Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008693.1 Hibiscus syriacus cultivar Beakdansim tig00111721_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: 2243253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 10
Found at i:1323818 original size:10 final size:10
Alignment explanation
Indices: 1323805--1323836 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
1323795 GTTTATGATC
1323805 GTTCATTTAT
1 GTTCATTTAT
1323815 GTTCATTTAT
1 GTTCATTTAT
*
1323825 GTTTATTTAT
1 GTTCATTTAT
1323835 GT
1 GT
1323837 GTTCTCGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (10 bp):
GTTCATTTAT
Found at i:1326700 original size:14 final size:15
Alignment explanation
Indices: 1326683--1326711 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1326673 AATAAAAAGG
1326683 AAATTAAGA-AAAAT
1 AAATTAAGATAAAAT
1326697 AAATTAAGATAAAAT
1 AAATTAAGATAAAAT
1326712 TTTTAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (15 bp):
AAATTAAGATAAAAT
Found at i:1333117 original size:2 final size:2
Alignment explanation
Indices: 1333110--1333175 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
1333100 GTTTTATACG
1333110 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1333152 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
1333176 CGTATGAATC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1334611 original size:42 final size:42
Alignment explanation
Indices: 1334480--1334658 Score: 180
Period size: 42 Copynumber: 4.1 Consensus size: 42
1334470 ATAGTGTTCA
* * *
1334480 TATTTACATCAAAACAATATTCATATTTATACTT-GAATAAT
1 TATTTACATCAAAACAGTATTTATATTTACACTTAGAATAAT
*
1334521 TATTTACATCAAAACAATGCCCATATTTAATTATTTACGCTTAGAATAAT
1 TATTTACATCAAAAC-A-G----TATTT-A-TATTTACACTTAGAATAAT
* *
1334571 TATTTGCATCAAAACAGTGTTTATATTTACACTTAGAATAAT
1 TATTTACATCAAAACAGTATTTATATTTACACTTAGAATAAT
* * * * *
1334613 TATTTGCATTAAAATAGTGTTTATATTTAAACTTAGAATAAT
1 TATTTACATCAAAACAGTATTTATATTTACACTTAGAATAAT
1334655 TATT
1 TATT
1334659 CTTCCATGGT
Statistics
Matches: 119, Mismatches: 10, Indels: 17
0.82 0.07 0.12
Matches are distributed among these distances:
41 15 0.13
42 62 0.52
43 1 0.01
44 4 0.03
47 4 0.03
48 2 0.02
49 10 0.08
50 21 0.18
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (42 bp):
TATTTACATCAAAACAGTATTTATATTTACACTTAGAATAAT
Found at i:1337503 original size:22 final size:22
Alignment explanation
Indices: 1337473--1337517 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1337463 ATTGACTTTT
*
1337473 TGGTTAAAGCCAAAGTCAACTC
1 TGGTCAAAGCCAAAGTCAACTC
1337495 TGGTCAAAGCCAAAGTCAACTC
1 TGGTCAAAGCCAAAGTCAACTC
1337517 T
1 T
1337518 AGTTAATGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (22 bp):
TGGTCAAAGCCAAAGTCAACTC
Found at i:1346458 original size:18 final size:20
Alignment explanation
Indices: 1346414--1346458 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
1346404 ACTTGTAAAT
*
1346414 ATATTTTCTTATTTATGTAA
1 ATATTTTCTTATTTATCTAA
1346434 ATA--TTCTTA-TT-TCTAA
1 ATATTTTCTTATTTATCTAA
1346450 ATATTTTCT
1 ATATTTTCT
1346459 GACTTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 7 0.32
17 2 0.09
18 10 0.45
20 3 0.14
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (20 bp):
ATATTTTCTTATTTATCTAA
Found at i:1346859 original size:112 final size:110
Alignment explanation
Indices: 1346651--1346866 Score: 263
Period size: 112 Copynumber: 1.9 Consensus size: 110
1346641 AGAATTGAAG
* * * * *
1346651 TTGAATGTGTGTTACTTTTTTCAAGAATTATTAGAAATGCATTTTTTTGTTTATAAAAATGCAAT
