACAAACATGAAATCAAAAAGTGAAATTTAAATAAATTA
633647 AACAACACGC
Statistics
Matches: 149, Mismatches: 13, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
180 104 0.70
181 44 0.30
182 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.36
Consensus pattern (182 bp):
TTATGATATAATTTATAGGGTTTGAAATAAAGTTTATGATACAATTTATAGAGTTTTGAATAAAA
TACAAAAAATATAAATAATTATCAGCTAATTTTGAGAGAAAATATACTTTCAAAGACTAAATTGA
ACAAACATGAAATCAAAAAGTGAAATTTAAATAAATTACGATGTAGTATAAT
Found at i:634032 original size:289 final size:289
Alignment explanation
Indices: 633485--634176 Score: 796
Period size: 290 Copynumber: 2.4 Consensus size: 289
633475 ATAATTTATG
* * ** * ** *
633485 ATAT-ATTTATAGGGTTTGAAAT-AAAGTTTATGATACGATTTATATGG-TTTATAGTAAAATAC
1 ATATAATTTATAAGATTTGAAATGAAA-TTTATGATGTGATTTATA-GGACTTGGAGTAAATTAC
* * * * *
633547 AAAAAATATAAATAATTATCAGCTAATTTCA-TATAAAAATATACTTTCAAAGACTAAATTGAAC
64 AAAAAATAAAAATAATTATGAGC-AATTT-AGGATAAAAATATACTTTTAACGACTAAATTGAAC
* * * *
633611 AAACATGAAATCAAAAAGTTAAATTTAAATAAATTAAACAACACGCAAAGATCAAAGCTGAAACA
127 AAACATGAAATCAAAAAGTGAAAGTTAAATAAATGAAACAACACACAAAGATCAAAGCTGAAACA
* * *
633676 ATTGTAAAATATAAAACTTAAATTAATATCAAATTTGACTAAATTGCATTCATTTTAAAATTTGG
192 ATTGTAAAATATAAAACTTAAATTAATATCAAATTGGACTAAATTGCATTCAATATAAAATTTGG
* *
633741 TGAATGAAAA-TTTAT-ATGGTTTGGAGATTATA
257 TGAAT-AAAAGTTTATAAAGGTTTGGAGATTACA
* ** *
633773 ATATAGTTTATATTATTTGAAATGAAATTTTTGATGTGATTTATAGGACTTGGAGTAAATTACAA
1 ATATAATTTATAAGATTTGAAATGAAATTTATGATGTGATTTATAGGACTTGGAGTAAATTAC-A
* * **
633838 AAAAATAGAAATAATTATGAGTCAATTTAGGATAAAAATATACTTTTAACGACTAAGTTGAGTAA
65 AAAAATAAAAATAATTATGAG-CAATTTAGGATAAAAATATACTTTTAACGACTAAATTGAACAA
* * * * * *
633903 ACATGAAATTACAAAGTGAAAGTTGAATAAATGAAACAACACACAAGGATGAAA-TTGAAACAAT
129 ACATGAAATCAAAAAGTGAAAGTTAAATAAATGAAACAACACACAAAGATCAAAGCTGAAACAAT
* **
633967 TGTAAAATTTAAAGA-TTAAATTAATATTGAATTGGACTAAATTGCATT-AATATAAAATGTTGG
194 TGTAAAATATAAA-ACTTAAATTAATATCAAATTGGACTAAATTGCATTCAATATAAAAT-TTGG
*
634030 TGAATAAAAGTTTATAAAGTTTTGGAGATTACA
257 TGAATAAAAGTTTATAAAGGTTTGGAGATTACA
* *
634063 ATATAATTTATAAGATTTGAAATGAAATTTATGATGTGATTTATAGGATTTGGATTAAATTAC-A
1 ATATAATTTATAAGATTTGAAATGAAATTTATGATGTGATTTATAGGACTTGGAGTAAATTACAA
* * *
634127 AAACTAAAAATAATTATGGGACAATTTTGGAT-AAAATATTA-TTTTAACGA
66 AAAATAAAAATAATTATGAG-CAATTTAGGATAAAAATA-TACTTTTAACGA
634177 TGAAATTAAA
Statistics
Matches: 344, Mismatches: 49, Indels: 23
0.83 0.12 0.06
Matches are distributed among these distances:
287 15 0.04
288 48 0.14
289 106 0.31
290 174 0.51
291 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.34
Consensus pattern (289 bp):
ATATAATTTATAAGATTTGAAATGAAATTTATGATGTGATTTATAGGACTTGGAGTAAATTACAA
AAAATAAAAATAATTATGAGCAATTTAGGATAAAAATATACTTTTAACGACTAAATTGAACAAAC
ATGAAATCAAAAAGTGAAAGTTAAATAAATGAAACAACACACAAAGATCAAAGCTGAAACAATTG
TAAAATATAAAACTTAAATTAATATCAAATTGGACTAAATTGCATTCAATATAAAATTTGGTGAA
TAAAAGTTTATAAAGGTTTGGAGATTACA
Found at i:634460 original size:33 final size:31
Alignment explanation
Indices: 634423--634486 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 31
634413 TATACACCAC
*
634423 TCATTGACACATACATATATACGTACATACATA
1 TCATTCACACATACATATATA--TACATACATA
**
634456 TCATTCATTCATACATATATATACATACATA
1 TCATTCACACATACATATATATACATACATA
634487 ACACATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 10 0.36
33 18 0.64
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.34
Consensus pattern (31 bp):
TCATTCACACATACATATATATACATACATA
Found at i:634481 original size:31 final size:31
Alignment explanation
Indices: 634349--634486 Score: 105
Period size: 31 Copynumber: 4.3 Consensus size: 31
634339 ATAATATACG
* * * *
634349 TACATACATATCATTCATTCATTCACACACA
1 TACATACATATCATTCATTCATACATATATA
* * * * *
634380 CACATACATATTATTCATTTATTCTTATATA
1 TACATACATATCATTCATTCATACATATATA
* * * * **
634411 CATATACACCACTCATTGACACATACATATATA
1 TACATACA-TA-TCATTCATTCATACATATATA
634444 CGTACATACATATCATTCATTCATACATATATA
1 --TACATACATATCATTCATTCATACATATATA
634477 TACATACATA
1 TACATACATA
634487 ACACATTAAT
Statistics
Matches: 81, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
31 41 0.51
32 1 0.01
33 32 0.40
34 1 0.01
35 6 0.07
ACGTcount: A:0.40, C:0.23, G:0.01, T:0.36
Consensus pattern (31 bp):
TACATACATATCATTCATTCATACATATATA
Found at i:634962 original size:13 final size:14
Alignment explanation
Indices: 634928--634965 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
634918 GATTTTTTCA
*
634928 TAGTTTAGAGTTTTT
1 TAGTTTA-AGCTTTT
634943 TAGTTTAAGCTTTT
1 TAGTTTAAGCTTTT
634957 TA-TTTAAGC
1 TAGTTTAAGC
634966 AACCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.32
14 8 0.36
15 7 0.32
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.55
Consensus pattern (14 bp):
TAGTTTAAGCTTTT
Found at i:641526 original size:64 final size:63
Alignment explanation
Indices: 641431--641639 Score: 210
Period size: 65 Copynumber: 3.2 Consensus size: 63
641421 TTTCAAAGGA
* * * * *
641431 ATGCACCGATGCAC-TAATCCATGTATCGATGCACCATTGAATAAATTAAACATCGAATCCATTT
1 ATGCATCGATGCACAT-A-CCATGCATCGATGCACCATAG-ATTAATTAAACATCGAATGCATTT
641495 T
63 T
* * *
641496 ATGCATCGATGCACATACCATGCATCGATGCACTCA-GGTTTTAATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACATACCATGCATCGATGCAC-CATAG-ATTAAT-TAAACATCGAATGCATTT
641560 T
63 T
* * *
641561 ATGCATCGATGCACACT-CCATGCATCGATGCA-CGTAGGTTTATTCAAAACATCGAATGCATTT
1 ATGCATCGATGCACA-TACCATGCATCGATGCACCATAGATTAATT--AAACATCGAATGCATTT
641624 T
63 T
641625 ATGCATCGATGCACA
1 ATGCATCGATGCACA
641640 CTTAGTACAC
Statistics
Matches: 124, Mismatches: 13, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
63 5 0.04
64 54 0.44
65 63 0.51
66 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (63 bp):
ATGCATCGATGCACATACCATGCATCGATGCACCATAGATTAATTAAACATCGAATGCATTTT
Found at i:641640 original size:64 final size:66
Alignment explanation
Indices: 641478--641641 Score: 264
Period size: 65 Copynumber: 2.5 Consensus size: 66
641468 TGAATAAATT
* *
641478 AAACATCGAATCCATTTTATGCATCGATGCACA-TACCATGCATCGATGCACTCAGGTTTTAATG
1 AAACATCGAATGCATTTTATGCATCGATGCACACTACCATGCATCGATGCACTCAGGTTTTAATC
641542 A
66 A
*
641543 AAACATCGAATGCATTTTATGCATCGATGCACACT-CCATGCATCGATGCACGT-AGG-TTTATT
1 AAACATCGAATGCATTTTATGCATCGATGCACACTACCATGCATCGATGCAC-TCAGGTTTTAAT
641605 CA
65 CA
641607 AAACATCGAATGCATTTTATGCATCGATGCACACT
1 AAACATCGAATGCATTTTATGCATCGATGCACACT
641642 TAGTACACCG
Statistics
Matches: 94, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
64 41 0.44
65 51 0.54
66 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (66 bp):
AAACATCGAATGCATTTTATGCATCGATGCACACTACCATGCATCGATGCACTCAGGTTTTAATC
A
Found at i:641654 original size:64 final size:64
Alignment explanation
Indices: 641478--641658 Score: 233
Period size: 64 Copynumber: 2.8 Consensus size: 64
641468 TGAATAAATT
* * *
641478 AAACATCGAATCCATTTTATGCATCGATGCACA-TACCATGCATCGATGCACTCAGGTTTTAATG
1 AAACATCGAATGCATTTTATGCATCGATGCACACT--TATGCATCGATGCACTCAGGTTTTAATC
641542 A
64 A
* *
641543 AAACATCGAATGCATTTTATGCATCGATGCACACTCCATGCATCGATGCACGT-AGG-TTTATTC
1 AAACATCGAATGCATTTTATGCATCGATGCACACT-TATGCATCGATGCAC-TCAGGTTTTAATC
641606 A
64 A
* *
641607 AAACATCGAATGCATTTTATGCATCGATGCACACTTAGTACACCGATGCACT
1 AAACATCGAATGCATTTTATGCATCGATGCACACTTA-TGCATCGATGCACT
641659 AAGTGTTCCA
Statistics
Matches: 107, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
63 2 0.02
64 52 0.49
65 51 0.48
66 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (64 bp):
AAACATCGAATGCATTTTATGCATCGATGCACACTTATGCATCGATGCACTCAGGTTTTAATCA
Found at i:648046 original size:11 final size:11
Alignment explanation
Indices: 648030--648054 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
648020 GATTTTTCAA
648030 AAATAGTTTTC
1 AAATAGTTTTC
648041 AAATAGTTTTC
1 AAATAGTTTTC
648052 AAA
1 AAA
648055 ACCTTGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATAGTTTTC
Found at i:650377 original size:64 final size:64
Alignment explanation
Indices: 650216--650399 Score: 246
Period size: 64 Copynumber: 2.9 Consensus size: 64
650206 GAATAAATTG
* * * *
650216 AACATCGAATACATTTTATGCATCGATGCACATACCATGCACCGATGCACTCAAGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCACCGATGCACT-AAGTCTTAATCAA
* *
650281 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACGT-AGTCTTATTCAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCACCGATGCAC-TAAGTCTTAATCAA
* **
650345 AACATCGAATGCATTTTATGCATCGATTCACAC-TTAGTGCACCGATGCACTAAGT
1 AACATCGAATGCATTTTATGCATCGATGCACACACCA-TGCACCGATGCACTAAGT
650400 GTTCCAACAG
Statistics
Matches: 106, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
63 2 0.02
64 56 0.53
65 47 0.44
66 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACACACCATGCACCGATGCACTAAGTCTTAATCAA
Found at i:651643 original size:65 final size:65
Alignment explanation
Indices: 651465--652055 Score: 849
Period size: 65 Copynumber: 9.0 Consensus size: 65
651455 AACAAAATTG
* *
651465 ATAAACCTTTGAGATTGTTTATCTTGAAACAAGTTTTTTCTCGCTTGAGACAGTTTCTCTTGAAA
1 ATAAA-CTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
651530 C
65 C
* * * *
651531 ATACAACTTTGAGATTATTTCTCTTGAAATAAGTTTTGTCTCGCTTGACACAGTTTCTCTTGAAC
1 ATA-AACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
651596 C
65 C
* * *
651597 ATAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTTTCTCACTTGAGACAGTTTCTCTTAAAAC
1 ATAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAAC
* *
651662 ATAAACTGTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCACTTGAGACAGTTTCTCTTGAAAC
1 ATAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAAC
* * * * *
651727 ATAAACTTTGAGATTATTTCTCTTGAAACAAGTTTTGTCTCACTTGAGTCAATTTATCTTGAAAC
1 ATAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAAC
* * * *
651792 ATAAACTTTGAGATTGTTTCTCTTGGAACAAGTTTTGTCTCGCTTGAGACAATTTCTATTAAAAC
1 ATAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAAC
* * * * * *
651857 ATAAACCTTTGAGATCGTTTCTCTTGAAATAAATTTTATCTCTCTTGAGACATTTTCTCTTGAAA
1 ATAAA-CTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
651922 C
65 C
* *
651923 ATAAACCTATGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGATAGTTTCTCTTGAAA
1 ATAAA-CTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
651988 C
65 C
* * * *
651989 ATAAACCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGATAGTTTATCTTGAAA
1 ATAAA-CTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
652054 C
65 C
652055 A
1 A
652056 AATTATCCCT
Statistics
Matches: 474, Mismatches: 49, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
65 240 0.51
66 232 0.49
67 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (65 bp):
ATAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAAC
Found at i:651717 original size:36 final size:34
Alignment explanation
Indices: 651481--652056 Score: 152
Period size: 36 Copynumber: 17.5 Consensus size: 34
651471 CTTTGAGATT
* *
651481 GTTTATCTTGAAACAAGTTTTTTCTCGCTTGAGACA
1 GTTTCTCTTGAAACAA-TTTTATCTC-CTTGAGACA
** * *
651517 GTTTCTCTTGAAAC-A-TACAACT--TTGAGATTA
1 GTTTCTCTTGAAACAATTTTATCTCCTTGAGA-CA
* * *
651548 -TTTCTCTTGAAATAAGTTTTGTCTCGCTTGACACA
1 GTTTCTCTTGAAACAA-TTTTATCTC-CTTGAGACA
* * * **
651583 GTTTCTCTTG-AACCA--TAAACT--TTGAGATT
1 GTTTCTCTTGAAACAATTTTATCTCCTTGAGACA
*
651612 GTTTCTCTTGAAACAAGTTTTTTCTCACTTGAGACA
1 GTTTCTCTTGAAACAA-TTTTATCTC-CTTGAGACA
* * * * **
651648 GTTTCTCTTAAAAC-A--TAAACT--GTGAGATT
1 GTTTCTCTTGAAACAATTTTATCTCCTTGAGACA
*
651677 GTTTCTCTTGAAACAAGTTTTGTCTCACTTGAGACA
1 GTTTCTCTTGAAACAA-TTTTATCTC-CTTGAGACA
* * *
651713 GTTTCTCTTGAAAC-A--TAAACT--TTGAGATTA
1 GTTTCTCTTGAAACAATTTTATCTCCTTGAGA-CA
* *
651743 -TTTCTCTTGAAACAAGTTTTGTCTCACTTGAGTCA
1 GTTTCTCTTGAAACAA-TTTTATCTC-CTTGAGACA
* * * * **
651778 ATTTATCTTGAAAC-A--TAAACT--TTGAGATT
1 GTTTCTCTTGAAACAATTTTATCTCCTTGAGACA
* *
651807 GTTTCTCTTGGAACAAGTTTTGTCTCGCTTGAGACA
1 GTTTCTCTTGAAACAA-TTTTATCTC-CTTGAGACA
* * * * * *
651843 ATTTCTATTAAAAC-A--TAAAC-CTTTGAGATC-
1 GTTTCTCTTGAAACAATTTTATCTCCTTGAGA-CA
*
651873 GTTTCTCTTGAAATAAATTTTATCTCTCTTGAGACA
1 GTTTCTCTTGAAA-CAATTTTATCTC-CTTGAGACA
* ** **
651909 TTTTCTCTTGAAAC-A---TA-AACCTATGAGATT
1 GTTTCTCTTGAAACAATTTTATCTCCT-TGAGACA
* *
651939 GTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGATA
1 GTTTCTCTTGAAACAA-TTTTATCTC-CTTGAGACA
* * * **
651975 GTTTCTCTTGAAAC-A--TAAAC-CTTTGAGATT
1 GTTTCTCTTGAAACAATTTTATCTCCTTGAGACA
* * *
652005 GTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGATA
1 GTTTCTCTTGAAAC-AATTTTATCTC-CTTGAGACA
*
652041 GTTTATCTTGAAACAA
1 GTTTCTCTTGAAACAA
652057 ATTATCCCTA
Statistics
Matches: 376, Mismatches: 104, Indels: 121
0.63 0.17 0.20
Matches are distributed among these distances:
29 70 0.19
30 81 0.22
31 8 0.02
32 18 0.05
33 18 0.05
34 6 0.02
35 17 0.05
36 156 0.41
37 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (34 bp):
GTTTCTCTTGAAACAATTTTATCTCCTTGAGACA
Found at i:652384 original size:3 final size:3
Alignment explanation
Indices: 652376--652414 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
652366 TTTGTTCGGG
652376 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
652415 CATTTTGTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:659983 original size:36 final size:35
Alignment explanation
Indices: 659878--660452 Score: 171
Period size: 36 Copynumber: 17.5 Consensus size: 35
659868 CTTTGAGATT
659878 GTTTCTCTTGAAACAAGTTTGTCTCGCTTGAGACA
1 GTTTCTCTTGAAACAAGTTTGTCTCGCTTGAGACA
* **** **
659913 GTTTCTCTTAAAAC-A-TAAAACT---TTGAGATT
1 GTTTCTCTTGAAACAAGTTTGTCTCGCTTGAGACA
*
659943 GTTTCTTTTGAAACAAGTTTTGTCTCGCTTGAGACA
1 GTTTCTCTTGAAACAAG-TTTGTCTCGCTTGAGACA
*** **
659979 GTTTCTCTTGAAAC-A--TAAACT---TTGAGATT
1 GTTTCTCTTGAAACAAGTTTGTCTCGCTTGAGACA
* * * * *
660008 CTTTTTCTTGAAACAAGTTTTGACTAGCTTGAGAAA
1 GTTTCTCTTGAAACAAG-TTTGTCTCGCTTGAGACA
*** **
660044 GTTTCTCTTGAAAC-A--TAAACT---TTGAGATT
1 GTTTCTCTTGAAACAAGTTTGTCTCGCTTGAGACA
*
660073 GTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGATA
1 GTTTCTCTTGAAACAAG-TTTGTCTCGCTTGAGACA
*** *
660109 GTTTCTCTTGAAAC-A--TAAACT---TTGAGATTA
1 GTTTCTCTTGAAACAAGTTTGTCTCGCTTGAGA-CA
* * *
660139 -TTTCTTTTGAAACAAGTTTTGCCTTGCTTGAGACA
1 GTTTCTCTTGAAACAAG-TTTGTCTCGCTTGAGACA
* *** **
660174 ATTTCTCTTGAAAC-A--TAAACT---TTGAGATT
1 GTTTCTCTTGAAACAAGTTTGTCTCGCTTGAGACA
*
660203 GTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAG-TTTGTCTCGCTTGAGACA
* *** *
660239 ATTTCTCTTGAAAC-A--TAAAC-C-TTTGAGATCA
1 GTTTCTCTTGAAACAAGTTTGTCTCGCTTGAGA-CA
* * *
660270 -TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAAC-AAGTTTGTCTCGCTTGAGACA
* *** * **
660305 TTTTCTCTTGAAAC-A--TAAAC-C-TTTGAGATT
1 GTTTCTCTTGAAACAAGTTTGTCTCGCTTGAGACA
* *
660335 GTTTCTCTTGAAACAATTTTTGTCTCGCTTGAGATA
1 GTTTCTCTTGAAACAA-GTTTGTCTCGCTTGAGACA
*** * *
660371 GTTTCTCTTGAAAC-A--TAAAC-C-TTTGAGATA
1 GTTTCTCTTGAAACAAGTTTGTCTCGCTTGAGACA
* *
660401 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
1 GTTTCTCTTGAAAC-AAGTTTGTCTCGCTTGAGACA
*
660437 GTTTATCTTGAAACAA
1 GTTTCTCTTGAAACAA
660453 ATTATCCCTA
Statistics
Matches: 394, Mismatches: 90, Indels: 112
0.66 0.15 0.19
Matches are distributed among these distances:
29 75 0.19
30 83 0.21
31 7 0.02
32 21 0.05
33 19 0.05
34 8 0.02
35 27 0.07
36 154 0.39
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (35 bp):
GTTTCTCTTGAAACAAGTTTGTCTCGCTTGAGACA
Found at i:659995 original size:66 final size:66
Alignment explanation
Indices: 659862--660451 Score: 866
Period size: 65 Copynumber: 9.0 Consensus size: 66
659852 AACAAAATTG
* *
659862 ATAAACCTTTGAGATTGTTTCTCTTGAAACAAG-TTTGTCTCGCTTGAGACAGTTTCTCTTAAAA
1 ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
659926 C
66 C
*
659927 ATAAAACTTTGAGATTGTTTCTTTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
1 ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
659992 C
66 C
* * * * *
659993 AT-AAACTTTGAGATTCTTTTTCTTGAAACAAGTTTTGACTAGCTTGAGAAAGTTTCTCTTGAAA
1 ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
660057 C
66 C
*
660058 AT-AAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGATAGTTTCTCTTGAAA
1 ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
660122 C
66 C
* * * * *
660123 AT-AAACTTTGAGATTATTTCTTTTGAAACAAGTTTTGCCTTGCTTGAGACAATTTCTCTTGAAA
1 ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
660187 C
66 C
* *
660188 AT-AAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAA
1 ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
660252 C
66 C
* ** * * * *
660253 ATAAACCTTTGAGATCATTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTGAAA
1 ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
660318 C
66 C
* * *
660319 ATAAACCTTTGAGATTGTTTCTCTTGAAACAATTTTTGTCTCGCTTGAGATAGTTTCTCTTGAAA
1 ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
660384 C
66 C
* * * * *
660385 ATAAACCTTTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTATCTTGAAA
1 ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
660450 C
66 C
660451 A
1 A
660452 AATTATCCCT
Statistics
Matches: 480, Mismatches: 43, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
65 269 0.56
66 211 0.44
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (66 bp):
ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
C
Found at i:660078 original size:29 final size:29
Alignment explanation
Indices: 660044--660217 Score: 114
Period size: 29 Copynumber: 5.5 Consensus size: 29
660034 GCTTGAGAAA
660044 GTTTCTCTTGAAACATAAACTTTGAGATT
1 GTTTCTCTTGAAACATAAACTTTGAGATT
*** *
660073 GTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGATA
1 GTTTCTCTTGAAAC-A---TAAACT---TTGAGATT
660109 GTTTCTCTTGAAACATAAACTTTGAGATT
1 GTTTCTCTTGAAACATAAACTTTGAGATT
* * *** **
660138 ATTTCTTTTGAAACAAGTTTTGCCTTGCTTGAGACA
1 GTTTCTCTTGAAAC-A---TAAAC-T--TTGAGATT
*
660174 ATTTCTCTTGAAACATAAACTTTGAGATT
1 GTTTCTCTTGAAACATAAACTTTGAGATT
660203 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
660218 AGTTTTGTCT
Statistics
Matches: 109, Mismatches: 22, Indels: 28
0.69 0.14 0.18
Matches are distributed among these distances:
29 53 0.49
30 2 0.02
31 1 0.01
32 5 0.05
33 5 0.05
34 1 0.01
35 2 0.02
36 40 0.37
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (29 bp):
GTTTCTCTTGAAACATAAACTTTGAGATT
Found at i:660769 original size:3 final size:3
Alignment explanation
Indices: 660761--660823 Score: 81
Period size: 3 Copynumber: 21.0 Consensus size: 3
660751 TAGACTCCCG
* * * * *
660761 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TAA TAA TAA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
660809 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
660824 CATTTTGTAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:666853 original size:27 final size:28
Alignment explanation
Indices: 666822--666883 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
666812 GTTAGAAGGT
666822 CACATTGA-TAAAAAAACCGATAGGGGC
1 CACATTGATTAAAAAAACCGATAGGGGC
*
666849 CACATTGATTTAAAAAACCGATAGGGGC
1 CACATTGATTAAAAAAACCGATAGGGGC
666877 CACATTG
1 CACATTG
666884 TTTTTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 8 0.24
28 25 0.76
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (28 bp):
CACATTGATTAAAAAAACCGATAGGGGC