1 TTGAATATGTGTTACTGTTTTCAAGAATTATAAGAAATGCATTTTTTTGTTTATAAAAATCCAAC
* **
1346716 AGCTTGACTATAGACATTATAGGTATGTTCTCATTCAATTTATAA
66 AGCCTGACTATAGACATTATAGGTACATTCTCATTCAATTTATAA
**
1346761 TTGAATATGTGTTACTGTTTTCAAGGGTTATAAGAAATGCATGATTTTTTTGTTTAT-AAAATCC
1 TTGAATATGTGTTACTGTTTTCAAGAATTATAAGAAATGC---ATTTTTTTGTTTATAAAAATCC
* * * * *
1346825 AGCAGCCTGATTATAGACTTTATAGTTCCATTCTCATTCAAT
63 AACAGCCTGACTATAGACATTATAGGTACATTCTCATTCAAT
1346867 GCAGTATGCA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
110 35 0.40
112 39 0.44
113 14 0.16
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (110 bp):
TTGAATATGTGTTACTGTTTTCAAGAATTATAAGAAATGCATTTTTTTGTTTATAAAAATCCAAC
AGCCTGACTATAGACATTATAGGTACATTCTCATTCAATTTATAA
Found at i:1346907 original size:14 final size:14
Alignment explanation
Indices: 1346885--1346918 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1346875 CACAAATTAG
*
1346885 TTTATTGCTCTTAT
1 TTTAATGCTCTTAT
*
1346899 TTTAATGCTTTTAT
1 TTTAATGCTCTTAT
1346913 TTTAAT
1 TTTAAT
1346919 TTTCAGTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (14 bp):
TTTAATGCTCTTAT
Found at i:1349494 original size:16 final size:16
Alignment explanation
Indices: 1349457--1349495 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1349447 TGTTGTTGAA
*
1349457 CTGATTTGATATTTAC
1 CTGACTTGATATTTAC
**
1349473 AAGACTTGATATTTAC
1 CTGACTTGATATTTAC
1349489 CTGACTT
1 CTGACTT
1349496 ATAAGTAACA
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (16 bp):
CTGACTTGATATTTAC
Found at i:1349655 original size:19 final size:19
Alignment explanation
Indices: 1349631--1349676 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
1349621 AAATTTGGTT
*
1349631 TTTATATTAATTCCAATTC
1 TTTATATTAATTACAATTC
* *
1349650 TTTATATTATTTATAATTC
1 TTTATATTAATTACAATTC
1349669 -TTATATTA
1 TTTATATTA
1349677 TAAATTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATATTAATTACAATTC
Found at i:1350292 original size:23 final size:23
Alignment explanation
Indices: 1350266--1350320 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
1350256 ACAGTAACCG
*
1350266 GCAAGCATCACTGTATCAATTCA
1 GCAAGCATCACTGCATCAATTCA
*
1350289 GCAAGCATCATTGCATCAATTCA
1 GCAAGCATCACTGCATCAATTCA
*
1350312 GCAAACATC
1 GCAAGCATC
1350321 TTGCATTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (23 bp):
GCAAGCATCACTGCATCAATTCA
Found at i:1350445 original size:20 final size:20
Alignment explanation
Indices: 1350422--1350493 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
1350412 AAATATCAAG
1350422 CAGAATCAAGCAATATAAAA
1 CAGAATCAAGCAATATAAAA
* *
1350442 CAGAAGCAAACAATATAAAA
1 CAGAATCAAGCAATATAAAA
* * *
1350462 CATAATCAAGCAATATCAAG
1 CAGAATCAAGCAATATAAAA
1350482 CAGAATCAAGCA
1 CAGAATCAAGCA
1350494 TCAACTATTG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.57, C:0.18, G:0.11, T:0.14
Consensus pattern (20 bp):
CAGAATCAAGCAATATAAAA
Found at i:1354784 original size:31 final size:32
Alignment explanation
Indices: 1354746--1354820 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 32
1354736 TAAGGTGACC
* * **
1354746 CTTGGGTAGGCTC-TGCGGCCCTGCGATTTTT
1 CTTGGGTAGGCTCTTGCGGCCCCGAGAACTTT
* *
1354777 CTTGGGTAGAC-CTTGTGGCCCCGAGAACTTT
1 CTTGGGTAGGCTCTTGCGGCCCCGAGAACTTT
1354808 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
1354821 ATAGGCCCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
30 1 0.03
31 33 0.94
32 1 0.03
ACGTcount: A:0.11, C:0.25, G:0.32, T:0.32
Consensus pattern (32 bp):
CTTGGGTAGGCTCTTGCGGCCCCGAGAACTTT
Found at i:1356435 original size:18 final size:18
Alignment explanation
Indices: 1356414--1356454 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1356404 CGGGTTTGGA
1356414 TTTGGATTCAGATTCGGG
1 TTTGGATTCAGATTCGGG
* **
1356432 TTTGGGTTTGGATTCGGG
1 TTTGGATTCAGATTCGGG
1356450 TTTGG
1 TTTGG
1356455 GTTTCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.07, G:0.39, T:0.44
Consensus pattern (18 bp):
TTTGGATTCAGATTCGGG
Found at i:1356456 original size:6 final size:6
Alignment explanation
Indices: 1356429--1356541 Score: 93
Period size: 6 Copynumber: 18.8 Consensus size: 6
1356419 ATTCAGATTC
* * *** *
1356429 GGGTTT GGGTTT GGATTC GGGTTT GGGTTT CATTTT GGGTTC GGGTTT
1 GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT
* * * * * * *
1356477 GGGTTCT -GGTTC GGGTTT GGGTTC GGGTTC GGGTTC GAGTTT AGGTTC
1 GGGTT-T GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT
1356525 GGGTTT GGGTTT GGGTT
1 GGGTTT GGGTTT GGGTT
1356542 AGAGAATATG
Statistics
Matches: 83, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
6 82 0.99
7 1 0.01
ACGTcount: A:0.04, C:0.08, G:0.44, T:0.44
Consensus pattern (6 bp):
GGGTTT
Found at i:1356456 original size:24 final size:24
Alignment explanation
Indices: 1356402--1356538 Score: 98
Period size: 24 Copynumber: 5.7 Consensus size: 24
1356392 ATAGTTTAGA
* * *
1356402 TTCGGGTTTGGATTTGGATTCAGA
1 TTCGGGTTTGGGTTTGGATTCGGG
1356426 TTCGGGTTTGGGTTTGGATTCGGG
1 TTCGGGTTTGGGTTTGGATTCGGG
* *** *
1356450 TTTGGGTTTCATTTTGGGTTCGGG
1 TTCGGGTTTGGGTTTGGATTCGGG
* * * *
1356474 TTTGGGTTCT-GGTTCGGGTTTGGG
1 TTCGGGTT-TGGGTTTGGATTCGGG
* * **
1356498 TTCGGGTTCGGG-TTCGAGTTTAGG
1 TTCGGGTTTGGGTTTGGA-TTCGGG
1356522 TTCGGGTTTGGGTTTGG
1 TTCGGGTTTGGGTTTGG
1356539 GTTAGAGAAT
Statistics
Matches: 89, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
23 2 0.02
24 83 0.93
25 4 0.04
ACGTcount: A:0.06, C:0.09, G:0.42, T:0.44
Consensus pattern (24 bp):
TTCGGGTTTGGGTTTGGATTCGGG
Found at i:1356541 original size:18 final size:18
Alignment explanation
Indices: 1356426--1356541 Score: 117
Period size: 18 Copynumber: 6.1 Consensus size: 18
1356416 TGGATTCAGA
*
1356426 TTCGGGTTTGGGTTTGGA
1 TTCGGGTTTGGGTTTGGG
1356444 TTCGGGTTTGGGTTTCATTTTGGG
1 TTCGGGTTTGGG------TTTGGG
1356468 TTCGGGTTTGGGTTCT-GG
1 TTCGGGTTTGGGTT-TGGG
*
1356486 TTCGGGTTTGGGTTCGGG
1 TTCGGGTTTGGGTTTGGG
* * *
1356504 TTCGGGTTCGAGTTTAGG
1 TTCGGGTTTGGGTTTGGG
1356522 TTCGGGTTTGGGTTTGGG
1 TTCGGGTTTGGGTTTGGG
1356540 TT
1 TT
1356542 AGAGAATATG
Statistics
Matches: 81, Mismatches: 9, Indels: 16
0.76 0.08 0.15
Matches are distributed among these distances:
18 63 0.78
19 1 0.01
24 17 0.21
ACGTcount: A:0.03, C:0.09, G:0.43, T:0.45
Consensus pattern (18 bp):
TTCGGGTTTGGGTTTGGG
Found at i:1356990 original size:15 final size:15
Alignment explanation
Indices: 1356972--1357009 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1356962 ATATACTTTT
1356972 AATTTATATAGTATA
1 AATTTATATAGTATA
1356987 AATTGTATA-AGTATA
1 AATT-TATATAGTATA
1357002 AA-TTATAT
1 AATTTATAT
1357010 TTTATAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.19
14 1 0.05
15 12 0.57
16 4 0.19
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (15 bp):
AATTTATATAGTATA
Found at i:1357068 original size:22 final size:23
Alignment explanation
Indices: 1357031--1357073 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1357021 TAAATATCAA
*
1357031 CTATAGTATATAGTTTATATATT
1 CTATAGTAAATAGTTTATATATT
1357054 CTATA-TAAATAGTTTATATA
1 CTATAGTAAATAGTTTATATA