Found at i:667511 original size:19 final size:19
Alignment explanation
Indices: 667487--667523 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
667477 AGAGATTCAA
667487 CAAAATAATATATTATAAT
1 CAAAATAATATATTATAAT
* *
667506 CAAAATATTATTTTATAA
1 CAAAATAATATATTATAA
667524 ATTTTAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
CAAAATAATATATTATAAT
Found at i:679558 original size:24 final size:24
Alignment explanation
Indices: 679538--679613 Score: 98
Period size: 24 Copynumber: 3.2 Consensus size: 24
679528 TTGTGATTCC
679538 TGACATGGATTCTGATCTGATACT
1 TGACATGGATTCTGATCTGATACT
* * * *
679562 TGACCTGGATTTTAATCCGATACT
1 TGACATGGATTCTGATCTGATACT
* *
679586 TGACATGAATTCTGATATGATACT
1 TGACATGGATTCTGATCTGATACT
679610 TGAC
1 TGAC
679614 CTGAATTATG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (24 bp):
TGACATGGATTCTGATCTGATACT
Found at i:679574 original size:48 final size:48
Alignment explanation
Indices: 679519--679631 Score: 127
Period size: 48 Copynumber: 2.4 Consensus size: 48
679509 ATTTTCGATT
* * *
679519 TGAATTTTGTTGTGATTCCTGACATGGATTCTGATCTGATACTTGACC
1 TGAATTTTGTTCTGATTCCTGACATGAATTCTGATATGATACTTGACC
* ** * * *
679567 TGGATTTTAATCCGATACTTGACATGAATTCTGATATGATACTTGACC
1 TGAATTTTGTTCTGATTCCTGACATGAATTCTGATATGATACTTGACC
* *
679615 TGAATTATGTTTTGATT
1 TGAATTTTGTTCTGATT
679632 TTGATATATC
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (48 bp):
TGAATTTTGTTCTGATTCCTGACATGAATTCTGATATGATACTTGACC
Found at i:679630 original size:24 final size:24
Alignment explanation
Indices: 679538--679623 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 24
679528 TTGTGATTCC
* * *
679538 TGACATGGATTCTGATCTGATACT
1 TGACATGAATTATGATATGATACT
* * * * **
679562 TGACCTGGATTTTAATCCGATACT
1 TGACATGAATTATGATATGATACT
*
679586 TGACATGAATTCTGATATGATACT
1 TGACATGAATTATGATATGATACT
*
679610 TGACCTGAATTATG
1 TGACATGAATTATG
679624 TTTTGATTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (24 bp):
TGACATGAATTATGATATGATACT
Found at i:681699 original size:28 final size:28
Alignment explanation
Indices: 681668--681724 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
681658 AGAAAAAAGA
681668 AAACAACCGGTTTGACAGGTCTGACCCG
1 AAACAACCGGTTTGACAGGTCTGACCCG
681696 AAACAACCGGTTTGACAGGTCTGACCCG
1 AAACAACCGGTTTGACAGGTCTGACCCG
681724 A
1 A
681725 CTCGATCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.18
Consensus pattern (28 bp):
AAACAACCGGTTTGACAGGTCTGACCCG
Found at i:683479 original size:24 final size:24
Alignment explanation
Indices: 683445--683527 Score: 112
Period size: 24 Copynumber: 3.5 Consensus size: 24
683435 AATTAGGTTA
* *
683445 TGATACCTGACATGGATTCTAATC
1 TGATACTTGACATGGATTCTGATC
* *
683469 TGATACTTGACCTGGATTATGATC
1 TGATACTTGACATGGATTCTGATC
* *
683493 CGATACTTGACATGAATTCTGATC
1 TGATACTTGACATGGATTCTGATC
683517 TGATACTTGAC
1 TGATACTTGAC
683528 TTGTATTATG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (24 bp):
TGATACTTGACATGGATTCTGATC
Found at i:683512 original size:48 final size:48
Alignment explanation
Indices: 683446--683537 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
683436 ATTAGGTTAT
*
683446 GATACCTGACATGGATTCTAATCTGATACTTGACCTGGATTATGATCC
1 GATACCTGACATGAATTCTAATCTGATACTTGACCTGGATTATGATCC
* * * *
683494 GATACTTGACATGAATTCTGATCTGATACTTGACTTGTATTATG
1 GATACCTGACATGAATTCTAATCTGATACTTGACCTGGATTATG
683538 TTTTGATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (48 bp):
GATACCTGACATGAATTCTAATCTGATACTTGACCTGGATTATGATCC
Found at i:683544 original size:24 final size:24
Alignment explanation
Indices: 683445--683537 Score: 96
Period size: 24 Copynumber: 3.9 Consensus size: 24
683435 AATTAGGTTA
* * * *
683445 TGATACCTGACATGGATTCTAATC
1 TGATACTTGACATGAATTATGATC
* *
683469 TGATACTTGACCTGGATTATGATC
1 TGATACTTGACATGAATTATGATC
* *
683493 CGATACTTGACATGAATTCTGATC
1 TGATACTTGACATGAATTATGATC
* *
683517 TGATACTTGACTTGTATTATG
1 TGATACTTGACATGAATTATG
683538 TTTTGATTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (24 bp):
TGATACTTGACATGAATTATGATC
Found at i:686410 original size:24 final size:24
Alignment explanation
Indices: 686390--686464 Score: 98
Period size: 24 Copynumber: 3.2 Consensus size: 24
686380 TTGTGATTCC
686390 TGACATGGATTCTGATCTGATACT
1 TGACATGGATTCTGATCTGATACT
* * *
686414 TGACCTGGATTTTAATC-GATACT
1 TGACATGGATTCTGATCTGATACT
* *
686437 TGACATGAATTCTGATATGATACT
1 TGACATGGATTCTGATCTGATACT
686461 TGAC
1 TGAC
686465 CTGAATTATG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 18 0.43
24 24 0.57
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (24 bp):
TGACATGGATTCTGATCTGATACT
Found at i:686469 original size:24 final size:24
Alignment explanation
Indices: 686371--686471 Score: 89
Period size: 24 Copynumber: 4.2 Consensus size: 24
686361 GATTTCGATT
* * * *
686371 TGAATTCTGTTGTGATTCCTGACA
1 TGAATTCTGATATGATACTTGACA
* * *
686395 TGGATTCTGATCTGATACTTGACC
1 TGAATTCTGATATGATACTTGACA
* *
686419 TGGATT-TTA-ATCGATACTTGACA
1 TGAATTCTGATAT-GATACTTGACA
*
686442 TGAATTCTGATATGATACTTGACC
1 TGAATTCTGATATGATACTTGACA
686466 TGAATT
1 TGAATT
686472 ATGTTTTGAT
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
22 1 0.02
23 17 0.27
24 42 0.68
25 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (24 bp):
TGAATTCTGATATGATACTTGACA
Found at i:686689 original size:15 final size:13
Alignment explanation
Indices: 686661--686685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
686651 GGTTTTTGAA
686661 TTTTAAAAATATG
1 TTTTAAAAATATG
686674 TTTTAAAAATAT
1 TTTTAAAAATAT
686686 ATGTATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTTTAAAAATATG
Found at i:687132 original size:17 final size:18
Alignment explanation
Indices: 687112--687149 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
687102 TGATAAACCA
687112 TTTTAT-AAGTTAAATAT
1 TTTTATAAAGTTAAATAT
687129 TTTTATAAAAGTTAAATAT
1 TTTTAT-AAAGTTAAATAT
687148 TT
1 TT
687150 CGCTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTATAAAGTTAAATAT
Found at i:690856 original size:24 final size:24
Alignment explanation
Indices: 690829--690911 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
690819 TGAATTCTAT
*
690829 TATGATA-TATGACATGGATTTTGA
1 TATGATACT-TGACATGGATTCTGA
*
690853 TATGATACTTGACCTGGATTCTGA
1 TATGATACTTGACATGGATTCTGA
** *
690877 TCCGATACTTGACCT-GATTCTGA
1 TATGATACTTGACATGGATTCTGA
690900 TATGATACTTGA
1 TATGATACTTGA
690912 TCTGAATTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 18 0.35
24 33 0.63
25 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (24 bp):
TATGATACTTGACATGGATTCTGA
Found at i:690899 original size:23 final size:23
Alignment explanation
Indices: 690845--690916 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
690835 ATATGACATG
* *
690845 GATTTTGATATGATACTTGACCT
1 GATTCTGATACGATACTTGACCT
*
690868 GGATTCTGATCCGATACTTGACCT
1 -GATTCTGATACGATACTTGACCT
* *
690892 GATTCTGATATGATACTTGATCT
1 GATTCTGATACGATACTTGACCT
690915 GA
1 GA
690917 ATTATATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 22 0.52
24 20 0.48
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (23 bp):
GATTCTGATACGATACTTGACCT
Found at i:702565 original size:22 final size:21
Alignment explanation
Indices: 702540--702581 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
702530 AGATTCTACT
702540 TAAAAAT-CATAAAATATATATA
1 TAAAAATAC-TAAAATA-ATATA
702562 TAAAAATACTAAAATAATAT
1 TAAAAATACTAAAATAATAT
702582 CATTTGATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 14 0.74
23 1 0.05
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAAAATACTAAAATAATATA
Found at i:706506 original size:45 final size:46
Alignment explanation
Indices: 706442--706697 Score: 167
Period size: 45 Copynumber: 5.7 Consensus size: 46
706432 TTTATGATTG
*
706442 AATTTGCTTCCACTACTCTTCCGTGGAGTTTAATACTTTGCTGAAA
1 AATTTGCTTCCACTACTCTTCCGTGAAGTTTAATACTTTGCTGAAA
* * *
706488 AATTTG-TTCCACTGCTCTTCCGTGAAG-TCAGAT--TTATGTTTG---
1 AATTTGCTTCCACTACTCTTCCGTGAAGTTTA-ATACTT-TG-CTGAAA
* * *
706530 AATTTGCTTCCACTACTCTTTCATGGAGTTTAATACTTTGCTGAAA
1 AATTTGCTTCCACTACTCTTCCGTGAAGTTTAATACTTTGCTGAAA
** * * *
706576 AATCCG-TTCCACTACTCTTCCGTGAAGTTCAA-ATTTATGTTTG---
1 AATTTGCTTCCACTACTCTTCCGTGAAGTTTAATACTT-TG-CTGAAA
* * * * * *
706619 AATTTGCTTCTACTACTCTTTCGTGGAGTTTGATATTTTGCTAAAA
1 AATTTGCTTCCACTACTCTTCCGTGAAGTTTAATACTTTGCTGAAA
** * * *
706665 AAAATACGTTCCACTACTCTTCCTTGGAGTTTA
1 AATTTGC-TTCCACTACTCTTCCGTGAAGTTTA
706698 GATTTATGTT
Statistics
Matches: 158, Mismatches: 34, Indels: 35
0.70 0.15 0.15
Matches are distributed among these distances:
42 6 0.04
43 28 0.18
44 34 0.22
45 53 0.34
46 16 0.10
47 21 0.13
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (46 bp):
AATTTGCTTCCACTACTCTTCCGTGAAGTTTAATACTTTGCTGAAA
Found at i:706545 original size:88 final size:89
Alignment explanation
Indices: 706366--706714 Score: 459
Period size: 89 Copynumber: 3.9 Consensus size: 89
706356 TTACTTCATA
* * *** *
706366 ACTCTTCCGTGAAGATTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTTTATGGAGTTCAG
1 ACTCTTCCGTGGAG-TTTAATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGAAGTTCAG
*
706431 ATTTATGATTGAATTTGCTTCCACT
65 ATTTATGTTTGAATTTGCTTCCACT
** *
706456 ACTCTTCCGTGGAGTTTAATACTTTGCTGAAAAATTTGTTCCACTGCTCTTCCGTGAAG-TCAGA
1 ACTCTTCCGTGGAGTTTAATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGAAGTTCAGA
706520 TTTATGTTTGAATTTGCTTCCACT
66 TTTATGTTTGAATTTGCTTCCACT
* * *
706544 ACTCTTTCATGGAGTTTAATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGAAGTTCAAA
1 ACTCTTCCGTGGAGTTTAATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGAAGTTCAGA
*
706609 TTTATGTTTGAATTTGCTTCTACT
66 TTTATGTTTGAATTTGCTTCCACT
* * * * * * * *
706633 ACTCTTTCGTGGAGTTTGATATTTTGCTAAAAAAAATACGTTCCACTACTCTTCCTTGGAGTTTA
1 ACTCTTCCGTGGAGTTTAATACTTTGCT--GAAAAATCCGTTCCACTACTCTTCCGTGAAGTTCA
706698 GATTTATGTTTG-ATTTG
64 GATTTATGTTTGAATTTG
706715 ATTTGAAAAG
Statistics
Matches: 230, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
88 82 0.36
89 89 0.39
90 18 0.08
91 41 0.18
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (89 bp):
ACTCTTCCGTGGAGTTTAATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGAAGTTCAGA
TTTATGTTTGAATTTGCTTCCACT
Found at i:706593 original size:177 final size:178
Alignment explanation
Indices: 706385--706714 Score: 475
Period size: 177 Copynumber: 1.9 Consensus size: 178
706375 TGAAGATTTC
** * *
706385 ATACTTTGCTGAAAAATCCGTTCCACTACTCTTTTATGGAGTTCAGATTTATGATTGAATTTGCT
1 ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCATGAAGTTCAAATTTATGATTGAATTTGCT
* ** *
706450 TCCACTACTCTTCCGTGGAGTTTAATACTTTGCT-GAAAAATTTGTTCCACTGCTCTTCCGTGAA
66 TCCACTACTCTTCCGTGGAGTTTAATACTTTGCTAAAAAAATACGTTCCACTACTCTTCCGTGAA
706514 G-TCAGATTTATGTTTGAATTTGCTTCCACTACTCTTTCATGGAGTTTA
131 GTTCAGATTTATGTTTG-ATTTGCTTCCACTACTCTTTCATGGAGTTTA
* *
706562 ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGAAGTTCAAATTTATGTTTGAATTTGCT
1 ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCATGAAGTTCAAATTTATGATTGAATTTGCT
* * * * * *
706627 TCTACTACTCTTTCGTGGAGTTTGATATTTTGCTAAAAAAAATACGTTCCACTACTCTTCCTTGG
66 TCCACTACTCTTCCGTGGAGTTTAATACTTTGCT-AAAAAAATACGTTCCACTACTCTTCCGTGA
*
706692 AGTTTAGATTTATGTTTGATTTG
130 AGTTCAGATTTATGTTTGATTTG
706715 ATTTGAAAAG
Statistics
Matches: 133, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
177 89 0.67
179 30 0.23
180 14 0.11
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (178 bp):
ATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCATGAAGTTCAAATTTATGATTGAATTTGCT
TCCACTACTCTTCCGTGGAGTTTAATACTTTGCTAAAAAAATACGTTCCACTACTCTTCCGTGAA
GTTCAGATTTATGTTTGATTTGCTTCCACTACTCTTTCATGGAGTTTA
Found at i:707615 original size:57 final size:56
Alignment explanation
Indices: 707541--707650 Score: 193
Period size: 57 Copynumber: 1.9 Consensus size: 56
707531 GAAACACATT
* *
707541 ACAAGAAGGATTTATCCTAATTCCTTTCATGTCTCCACATCTAATCAGATCTCTTC
1 ACAAGAAGAATTTATCCTAATTACTTTCATGTCTCCACATCTAATCAGATCTCTTC
707597 ACAAGAAGAATTTTATCCTAATTACTTTCATGTCTCCACATCTAATCAGATCTC
1 ACAAGAAGAA-TTTATCCTAATTACTTTCATGTCTCCACATCTAATCAGATCTC
707651 GAATAAGGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
56 9 0.18
57 42 0.82
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.35
Consensus pattern (56 bp):
ACAAGAAGAATTTATCCTAATTACTTTCATGTCTCCACATCTAATCAGATCTCTTC
Found at i:724364 original size:21 final size:20
Alignment explanation
Indices: 724316--724399 Score: 114
Period size: 20 Copynumber: 4.2 Consensus size: 20
724306 ATTTCTCACG
724316 CATTTGTAAAGCCTTCGGGT
1 CATTTGTAAAGCCTTCGGGT
724336 CATTTGTAAAGCCTTCGGGT
1 CATTTGTAAAGCCTTCGGGT
* *
724356 CATTTTGTAAAGCCTTTGGAT
1 CA-TTTGTAAAGCCTTCGGGT
* * *
724377 TATTTGTAAATCCTTTGGGT
1 CATTTGTAAAGCCTTCGGGT
724397 CAT
1 CAT
724400 CTGTCAGTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 40 0.70
21 17 0.30
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (20 bp):
CATTTGTAAAGCCTTCGGGT
Found at i:724364 original size:41 final size:41
Alignment explanation
Indices: 724318--724399 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
724308 TTCTCACGCA
*
724318 TTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTTCGGGTCAT
1 TTTGTAAAGCCTTCGGATCATTTGTAAAGCCTTCGGGTCAT
* * * *
724359 TTTGTAAAGCCTTTGGATTATTTGTAAATCCTTTGGGTCAT
1 TTTGTAAAGCCTTCGGATCATTTGTAAAGCCTTCGGGTCAT
724400 CTGTCAGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (41 bp):
TTTGTAAAGCCTTCGGATCATTTGTAAAGCCTTCGGGTCAT
Found at i:724691 original size:139 final size:140
Alignment explanation
Indices: 724440--724695 Score: 331
Period size: 139 Copynumber: 1.8 Consensus size: 140
724430 TCAAGTCAAA
* * *
724440 CTCCACGGAAGAGTTGTGGAAACAAATACAACTTTGAATTTGATCTTCACGAAAGAGTAGTGAAA
1 CTCCACGGAAAAGTAGTGGAAACAAATACAACTTTGAATCTGATCTTCACGAAAGAGTAGTGAAA
* * **
724505 TTAGATTCTTATTAAGTCAATTGTTCTCAGCCTCCACAGAAGAGTAGTGAAGTAAGAACAAAACA
66 TCAAATTCTTATTAAGTCAATCATTCTCAGCCTCCACAGAAGAGTAGTGAAGTAAGAACAAAACA
724570 AAAATTCGCT
131 AAAATTCGCT
* *
724580 CTCCACGGAAAAGTAGTGGAATCAAAT-CAA-TCTTGAATCTGATCTTCACGGAAGAGTAGTGAA
1 CTCCACGGAAAAGTAGTGGAAACAAATACAACT-TTGAATCTGATCTTCACGAAAGAGTAGTGAA
* * * * *
724643 A-CAAATTCTT-TTCAAAGTTAGTCATTTTCAGCCTTCACGGAAGAGTAGTGAAG
65 ATCAAATTCTTATT--AAGTCAATCATTCTCAGCCTCCACAGAAGAGTAGTGAAG
724696 CAAAAGCAAG
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
137 2 0.02
138 8 0.08
139 65 0.66
140 24 0.24
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (140 bp):
CTCCACGGAAAAGTAGTGGAAACAAATACAACTTTGAATCTGATCTTCACGAAAGAGTAGTGAAA
TCAAATTCTTATTAAGTCAATCATTCTCAGCCTCCACAGAAGAGTAGTGAAGTAAGAACAAAACA
AAAATTCGCT
Found at i:724715 original size:12 final size:12
Alignment explanation
Indices: 724694--724724 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
724684 AGAGTAGTGA
724694 AGCAAAAGCAAG
1 AGCAAAAGCAAG
*
724706 AGCAAGAGCAAG
1 AGCAAAAGCAAG
724718 AGCAAAA
1 AGCAAAA
724725 TTCGCTCTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.58, C:0.16, G:0.26, T:0.00
Consensus pattern (12 bp):
AGCAAAAGCAAG
Found at i:726436 original size:18 final size:18
Alignment explanation
Indices: 726413--726460 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
726403 AATTAAATTA
* * *
726413 ATTAATTTTTATATTTTT
1 ATTAATTATTATAATATT
726431 ATTAATTATTATAATATT
1 ATTAATTATTATAATATT
726449 ATTAATTATTAT
1 ATTAATTATTAT
726461 TAGTACTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTAATTATTATAATATT
Found at i:727181 original size:34 final size:35
Alignment explanation
Indices: 727115--727181 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
727105 GATTAATTCT
* * *
727115 TTATTAATTTTCAATGATTATTTTTCCATTTTTTG
1 TTATTAATTCTCAATCATTATTTTTACATTTTTTG
727150 TTATTAA-TCTCAATCATTTATTTTTAC-TTTTT
1 TTATTAATTCTCAATCA-TTATTTTTACATTTTT
727182 CAATAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 12 0.43
35 16 0.57
ACGTcount: A:0.24, C:0.10, G:0.03, T:0.63
Consensus pattern (35 bp):
TTATTAATTCTCAATCATTATTTTTACATTTTTTG
Found at i:728320 original size:15 final size:17
Alignment explanation
Indices: 728300--728336 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
728290 CAACCCTAAG
*
728300 AAAAAGAT-AAATGA-A
1 AAAAAGATCAAACGACA
728315 AAAAAGATCAAACGACA
1 AAAAAGATCAAACGACA
728332 AAAAA
1 AAAAA
728337 ACATGCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.73, C:0.08, G:0.11, T:0.08
Consensus pattern (17 bp):
AAAAAGATCAAACGACA
Found at i:730619 original size:75 final size:75
Alignment explanation
Indices: 730523--730954 Score: 344
Period size: 75 Copynumber: 5.9 Consensus size: 75
730513 TATTTAAATA
*
730523 TTTTATTTATTTTTATATTTTTATTAATGAAAAAATAATTCTTAATTTTTACTTATTAATTATAA
1 TTTTATATATTTTTA-ATTTTTATTAATGAAAAAATAATTCTTAATTTTTACTTATTAATTATAA
*
730588 TTTATATTAAT
65 TTTATAATAAT
* * * * * *
730599 TTTT-TATATTTTCAA-TTTT-TTAATGGAAGAAATGATTCTTTATTTTTATTTATCAACTT-TA
1 TTTTATATATTTTTAATTTTTATTAAT-GAAAAAATAATTCTTAATTTTTACTTATTAA-TTATA
*
730660 ATTTATAA-CAT
64 ATTTATAATAAT
* * * * * *
730671 TTTTATATATTTTTAATTATTATTAATCAAAGAAAT-ATTTTTAAAATTTAACTTATTAACTATA
1 TTTTATATATTTTTAATTTTTATTAATGAAA-AAATAATTCTT-AATTTTTACTTATTAATTATA
730735 ATTTATAAT-AT
64 ATTTATAATAAT
* * * *
730746 TTTTATATATTTTTAATTTTTGTTAATTGAAAAAATAATCCTTAATTTTTA-TCTCTTAACTATA
1 TTTTATATATTTTTAATTTTTATTAA-TGAAAAAATAATTCTTAATTTTTACT-TATTAATTATA
* * *
730810 ATTTACAACATT
64 ATTTATAATAAT
* * * * * *
730822 TTTTATATATTTTTAATTTTTAATAA--AAAAGA-AATTCTTGACTTTTATTTGTTAATTATAA-
1 TTTTATATATTTTTAATTTTTATTAATGAAAAAATAATTCTTAATTTTTACTTATTAATTATAAT
* *
730883 TT-T-ACAGT
66 TTATAATAAT
** * * *
730891 TTTTATATA-TTAAAATTTTTA--ATTGAATAAATAAATT-TTAA-TTTTATTTATTAATTATAA
1 TTTTATATATTTTTAATTTTTATTAATGAAAAAAT-AATTCTTAATTTTTACTTATTAATTATAA
730951 TTTA
65 TTTA
730955 ATAGTTATAT
Statistics
Matches: 288, Mismatches: 48, Indels: 46
0.75 0.13 0.12
Matches are distributed among these distances:
66 1 0.00
68 32 0.11
69 18 0.06
70 4 0.01
71 2 0.01
72 33 0.11
73 55 0.19
74 15 0.05
75 91 0.32
76 37 0.13
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (75 bp):
TTTTATATATTTTTAATTTTTATTAATGAAAAAATAATTCTTAATTTTTACTTATTAATTATAAT
TTATAATAAT
Found at i:730682 original size:148 final size:149
Alignment explanation
Indices: 730523--730886 Score: 409
Period size: 148 Copynumber: 2.4 Consensus size: 149
730513 TATTTAAATA
* *
730523 TTTTATTTATTTTTATATTTTTATTAATGAAAAAATAATTCTTAATTTTTACTTATTAATTATAA
1 TTTTATATATTTTTA-ATTTTTATTAAT-AAAAAATAATTCTTAAATTTTACTTATTAATTATAA
* * * * * *
730588 TTTATATTAATTTTT-TATATTTTCAA-TTTT-TTAATGGAAGAAATGATTCTTTATTTTTATTT
64 TTTATAAT-ATTTTTATATATTTTCAATTTTTGTTAATGGAAAAAATAATCCTTAATTTTTATCT
* *
730650 ATCAACTTTAATTTATAACA-T
128 ATCAACTATAATTTACAACATT
* * * *
730671 TTTTATATATTTTTAATTATTATTAATCAAAGAAAT-ATTTTTAAAATTTAACTTATTAACTATA
1 TTTTATATATTTTTAATTTTTATTAAT-AAA-AAATAATTCTT-AAATTTTACTTATTAATTATA
* *
730735 ATTTATAATATTTTTATATATTTTTAATTTTTGTTAATTGAAAAAATAATCCTTAATTTTTATCT
63 ATTTATAATATTTTTATATATTTTCAATTTTTGTTAATGGAAAAAATAATCCTTAATTTTTATCT
* *
730800 CTTAACTATAATTTACAACATT
128 ATCAACTATAATTTACAACATT
* * * * * *
730822 TTTTATATATTTTTAATTTTTAATAA-AAAAGA-AATTCTTGACTTTTATTTGTTAATTATAATT
1 TTTTATATATTTTTAATTTTTATTAATAAAAAATAATTCTTAAATTTTACTTATTAATTATAATT