1357074 GTTCAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.49
Consensus pattern (23 bp):
CTATAGTAAATAGTTTATATATT
Found at i:1357095 original size:2 final size:2
Alignment explanation
Indices: 1357088--1357250 Score: 75
Period size: 2 Copynumber: 77.5 Consensus size: 2
1357078 AATAATAAAC
* *
1357088 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TG TA AA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA -TA TA
* * * *
1357132 TA GTT TA TA TA TA TA TA GT- TCA TA TG TA -A TCA TG TA AA CTA TA
1 TA -TA TA TA TA TA TA TA -TA T-A TA TA TA TA T-A TA TA TA -TA TA
* * *
1357175 TA TA T- TA TG TA GTA TA TA AA TA TCA -A CTA TA GTA TA TA GTT TA
1 TA TA TA TA TA TA -TA TA TA TA TA T-A TA -TA TA -TA TA TA -TA TA
* *
1357218 TA TA TA AA T- TA TA GTT TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA T
1357251 TGTCATAACC
Statistics
Matches: 121, Mismatches: 22, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
1 5 0.04
2 99 0.82
3 17 0.14
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1357148 original size:35 final size:34
Alignment explanation
Indices: 1357094--1357160 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 34
1357084 AAACTATATA
1357094 TATATATATATATATATATA-TATCATATGTAAAC
1 TATATATATATATATATATAGT-TCATATGTAAAC
*
1357128 TATATAGTTTATATATATATAGTTCATATGTAA
1 TATATA-TATATATATATATAGTTCATATGTAA
1357161 TCATGTAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 6 0.20
35 23 0.77
36 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (34 bp):
TATATATATATATATATATAGTTCATATGTAAAC
Found at i:1357167 original size:43 final size:40
Alignment explanation
Indices: 1357083--1357197 Score: 126
Period size: 41 Copynumber: 2.8 Consensus size: 40
1357073 AGTTCAATAA
*
1357083 TAAACTATATATATATATATATATATATATATATCATATG
1 TAAACTATATATATATATATATATATATATATATAATATG
* *
1357123 TAAACTATATAGTTTATATATATATAGT-TCATATGTAATCATG
1 TAAACTATATA-TATATATATATATA-TAT-ATATATAAT-ATG
* *
1357166 TAAACTATATATAT-TATGTAGTATATAAATAT
1 TAAACTATATATATATATATA-TATATATATAT
1357198 CAACTATAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
40 11 0.17
41 24 0.38
42 14 0.22
43 14 0.22
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (40 bp):
TAAACTATATATATATATATATATATATATATATAATATG
Found at i:1359803 original size:24 final size:23
Alignment explanation
Indices: 1359755--1359851 Score: 71
Period size: 24 Copynumber: 4.3 Consensus size: 23
1359745 ATAAATAGTT
* *
1359755 TATATAGTTCATTAATAAACAATA
1 TATATAGTTCA-TAGTAAACTATA
1359779 TATATAGTTCATACGTAAACTATA
1 TATATAGTTCATA-GTAAACTATA
* *
1359803 TAGTTTA--T-ATAGT---TTATA
1 TA-TATAGTTCATAGTAAACTATA
1359821 TATATAGTTCATATGTAAACTATA
1 TATATAGTTCATA-GTAAACTATA
1359845 TAGTATA
1 TA-TATA
1359852 TATAGTTTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
17 3 0.05
18 6 0.11
19 1 0.02
20 3 0.05
21 4 0.07
22 3 0.05
23 3 0.05
24 27 0.47
25 7 0.12
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (23 bp):
TATATAGTTCATAGTAAACTATA
Found at i:1359833 original size:42 final size:42
Alignment explanation
Indices: 1359776--1359866 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
1359766 TTAATAAACA
*
1359776 ATATATATAGTTCATACGTAAACTATATAGTTTATATAGTTT
1 ATATATATAGTTCATACGTAAACTATATAGTATATATAGTTT
*
1359818 ATATATATAGTTCATATGTAAACTATATAGTATATATAGTTT
1 ATATATATAGTTCATACGTAAACTATATAGTATATATAGTTT
*
1359860 ACATATA
1 ATATATA
1359867 GTATAAGTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.44
Consensus pattern (42 bp):
ATATATATAGTTCATACGTAAACTATATAGTATATATAGTTT
Found at i:1359854 original size:20 final size:20
Alignment explanation
Indices: 1359779--1359848 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
1359769 ATAAACAATA
*
1359779 TATATAGTTCATACGTAAAC
1 TATATAGTTCATATGTAAAC
* *
1359799 TATATAGTTTATATAGTTTATA-
1 TATATAGTTCATAT-G--TAAAC
1359821 TATATAGTTCATATGTAAAC
1 TATATAGTTCATATGTAAAC
1359841 TATATAGT
1 TATATAGT
1359849 ATATATAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 3 0.07
20 20 0.49
21 2 0.05
22 13 0.32
23 3 0.07
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (20 bp):
TATATAGTTCATATGTAAAC
Found at i:1362032 original size:64 final size:64
Alignment explanation
Indices: 1361937--1362097 Score: 193
Period size: 64 Copynumber: 2.5 Consensus size: 64
1361927 TGGTACACTA
* *
1361937 AGAGTGCA-CGATGCATGAAGTGCATTCGATGTTTGAAAA-ATAGCCTG-GTGCATTGATGCATG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAT-GCC-GAGTGCATCGATGCATG
1361999 G
64 G
*** * * *
1362000 CTTGTGCATCGATACATCAAATGCATTCGATGTTTGAAAATATTCCGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATATGCCGAGTGCATCGATGCATGG
* *
1362064 AGAGTGAATCGGTGCATGAAATGCATTCGATGTT
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTT
1362098 CAATTAAATC
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
63 6 0.08
64 72 0.90
65 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (64 bp):
AGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATATGCCGAGTGCATCGATGCATGG
Found at i:1368687 original size:21 final size:21
Alignment explanation
Indices: 1368663--1368715 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
1368653 GAGTTTGTTT
*
1368663 TCATTTTTCA-ATTTTGAAACA
1 TCATTTTTCATATTTT-AAAAA
1368684 TCATTTTT-ATATTTTAAAAA
1 TCATTTTTCATATTTTAAAAA
*
1368704 TAATTTTTCATA
1 TCATTTTTCATA
1368716 ATCCGAAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (21 bp):
TCATTTTTCATATTTTAAAAA
Found at i:1370820 original size:64 final size:64
Alignment explanation
Indices: 1370619--1370831 Score: 229
Period size: 64 Copynumber: 3.3 Consensus size: 64
1370609 AAAGTTGGAC
* * * *
1370619 TCCTA-GTGCATCGGTGCACT-AAGAGTGCAACGATGCATGAAGTGCATTCGATGTTTGAAAAAT
1 TCCTAGGTGCATCGATGCA-TGGAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAA-
1370682 A
64 A
* *** * * *
1370683 GCCT-GGTGCATCGATGCATGGCTTGTGTATCGATGCATCAAATGCATTCGATGTTTGAAAATAT
1 TCCTAGGTGCATCGATGCATGGAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-AA
* *
1370747 TCCTA-GTGCATCGATGCATGGAGAGTGCATCGGTGCATGAAATGCATTCGATG-TTCAATAAAA
1 TCCTAGGTGCATCGATGCATGGAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAAA
*
1370810 TCATAGGTGCATCGATGCATGG
1 TCCTAGGTGCATCGATGCATGG
1370832 TTTGATGCAT
Statistics
Matches: 122, Mismatches: 21, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
63 10 0.08
64 111 0.91
65 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (64 bp):
TCCTAGGTGCATCGATGCATGGAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAA
Found at i:1370821 original size:128 final size:129
Alignment explanation
Indices: 1370619--1370851 Score: 312
Period size: 128 Copynumber: 1.8 Consensus size: 129
1370609 AAAGTTGGAC
* * *
1370619 TCCTAGTGCATCGGTGCACTAAGAGTGCAACGATGCATGAAGTGCATTCGATGTTTGAAAAATAG
1 TCCTAGTGCATCGATGCACTAAGAGTGCAACGATGCATGAAATGCATTCGATGTTTCAAAAATAG
* *
1370684 CCTGGTGCATCGATGCATGGCTTG-TGTATCGATGCATCAAATGCATTCGATGTTTGAAAATAT
66 CATGGTGCATCGATGCATGGCTTGATGCATCGATGCATCAAATGCATTCGATGTTTGAAAATAT
* * *
1370747 TCCTAGTGCATCGATGCA-TGGAGAGTGCATCGGTGCATGAAATGCATTCGATG-TTCAATAAA-