730885 TA
66 TA
730887 CAGTTTTTAT
Statistics
Matches: 180, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
147 45 0.25
148 61 0.34
149 7 0.04
150 42 0.23
151 25 0.14
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (149 bp):
TTTTATATATTTTTAATTTTTATTAATAAAAAATAATTCTTAAATTTTACTTATTAATTATAATT
TATAATATTTTTATATATTTTCAATTTTTGTTAATGGAAAAAATAATCCTTAATTTTTATCTATC
AACTATAATTTACAACATT
Found at i:731641 original size:25 final size:23
Alignment explanation
Indices: 731605--731694 Score: 62
Period size: 25 Copynumber: 3.9 Consensus size: 23
731595 TTTTTGATCC
*
731605 TATAAA-AT-ATTTTTATTTTAC
1 TATAAATATAATTTTTATTTTAA
*
731626 TATAAATTATAAATTTGTT-GTTTAA
1 TATAAA-TAT-AATTT-TTATTTTAA
*
731651 TATAAATATAATTTTAATATTTTAT
1 TATAAATATAATTTT--TATTTTAA
* *
731676 TATAATTA-AATTTTAATTT
1 TATAAATATAATTTTTATTT
731695 AAAGCTCTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
21 6 0.11
22 5 0.09
23 7 0.13
24 10 0.18
25 25 0.45
26 2 0.04
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (23 bp):
TATAAATATAATTTTTATTTTAA
Found at i:732966 original size:6 final size:6
Alignment explanation
Indices: 732943--733000 Score: 64
Period size: 6 Copynumber: 9.7 Consensus size: 6
732933 AAATCAAAGA
* * *
732943 AAAAAT AATAAA- AAAAAT AAAAAT AAAAGT AAAAGT AAAAGT AAAAAT
1 AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
732991 TAAAAT AAAA
1 AAAAAT AAAA
733001 CAAAATAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
5 3 0.07
6 40 0.87
7 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:732970 original size:5 final size:5
Alignment explanation
Indices: 732949--733008 Score: 50
Period size: 6 Copynumber: 11.0 Consensus size: 5
732939 AAGAAAAAAT
732949 AATAA AA-AA AATAAA AATAA AAGTAA AAGTAA AAGTAAA AATTAA AATAA
1 AATAA AATAA AAT-AA AATAA AA-TAA AA-TAA AA-T-AA AA-TAA AATAA
*
732999 AACAA AATAA
1 AATAA AATAA
733009 TAAATAACCT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
4 4 0.08
5 17 0.35
6 22 0.46
7 5 0.10
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:733638 original size:33 final size:31
Alignment explanation
Indices: 733601--733676 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 31
733591 AGTCCTACTT
733601 GGACTCAAATGCTTCAGTTTTAGTGTTTCAATA
1 GGACTCAAATG-TT-AGTTTTAGTGTTTCAATA
*
733634 GGACTCAAAAATGTTGGTTTTAGTGTTTCAATA
1 GGACTC--AAATGTTAGTTTTAGTGTTTCAATA
*
733667 GGACTTAAAT
1 GGACTCAAAT
733677 ACGTTGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
31 4 0.10
33 28 0.72
34 2 0.05
35 5 0.13
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (31 bp):
GGACTCAAATGTTAGTTTTAGTGTTTCAATA
Found at i:733767 original size:4 final size:4
Alignment explanation
Indices: 733735--733788 Score: 57
Period size: 4 Copynumber: 14.8 Consensus size: 4
733725 GGGCTTGCAA
733735 AAAT AAA- AAAT -AAT -AAT -AAT -AAT -AAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
733777 AAAT ATAAT AAA
1 AAAT A-AAT AAA
733789 ATATTTTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
3 18 0.38
4 25 0.53
5 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:734075 original size:164 final size:165
Alignment explanation
Indices: 733804--734133 Score: 653
Period size: 164 Copynumber: 2.0 Consensus size: 165
733794 TTTGTAGACC
733804 CGGACAAAAATGGATTTCTACAGCTGCCCCTCTTTGCACATTTTTGTGTTAACAAGAATAGGGCA
1 CGGACAAAAATGGATTTCTACAGCTGCCCCTCTTTGCACATTTTTGTGTTAACAAGAATAGGGCA
733869 AAGATGAAAAAGACAACCAGTTTTAGTTCGGTTCTCTTTGATTTGAGACTTGATAGTGTTTGTAG
66 AAGATGAAAAAGACAACCAGTTTTAGTTCGGTTCTCTTTGATTTGAGACTTGATAGTGTTTGTAG
733934 TGAAACTAAGTCCAT-CATTAGGCACGATATCCTT
131 TGAAACTAAGTCCATCCATTAGGCACGATATCCTT
733968 CGGACAAAAATGGATTTCTACAGCTGCCCCTCTTTGCACATTTTTGTGTTAACAAGAATAGGGCA
1 CGGACAAAAATGGATTTCTACAGCTGCCCCTCTTTGCACATTTTTGTGTTAACAAGAATAGGGCA
734033 AAGATGAAAAAGACAACCAGTTTTAGTTCGGTTCTCTTTGATTTGAGACTTGATAGTGTTTGTAG
66 AAGATGAAAAAGACAACCAGTTTTAGTTCGGTTCTCTTTGATTTGAGACTTGATAGTGTTTGTAG
734098 TGAAACTAAGTCCATCCATTAGGCACGATATCCTT
131 TGAAACTAAGTCCATCCATTAGGCACGATATCCTT
734133 C
1 C
734134 TTCTTGAAGT
Statistics
Matches: 165, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
164 145 0.88
165 20 0.12
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (165 bp):
CGGACAAAAATGGATTTCTACAGCTGCCCCTCTTTGCACATTTTTGTGTTAACAAGAATAGGGCA
AAGATGAAAAAGACAACCAGTTTTAGTTCGGTTCTCTTTGATTTGAGACTTGATAGTGTTTGTAG
TGAAACTAAGTCCATCCATTAGGCACGATATCCTT
Found at i:734540 original size:83 final size:83
Alignment explanation
Indices: 734334--734556 Score: 216
Period size: 83 Copynumber: 2.7 Consensus size: 83
734324 CCCTCTTGTC
* * * * * * * * * * * *
734334 TTGAGCTATGCTGCAAATGATGGTGCCTTTGAGCTGAGTGGAGTCGAACTCGGAGATCCTTGTT-
1 TTGAGTTATGATGTAAATGAT-GTGCCTTAGAGCTAAGCGTAATCGAACTCGAAGGTCTTTATTG
** *
734398 GACAGATAACCCTTTTAGCC
65 GA-AGATAACCCTTCAAGCA
* * *
734418 TTGAGTTATGTTGTAAATGATGTGCCTTAGAGCTAAGCGTAGTTGAACTCGAAGGTCTTTATTGG
1 TTGAGTTATGATGTAAATGATGTGCCTTAGAGCTAAGCGTAATCGAACTCGAAGGTCTTTATTGG
734483 AAGATAACCCTTCAAGCA
66 AAGATAACCCTTCAAGCA
* * *
734501 TTGAGTTATGATGTAAATGATGTGTCTT-GAAGTTGAGCGTAATCGAACTCGAAGGT
1 TTGAGTTATGATGTAAATGATGTGCCTTAG-AGCTAAGCGTAATCGAACTCGAAGGT
734557 TTGATGTTTC
Statistics
Matches: 116, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
82 1 0.01
83 95 0.82
84 20 0.17
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (83 bp):
TTGAGTTATGATGTAAATGATGTGCCTTAGAGCTAAGCGTAATCGAACTCGAAGGTCTTTATTGG
AAGATAACCCTTCAAGCA
Found at i:734605 original size:29 final size:29
Alignment explanation
Indices: 734563--734622 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
734553 AGGTTTGATG
* *
734563 TTTCAAGAGAAACATTTTCAAATGTTTTT
1 TTTCAAGAGAAACAATTTCAAAGGTTTTT
*
734592 TTTCAAGAGAAACAATTTCAAGGGTTTTT
1 TTTCAAGAGAAACAATTTCAAAGGTTTTT
734621 TT
1 TT
734623 GTGTTTCAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (29 bp):
TTTCAAGAGAAACAATTTCAAAGGTTTTT
Found at i:734840 original size:37 final size:37
Alignment explanation
Indices: 734749--734861 Score: 183
Period size: 36 Copynumber: 3.1 Consensus size: 37
734739 AAGATATTCA
**
734749 AAGATTTTGTTTCAAATGAAACTGTCTCAAGAGAGAC
1 AAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
*
734786 AA-AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
1 AAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
734822 AAGATTTTGTTTCAAGGGAAACTGTCTCAAAGAGAGAC
1 AAGATTTTGTTTCAAGGGAAACTGTCTC-AAGAGAGAC
734860 AA
1 AA
734862 AACTTGGAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
36 33 0.47
37 26 0.37
38 11 0.16
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (37 bp):
AAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
Found at i:736114 original size:32 final size:32
Alignment explanation
Indices: 736078--736167 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 32
736068 ATTCCCAATG
* **
736078 ATGCCCCAATATTCAATGTTGAATCTAAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTAAAAAA
* *
736110 ATGCCCCAACATTTGATGTTAAATCTCAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTAAAAAA
*
736142 ATGCCCCAGCATTTGATGTTGAATCT
1 ATGCCCCAACATTTGATGTTGAATCT
736168 TCAAAGATGC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTAAAAAA
Found at i:736178 original size:32 final size:32
Alignment explanation
Indices: 736078--736179 Score: 116
Period size: 32 Copynumber: 3.2 Consensus size: 32
736068 ATTCCCAATG
* ** **
736078 ATGCCCCAATATTCAATGTTGAATCTAAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTTCAAAA
*
736110 ATGCCCCAACATTTGATGTTAAATC-TCAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTTC-AAAA
* *
736142 ATGCCCCAGCATTTGATGTTGAATCTTCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTTCAAAA
736174 ATGCCC
1 ATGCCC
736180 TCATTGTTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
32 57 0.97
33 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTTCAAAA
Found at i:736333 original size:31 final size:33
Alignment explanation
Indices: 736272--736333 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
736262 GTCCCTTTTG
*
736272 GGTTATTGTGTTTGTTAAGTAAGGGTTTGGCTCA
1 GGTTATTGTGTTTGGTAAG-AAGGGTTTGGCTCA
*
736306 GGTTATTGTGTTTGGTCA-AA-GGTTTGGC
1 GGTTATTGTGTTTGGTAAGAAGGGTTTGGC
736334 ATTTTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 8 0.31
32 2 0.08
34 16 0.62
ACGTcount: A:0.16, C:0.06, G:0.34, T:0.44
Consensus pattern (33 bp):
GGTTATTGTGTTTGGTAAGAAGGGTTTGGCTCA
Found at i:736973 original size:69 final size:69
Alignment explanation
Indices: 736857--736994 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
736847 CATCTCTCTC
* * * * *
736857 TTGATGCTCTATGATCTTTGAGTGGAGTGATTCAGTGATTCATAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATATTCGAGTGAAGTGATTCAGTGATTCACAAATGATTATGCTTGATCAATC
736922 TCAT
66 TCAT
* *
736926 TTGATTCTCTATGATATTCGAGTGAAGTGGTTCAGTGATTCACAAATGATTATGCTTGATCAATC
1 TTGATGCTCTATGATATTCGAGTGAAGTGATTCAGTGATTCACAAATGATTATGCTTGATCAATC
736991 TCAT
66 TCAT
736995 AGTTTGAATC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (69 bp):
TTGATGCTCTATGATATTCGAGTGAAGTGATTCAGTGATTCACAAATGATTATGCTTGATCAATC
TCAT
Found at i:740164 original size:28 final size:28
Alignment explanation
Indices: 740125--740202 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
740115 CATAAGAATG
* *
740125 AAAAAATGATAATAACAAT-AAATCAA-
1 AAAAAATAATAATAAAAATAAAATCAAT
740151 AGAAAAATCAATAA-AAAAATAAAATCAAT
1 A-AAAAAT-AATAATAAAAATAAAATCAAT
* *
740180 AAAAAATAAAAATAAAAGTAAAA
1 AAAAAATAATAATAAAAATAAAA
740203 ATAAAATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 1 0.02
27 15 0.35
28 26 0.60
29 1 0.02
ACGTcount: A:0.74, C:0.05, G:0.04, T:0.17
Consensus pattern (28 bp):
AAAAAATAATAATAAAAATAAAATCAAT
Found at i:740185 original size:16 final size:17
Alignment explanation
Indices: 740154--740234 Score: 71
Period size: 17 Copynumber: 4.7 Consensus size: 17
740144 AAATCAAAGA
740154 AAAATCAATAAAAAAAT
1 AAAATCAATAAAAAAAT
740171 AAAATCAAT-AAAAAAT
1 AAAATCAATAAAAAAAT
740187 AAAAAT-AA-AAGTAAAAAT
1 -AAAATCAATAA--AAAAAT
* *
740205 AAAATAAAATAAATAAAAC
1 AAAAT-CAATAAA-AAAAT
740224 AAAAT-AATAAA
1 AAAATCAATAAA
740235 TAACCTAGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 16
0.76 0.01 0.22
Matches are distributed among these distances:
16 10 0.18
17 25 0.45
18 7 0.13
19 11 0.20
20 2 0.04
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.17
Consensus pattern (17 bp):
AAAATCAATAAAAAAAT
Found at i:740190 original size:5 final size:5
Alignment explanation
Indices: 740166--740230 Score: 62
Period size: 5 Copynumber: 12.4 Consensus size: 5
740156 AATCAATAAA
740166 AAAAT AAAAT CAATAA- AAAAT AAAAAT AAAAGT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT -AA-AAT AAAAT -AAAAT AAAA-T -AAAAT AAAAT AAAAT
*
740215 -AAAT AAAAC AAAAT AA
1 AAAAT AAAAT AAAAT AA
740231 TAAATAACCT
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
4 6 0.12
5 30 0.59
6 9 0.18
7 6 0.12
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:740190 original size:6 final size:6
Alignment explanation
Indices: 740181--740237 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
740171 AAAATCAATA
* *
740181 AAAAAT AAAAAT AAAAGT AAAAAT -AAAAT -AAAAT AAATAAA ACAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT A-AAAAT
740229 AATAAAT AA
1 AA-AAAT AA
740238 CCTAGAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
5 10 0.23
6 19 0.44
7 12 0.28
8 2 0.05
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:740193 original size:22 final size:21
Alignment explanation
Indices: 740165--740237 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 21
740155 AAATCAATAA
740165 AAAAATAAAATCAATAA-AAAAT
1 AAAAATAAAAT-AA-AACAAAAT
*
740187 AAAAATAAAAGTAAAAATAAAAT
1 AAAAATAAAA-T-AAAACAAAAT
740210 -AAAAT-AAATAAAACAAAAT
1 AAAAATAAAATAAAACAAAAT
740229 AATAAATAA
1 AA-AAATAA
740238 CCTAGAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
19 9 0.20
20 2 0.05
21 7 0.16
22 18 0.41
23 8 0.18
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (21 bp):
AAAAATAAAATAAAACAAAAT
Found at i:740201 original size:19 final size:18
Alignment explanation
Indices: 740111--740230 Score: 63
Period size: 17 Copynumber: 6.4 Consensus size: 18
740101 TGTTGGGAAA
740111 AAAACATAAGAATGAAAAAAT
1 AAAA-ATAA-AAT-AAAAAAT
* * *
740132 GATAATAACAATAAATCAAAG
1 AAAAATAA-AATAAA--AAAT
*
740153 AAAAAT-CAATAAAAAA-
1 AAAAATAAAATAAAAAAT
*
740169 ATAAAAT-CAATAAAAAAT
1 A-AAAATAAAATAAAAAAT
740187 AAAAATAAAAGT-AAAAAT
1 AAAAATAAAA-TAAAAAAT
740205 -AAAATAAAATAAATAAA-
1 AAAAATAAAATAAA-AAAT
740222 ACAAAATAA
1 A-AAAATAA
740231 TAAATAACCT
Statistics
Matches: 81, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
16 2 0.02
17 34 0.42
18 12 0.15
19 17 0.21
20 7 0.09
21 9 0.11
ACGTcount: A:0.74, C:0.05, G:0.04, T:0.17
Consensus pattern (18 bp):
AAAAATAAAATAAAAAAT
Found at i:740844 original size:33 final size:33
Alignment explanation
Indices: 740807--740883 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
740797 AGTCCTACTT
* * *
740807 GGACTCAAATGCTTTAGTTTTAGTGTTTCAATA
1 GGACTCAAATACGTTAGTTTTAGTATTTCAATA
*
740840 GGACTCAAATACGTTGGTTTTAGTATTTCAATA
1 GGACTCAAATACGTTAGTTTTAGTATTTCAATA
*
740873 AGACTCAAATA
1 GGACTCAAATA
740884 TGTTGATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (33 bp):
GGACTCAAATACGTTAGTTTTAGTATTTCAATA
Found at i:740960 original size:3 final size:3
Alignment explanation
Indices: 740942--741002 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
740932 TTCCTGTAAA
*
740942 AAT AAA AAT AAT -AT AAT AAT AAT AAT AAT AAT AA- AAT AAAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
740985 ATAT AAT -AT AAT AA- AAT A
1 A-AT AAT AAT AAT AAT AAT A
741003 CTTTTGTAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
2 9 0.18
3 36 0.73
4 4 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:747646 original size:21 final size:21
Alignment explanation
Indices: 747605--747646 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
747595 ACTGTCATTA
*
747605 ATGTCATCCTTATCCACAAAC
1 ATGTCATCCTTATCCAAAAAC
*
747626 ATGTCATCGTTGA-CCAAAAAC
1 ATGTCATCCTT-ATCCAAAAAC
747647 CGAGGAGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.36, C:0.29, G:0.10, T:0.26
Consensus pattern (21 bp):
ATGTCATCCTTATCCAAAAAC
Found at i:748363 original size:14 final size:15
Alignment explanation
Indices: 748344--748372 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
748334 CTTTTTTATC
748344 AAAAAAATTA-AATT
1 AAAAAAATTATAATT
748358 AAAAAAATTATAATT
1 AAAAAAATTATAATT
748373 TTAGTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAAAATTATAATT
Found at i:750962 original size:12 final size:12
Alignment explanation
Indices: 750945--750973 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
750935 AAATGTGTCA
750945 GGTTATGGAGTC
1 GGTTATGGAGTC
750957 GGTTATGGAGTC
1 GGTTATGGAGTC
750969 GGTTA
1 GGTTA
750974 CGGTCAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.07, G:0.41, T:0.34
Consensus pattern (12 bp):
GGTTATGGAGTC
Found at i:751329 original size:23 final size:24
Alignment explanation
Indices: 751299--751360 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 24
751289 AAAGAAAAAT
751299 AAATAAATAAAATAAAAG-ACAT-A
1 AAATAAAT-AAATAAAAGTACATAA
751322 AAATAAATAAAT-AAAGTACATAA
1 AAATAAATAAATAAAAGTACATAA
*
751345 AAACAAATGAAATAAA
1 AAATAAAT-AAATAAA
751361 TAAAATACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 4 0.12
22 8 0.24
23 16 0.47
24 4 0.12
25 2 0.06
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (24 bp):
AAATAAATAAATAAAAGTACATAA
Found at i:751331 original size:9 final size:9
Alignment explanation
Indices: 751295--751367 Score: 53
Period size: 9 Copynumber: 8.1 Consensus size: 9
751285 AAGAAAAGAA
751295 AAAT-AAAT
1 AAATAAAAT
751303 AAATAAAAT
1 AAATAAAAT
*
751312 AAA-AGACAT
1 AAATA-AAAT
751321 AAA-ATAAAT
1 AAATA-AAAT
*
751330 AAATAAAGT
1 AAATAAAAT
* *
751339 ACATAAAAAC
1 AAAT-AAAAT
*
751349 AAATGAAAT
1 AAATAAAAT
751358 AAATAAAAT
1 AAATAAAAT
751367 A
1 A
751368 CTAGAAAATA
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
8 5 0.10
9 38 0.76
10 7 0.14
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:751722 original size:14 final size:15
Alignment explanation
Indices: 751703--751741 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
751693 AAATGTACGT
*
751703 ATAAATAAAATTA-A
1 ATAAATAAAATAATA
751717 ATAAATAAAATAATA
1 ATAAATAAAATAATA
*
751732 ATAATTAAAA
1 ATAAATAAAA
751742 CGTAAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAATAAAATAATA
Found at i:752671 original size:84 final size:84
Alignment explanation
Indices: 752554--752800 Score: 280
Period size: 84 Copynumber: 2.9 Consensus size: 84
752544 ACTCGACAAT
*
752554 TTTA-TTGACAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGC
1 TTTAGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGC
752618 GTAGTCGAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * * ** * *
752637 TTTAGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTCCCTTAGAGCTGAGC
1 TTTAGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGC
* *
752702 ATAGTCGAACTCGAATGTC
66 GTAGTCGAACTCGAAGGTC
* * * * ** * *
752721 TTTTGGTGACAGATAACTCTTCTAGCCTTGAGTTACACTGTAAATGATGTGCCCTCGAAGCTGAG
1 TTTAGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATGTG-CCTTGGAGCTGAG
* *
752786 TGTAATCGAACTCGA
65 CGTAGTCGAACTCGA
752801 GGGTTTGGTT
Statistics
Matches: 131, Mismatches: 31, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
83 4 0.03
84 105 0.80
85 22 0.17
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (84 bp):
TTTAGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGC
GTAGTCGAACTCGAAGGTC
Found at i:752929 original size:36 final size:34
Alignment explanation
Indices: 752873--752973 Score: 130
Period size: 36 Copynumber: 2.9 Consensus size: 34
752863 TCAAAGGTTG
*
752873 AAGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 AAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
*
752907 ACATGTTTCAAGAGAAATTGTCTCAAGAGAGACAAA
1 A-A-GTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
* * * *
752943 AACTTCCAAAAGAAACTGTCTCAAGGGAGAC
1 AAGTTTCAAGAGAAACTGTCTCAAGAGAGAC
752974 GAAATTTGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
34 25 0.43
35 2 0.03
36 31 0.53
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.19
Consensus pattern (34 bp):
AAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
Found at i:752957 original size:34 final size:36
Alignment explanation
Indices: 752884--752973 Score: 121
Period size: 34 Copynumber: 2.6 Consensus size: 36
752874 AGTTTCAAGG
* * *
752884 GAAACTGTCTCAAGAGAGACAAAACATGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAACATCTTCCAAAA
*
752920 GAAATTGTCTCAAGAGAGACAAAA-A-CTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAACATCTTCCAAAA
*
752954 GAAACTGTCTCAAGGGAGAC
1 GAAACTGTCTCAAGAGAGAC
752974 GAAATTTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
34 24 0.50
35 1 0.02
36 23 0.48
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAACATCTTCCAAAA
Found at i:753046 original size:30 final size:30
Alignment explanation
Indices: 752998--753054 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
752988 GTATAACATA
*
752998 TTCAAAGATTTTGTTTCAA-ATGAAACTATT
1 TTCAAAGATTTTGCTTCAAGA-GAAACTATT
753028 TTCAAAG-TTTATGCTTCAAGAGAAACT
1 TTCAAAGATTT-TGCTTCAAGAGAAACT
753055 GTCTCAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.12
30 20 0.83
31 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (30 bp):
TTCAAAGATTTTGCTTCAAGAGAAACTATT
Found at i:753097 original size:37 final size:36
Alignment explanation
Indices: 753042--753227 Score: 102
Period size: 37 Copynumber: 5.3 Consensus size: 36
753032 AAGTTTATGC
* * **
753042 TTCAAGAGAAACTGTCTCAATGA-AGACAAAATTTTGT
1 TTCAAGGGAAACTATCTCAA-GAGAGACAAAA-TTCAT
*
753079 TTCAAGGGAACCTATCTCAAGAGAGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
* * * *** *
753115 TTCAAGGGAAA-TGTTTTC-A-A-TG--TTTA-T-GT
1 TTCAAGGGAAACT-ATCTCAAGAGAGACAAAATTCAT
* * * **
753144 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTCAT
* *
753181 TTCAAGGGAACCTATCTCAAGAGATACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
753217 TTCAAGGGAAA
1 TTCAAGGGAAA
753228 TGTTTTTAAT
Statistics
Matches: 109, Mismatches: 29, Indels: 23
0.68 0.18 0.14
Matches are distributed among these distances:
29 14 0.13
30 3 0.03
31 1 0.01
32 1 0.01
33 1 0.01
34 2 0.02
35 2 0.02
36 32 0.29
37 53 0.49
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (36 bp):
TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
Found at i:753149 original size:102 final size:102
Alignment explanation
Indices: 753026--753266 Score: 419
Period size: 102 Copynumber: 2.4 Consensus size: 102
753016 AATGAAACTA
* * *
753026 TTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAATGAAGACAAAATTTTGTTTCAAGGGAACC
1 TTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGAAGACAAAATTTTGTTTCAAGGGAACC
753091 TATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATG
66 TATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATG
*
753128 TTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACC
1 TTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGAAGACAAAATTTTGTTTCAAGGGAACC
*
753193 TATCTCAAGAGATACAAAATTCATTTCAAGGGAAATG
66 TATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATG
* *
753230 TTTTTAATGTTTATGTTTCAAGAGAAACTATCTCAAG
1 TTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAG
753267 AGAGATAAAA
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 132 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (102 bp):
TTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGAAGACAAAATTTTGTTTCAAGGGAACC
TATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATG
Found at i:753471 original size:37 final size:37
Alignment explanation
Indices: 753418--753968 Score: 191
Period size: 36 Copynumber: 15.8 Consensus size: 37
753408 ATGTTTCAAG
* *
753418 AGAAACTGTCTTAAGGGATACAAAATTTAGTTCTAAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAA
* * *
753455 AGAAAATGTCTCAAGGGAGACGAAA-TTAGTT-TCAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAA
* ** * *
753490 AGAAA-----ACAA---ATTCAAAAATTTTGTT-TCAAG
1 AGAAACTGTCTCAAGGGAGAC-AAAATTTAGTTCT-AAA
*
753520 GGAAACTGTCTCAAGGGAGACAAAATTT-GTTTCT-AA
1 AGAAACTGTCTCAAGGGAGACAAAATTTAG-TTCTAAA
* * *
753556 AGAAACTATCTCAAGAGAGACAAAACTTT-GTTCCAAA
1 AGAAACTGTCTCAAGGGAGACAAAA-TTTAGTTCTAAA
* * *
753593 AGAAATTGTCTCAAGGGAGACGAAA-TTAGTT-TCAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAA
* * ** * * *
753628 GGAAA-----AC-A--GATTCAATTATTTTGTT-TCAAG
1 AGAAACTGTCTCAAGGGAGACAA-AATTTAGTTCT-AAA
* * *
753658 GGAAACTGTCTCAAGAGAGACAAAATTT-GTT-TCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTAGTTCT-AAA
* * *
753694 GGAAACTATCTCAAGGGAGACAAAATTT-GTT-TCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTAGTTCT-AAA
** * *
753730 AGAAACTGTCTCAAAAGAGACAAAACTTAGTTCCAAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAA
* ** *
753767 AGAAATTGTCTCAAGGGAGACGGAA-TTAGTT-TCAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAA
* * ** * * *
753802 GGAAA-----AC-A--GATTCAATTATTTTGTT-TCAAG
1 AGAAACTGTCTCAAGGGAGACAA-AATTTAGTTCT-AAA
* * *
753832 GGAAACTGTCTCAAGAGAGACAAAATTT-GTT-TCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTAGTTCT-AAA
* * * *
753868 GGAAACTATCTCAAGGGAGAC-AAATTTTGTT-TCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTAGTTCT-AAA
* *
753904 AGAAACTGTCTCAAGGGAGACAAAACTTAGTTCCAAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAA
*
753941 AGAAACTGTCTCAAGGGAGACGAAATTT
1 AGAAACTGTCTCAAGGGAGACAAAATTT
753969 GTTTCAAGGG
Statistics
Matches: 391, Mismatches: 80, Indels: 86
0.70 0.14 0.15
Matches are distributed among these distances:
27 9 0.02
28 5 0.01
29 20 0.05
30 22 0.06
35 33 0.08
36 163 0.42
37 126 0.32
38 13 0.03
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (37 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAA
Found at i:753508 original size:65 final size:65
Alignment explanation
Indices: 753439--753692 Score: 231
Period size: 65 Copynumber: 3.8 Consensus size: 65
753429 TAAGGGATAC
* * *
753439 AAAATTTAG-TTCTAAAAGAAAATGTCTCAAGGGAGACGAAATTAGTTTCAAAGAAAACAAATTC
1 AAAATTTTGTTTC-AAAAGAAACTGTCTCAAGGGAGACAAAATTAGTTTCAAAGAAAACAAATTC
753503 A
65 A
** *
753504 AAAATTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCTAAAGAAACTATCTCA
1 AAAATTTTGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTAGTTTC-AAAGAAA--A---CA
***
753569 AGAGAGA
60 A-ATTCA
* * * * * *
753576 CAAAACTTTGTTCCAAAAGAAATTGTCTCAAGGGAGACGAAATTAGTTTCAAGGAAAACAGATTC
1 -AAAATTTTGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTAGTTTCAAAGAAAACAAATTC
753641 A
65 A
** ** * *
753642 ATTATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAA
1 AAAATTTTGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTAGTTTCAA
753693 GGGAAACTAT
Statistics
Matches: 149, Mismatches: 31, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
65 80 0.54
66 12 0.08
67 2 0.01
68 1 0.01
70 1 0.01
71 3 0.02
72 8 0.05
73 42 0.28
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.28
Consensus pattern (65 bp):
AAAATTTTGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTAGTTTCAAAGAAAACAAATTCA
Found at i:753542 original size:167 final size:166
Alignment explanation
Indices: 753171--753546 Score: 581
Period size: 166 Copynumber: 2.3 Consensus size: 166
753161 CAAGGGAGAC
* * *
753171 AAAATTTTGTTTCAAGGGAACCTATCTCAAGAGATACAAAATTCATTTCAAGGGAAATGTTTTTA
1 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCA
* *
753236 ATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGATAAAACTTAGTTCCCAAAAAAATGTCTCA
66 ATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAAAAATGTCTCA
* *
753301 AGGGAGACGAAATTTGTTTCAAAGGAAACAAATTCA
131 AGGGAGACGAAATTAGTTTCAAAGAAAACAAATTCA
* * *
753337 AAGATTTTGTTTTAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCA
1 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCA
* * * * * *
753402 ATGTTTATGTTTCAAGAGAAACTGTCTTAAGGGATACAAAATTTAGTTCTAAAAGAAAATGTCTC
66 ATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAA-AAAATGTCTC
753467 AAGGGAGACGAAATTAGTTTCAAAGAAAACAAATTCA
130 AAGGGAGACGAAATTAGTTTCAAAGAAAACAAATTCA
* *
753504 AAAATTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
753547 TGTTTCTAAA
Statistics
Matches: 188, Mismatches: 21, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
166 105 0.56
167 83 0.44
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (166 bp):
AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCA
ATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAAAAATGTCTCA
AGGGAGACGAAATTAGTTTCAAAGAAAACAAATTCA
Found at i:753551 original size:36 final size:36
Alignment explanation
Indices: 753504--754069 Score: 426
Period size: 36 Copynumber: 16.1 Consensus size: 36
753494 AACAAATTCA
753504 AAAATTTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
1 AAAA-TTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
* * *
753541 AAAATTTGTTTCTAA-AGAAACTATCTCAAGAGAGAC
1 AAAATTTGTTTC-AAGGGAAACTGTCTCAAGGGAGAC
* ** *
753577 AAAACTTTGTTCCAAAAGAAATTGTCTCAAGGGAGAC
1 AAAA-TTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
* * * *
753614 GAAATTAGTTTCAAGGAAAACAGAT-TC-----A-A-
1 AAAATTTGTTTCAAGGGAAACTG-TCTCAAGGGAGAC
** * *
753643 TTATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
1 AAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
*
753679 AAAATTTGTTTCAAGGGAAACTATCTCAAGGGAGAC
1 AAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
* **
753715 AAAATTTGTTTCAAGAGAAACTGTCTCAAAAGAGAC
1 AAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
* * ** *
753751 AAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAGAC
1 AAAA-TTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
** * * *
753788 GGAATTAGTTTCAAGGAAAACAGAT-TC-----A-A-
1 AAAATTTGTTTCAAGGGAAACTG-TCTCAAGGGAGAC
** * *
753817 TTATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
1 AAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
*
753853 AAAATTTGTTTCAAGGGAAACTATCTCAAGGGAGAC
1 AAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
* *
753889 AAATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1 AAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
* * **
753925 AAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGAC
1 AAAA-TTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
* *
753962 GAAATTTGTTTCAAGGGAAACATAT-TC-----A-A-
1 AAAATTTGTTTCAAGGGAAAC-TGTCTCAAGGGAGAC
* * * *
753991 ATATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 AAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
* *
754027 AAAATTAGTTGTTTCAAGGGAAACTGTCTCATGAGAGAC
1 AAAA-T--TTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
754066 AAAA
1 AAAA
754070 CTTGGAAAAT
Statistics
Matches: 419, Mismatches: 75, Indels: 68
0.75 0.13 0.12
Matches are distributed among these distances:
28 5 0.01
29 58 0.14
30 3 0.01
31 3 0.01
34 3 0.01
35 3 0.01
36 212 0.51
37 99 0.24
39 33 0.08
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (36 bp):
AAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
Found at i:753570 original size:268 final size:268
Alignment explanation
Indices: 753068--753597 Score: 656
Period size: 268 Copynumber: 2.0 Consensus size: 268
753058 TCAATGAAGA
* *
753068 CAAAATTTTGTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
1 CAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
* ** **
753133 AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACCTATCT
66 AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAAAGAAAATATCT
* * * *** ** **
753198 CAAGAGATACAAAATTCATTTCAAGGGAAATGTTTTTAATGTTTATGTTTCAAGAGAAACTATCT
131 CAAGAGAGACAAAATTCATTTCAAAGAAAAAAATTCAAAAATTTATGTTTCAAGAGAAACTATCT
* * * * * *
753263 CAAGAGAGATAAAACTTAGTTCCCAAAAAAATGTCTCAAGGGAGACGAAA-TTTGTTTCAAAGGA
196 CAAGAGAGACAAAACTTAGTTCCCAAAAAAATATCTCAAGAGAGACAAAACTTTGTTCCAAAAGA
753327 AACAAATT
261 AACAAATT
*
753335 CAAAGATTTTGTTTTAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
1 CAAA-ATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
* * *
753400 CAATGTTTATGTTTCAAGAGAAACTGTCTTAAGGGATACAAAATTTAG-TTCTAAAAGAAAATGT
65 CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTC-AAAAGAAAATAT
* * *
753464 CTCAAGGGAGACGAAATT-AGTTTCAAAGAAAACAAATTCAAAAATTT-TGTTTCAAGGGAAACT
129 CTCAAGAGAGACAAAATTCA-TTTCAAAGAAAA-AAATTCAAAAATTTATGTTTCAAGAGAAACT
* * * * * *
753527 GTCTCAAGGGAGACAAAA-TTTGTTTCTAAAGAAACTATCTCAAGAGAGACAAAACTTTGTTCCA
192 ATCTCAAGAGAGACAAAACTTAGTTCCCAAA-AAAATATCTCAAGAGAGACAAAACTTTGTTCCA
753591 AAAGAAA
256 AAAGAAA
753598 TTGTCTCAAG
Statistics
Matches: 221, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
267 17 0.08
268 183 0.83
269 21 0.10
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (268 bp):
CAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTC
AATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAAAGAAAATATCT
CAAGAGAGACAAAATTCATTTCAAAGAAAAAAATTCAAAAATTTATGTTTCAAGAGAAACTATCT
CAAGAGAGACAAAACTTAGTTCCCAAAAAAATATCTCAAGAGAGACAAAACTTTGTTCCAAAAGA
AACAAATT
Found at i:753657 original size:138 final size:137
Alignment explanation
Indices: 753409--753771 Score: 503
Period size: 138 Copynumber: 2.6 Consensus size: 137
753399 TCAATGTTTA
* * * *
753409 TGTTTCAAGAGAAACTGTCTTAAGGGATACAAAATTTAGTTCTAAAAGAAAATGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT-GTTCCAAAAGAAAATGTCTCAAGGGAG
*
753474 ACGAAATTAGTTTCAAAGAAAACAAATTCAAAAATTTTGTTTCAAGGGAAACTGTCTCAAGGGAG
65 ACGAAATTAGTTTCAAAGAAAACAAATTCAAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
753539 ACAAAATT
130 ACAAAATT
* *
753547 TGTTTCTAA-AGAAACTATCTCAAGAGAGACAAAACTTTGTTCCAAAAGAAATTGTCTCAAGGGA
1 TGTTTC-AAGAGAAACTATCTCAAGGGAGACAAAA-TTTGTTCCAAAAGAAAATGTCTCAAGGGA
* * **
753611 GACGAAATTAGTTTCAAGGAAAACAGATTCAATTATTTTGTTTCAAGGGAAACTGTCTCAAGAGA
64 GACGAAATTAGTTTCAAAGAAAACAAATTCAAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGA
753676 GACAAAATT
129 GACAAAATT
* * * * **
753685 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAAAGAGA
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTCCAAAAGAAAATGTCTCAAGGGAGA
* *
753750 CAAAACTTAGTTCCAAAAGAAA
66 CGAAA-TTAGTTTC-AAAGAAA
753772 TTGTCTCAAG
Statistics
Matches: 199, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
137 32 0.16
138 156 0.78
139 11 0.06
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (137 bp):
TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTCCAAAAGAAAATGTCTCAAGGGAGA
CGAAATTAGTTTCAAAGAAAACAAATTCAAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
CAAAATT
Found at i:753708 original size:174 final size:175
Alignment explanation
Indices: 753504--754069 Score: 940
Period size: 174 Copynumber: 3.2 Consensus size: 175
753494 AACAAATTCA
* *
753504 AAAATTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCTAA-AGAAACTATCTC
1 AAAATTTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTC-AAGAGAAACTGTCTC
*
753568 AAGAGAGACAAAACTTTGTTCCAAAAGAAATTGTCTCAAGGGAGACGAAATTAGTTTCAAGGAAA
65 AAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAGACGAAATTAGTTTCAAGGAAA
753633 ACAGATTCAATTATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
130 ACAGATTCAATTATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
753679 AAAA-TTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCA
1 AAAATTTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCA
* *
753743 AAAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAGACGGAATTAGTTTCAAGGAAAA
66 AGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAGACGAAATTAGTTTCAAGGAAAA
753808 CAGATTCAATTATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
131 CAGATTCAATTATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
*
753853 AAAA-TTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAATTTTGTTTCAAGAGAAACTGTCTCA
1 AAAATTTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCA
* * * *
753917 AGGGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAA
66 AGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAGACGAAATTAGTTTCAAGGAAAA
* * *
753982 CATATTCAAATATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
131 CAGATTCAATTATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
* * *
754027 AAAATTAGTTGTTTCAAGGGAAACTGTCTCATGAGAGACAAAA
1 AAAATT--TTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAA
754070 CTTGGAAAAT
Statistics
Matches: 368, Mismatches: 19, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
173 2 0.01
174 330 0.90
175 5 0.01
177 31 0.08
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27
Consensus pattern (175 bp):
AAAATTTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCA
AGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAGACGAAATTAGTTTCAAGGAAAA
CAGATTCAATTATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
Found at i:753934 original size:138 final size:138
Alignment explanation
Indices: 753683--753935 Score: 373
Period size: 138 Copynumber: 1.8 Consensus size: 138
753673 AGAGACAAAA
* *
753683 TTTGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAAAGA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAAAGA
* **
753748 GACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAGACGGAATTAGTTTCAAGGAAAACAGAT
66 GACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAATTAGTTTCAAGGAAAACAGAT
753813 TCAATTAT
131 TCAATTAT
* * **
753821 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGGGA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAAAGA
* * * *
753886 GAC-AAATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTAGTT
66 GACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAA-TTAGTT
753936 CCAAAAGAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
137 33 0.33
138 68 0.67
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (138 bp):
TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAAAGA
GACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAATTAGTTTCAAGGAAAACAGAT
TCAATTAT
Found at i:753975 original size:73 final size:72
Alignment explanation
Indices: 753819--754069 Score: 241
Period size: 73 Copynumber: 3.5 Consensus size: 72
753809 AGATTCAATT
* * **
753819 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGG
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAAGAAACTATCTCAAGG
753884 GAGACAA
66 GAGACAA
* * *
753891 ATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAG
1 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAAGAAACTATCTCAAG
753956 GGAGACGAA
65 GGAGAC-AA
* * * * * **
753965 A-TTTGTTTCAAGGGAAACATAT-TC-----A-A-ATATTTTGTTTCAAGGGAAACTATCTCAAG
1 ATTTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAATTAGTTCCAAAAGAAACTATCTCAAG
*
754021 AGAGACAAA
65 GGAGAC-AA
*
754030 ATTAGTTGTTTCAAGGGAAACTGTCTCATGAGAGACAAAA
1 ATT--TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
754070 CTTGGAAAAT
Statistics
Matches: 144, Mismatches: 21, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
65 29 0.20
66 3 0.02
67 3 0.02
68 19 0.13
72 36 0.25
73 46 0.32
74 6 0.04
75 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (72 bp):
ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAAGAAACTATCTCAAGG
GAGACAA
Found at i:754897 original size:31 final size:31
Alignment explanation
Indices: 754847--754949 Score: 125
Period size: 32 Copynumber: 3.3 Consensus size: 31
754837 CATCAGGATA
* * * *
754847 TTGAATTCTCAAAGATGCCCCAATATTCGATG
1 TTGAA-TCTAAAAAATGCCCCAACATTTGATG
754879 TTGAATCTAAAAAATGCCCCAACATTTGATG
1 TTGAATCTAAAAAATGCCCCAACATTTGATG
* * *
754910 TTAAATCTCAAAAAATACCCCAGCATTTGATG
1 TTGAATCT-AAAAAATGCCCCAACATTTGATG
754942 TTGAATCT
1 TTGAATCT
754950 TCAAAGATGC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
31 29 0.47
32 33 0.53
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (31 bp):
TTGAATCTAAAAAATGCCCCAACATTTGATG
Found at i:758300 original size:23 final size:23
Alignment explanation
Indices: 758260--758327 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
758250 GGGACAATCT
* *
758260 TACATGGCACTCCCGTGCATTTC
1 TACATGGCACTACGGTGCATTTC
* *
758283 TACGTGGCACTACGGTGCAATTC
1 TACATGGCACTACGGTGCATTTC
*
758306 TACATGGCACTTCGGTGCATTT
1 TACATGGCACTACGGTGCATTT
758328 ATATGAGCTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (23 bp):
TACATGGCACTACGGTGCATTTC
Done.