1 TCCTAGTGCATCGATGCACT-AAGAGTGCAACGATGCATGAAATGCATTCGATGTTTCAA-AAAT
* * *
1370809 ATCATAGGTGCATCGATGCATGGTTTGATGCATCGGTGCATCA
64 AGCAT-GGTGCATCGATGCATGGCTTGATGCATCGATGCATCA
1370852 CCTTGAATAA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
127 8 0.09
128 69 0.77
129 13 0.14
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (129 bp):
TCCTAGTGCATCGATGCACTAAGAGTGCAACGATGCATGAAATGCATTCGATGTTTCAAAAATAG
CATGGTGCATCGATGCATGGCTTGATGCATCGATGCATCAAATGCATTCGATGTTTGAAAATAT
Found at i:1371892 original size:2 final size:2
Alignment explanation
Indices: 1371885--1371948 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
1371875 ATATTATGGC
1371885 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1371927 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
1371949 CCATATTATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1374824 original size:26 final size:26
Alignment explanation
Indices: 1374766--1374825 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
1374756 ACCTTAAAAA
* * *
1374766 TAAAATATAGAAATTGAATTTTAAATT
1 TAAAA-ATAAAAATTGAAATTTAAATC
* *
1374793 TCAAAATAAAAATTTAAATTTAAATC
1 TAAAAATAAAAATTGAAATTTAAATC
1374819 TAAAAAT
1 TAAAAAT
1374826 CTAAAATTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (26 bp):
TAAAAATAAAAATTGAAATTTAAATC
Found at i:1384252 original size:10 final size:10
Alignment explanation
Indices: 1384239--1384278 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
1384229 AGAGATTATA
*
1384239 AGAGTATTTG
1 AGAGAATTTG
*
1384249 AGAGAAGTTG
1 AGAGAATTTG
*
1384259 AGAGAAATTG
1 AGAGAATTTG
1384269 AGAGAATTTG
1 AGAGAATTTG
1384279 GTGTGATGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.28
Consensus pattern (10 bp):
AGAGAATTTG
Found at i:1387150 original size:23 final size:23
Alignment explanation
Indices: 1387116--1387195 Score: 124
Period size: 23 Copynumber: 3.5 Consensus size: 23
1387106 TATAAATGCA
*
1387116 CCGAAGTTCCACGTAGAATTGCT
1 CCGAAGTGCCACGTAGAATTGCT
1387139 CCGAAGTGCCACGTAGAATTGCT
1 CCGAAGTGCCACGTAGAATTGCT
* *
1387162 CCGAAGTGCCACATAGAATTGCA
1 CCGAAGTGCCACGTAGAATTGCT
*
1387185 CCGTAGTGCCA
1 CCGAAGTGCCA
1387196 TATAAGATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (23 bp):
CCGAAGTGCCACGTAGAATTGCT
Found at i:1392284 original size:2 final size:2
Alignment explanation
Indices: 1392208--1392266 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
1392198 ACATAATTAC
1392208 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1392250 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
1392267 CCATACCAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1392585 original size:23 final size:23
Alignment explanation
Indices: 1392554--1392606 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
1392544 CTCATATAAA
1392554 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
1392577 TGCATCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
1392600 TGCACCG
1 TGCACCG
1392607 TAGTTCCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:1395661 original size:91 final size:91
Alignment explanation
Indices: 1395520--1395700 Score: 326
Period size: 91 Copynumber: 2.0 Consensus size: 91
1395510 TAAATGTTCA
* *
1395520 ATAAAAAGGATTGTACTTTAATTTTTGACATGAAATTATAATTTCCATTGTCACGACAACATATA
1 ATAAAAAGGATCGTACTTTAATTTTTGACACGAAATTATAATTTCCATTGTCACGACAACATATA
*
1395585 AGTTATTAGGTATTAATTTTGGGCGC
66 AGCTATTAGGTATTAATTTTGGGCGC
*
1395611 ATAAAAAGGATCGTACTTTAATTTTTGACACGAAGTTATAATTTCCATTGTCACGACAACATATA
1 ATAAAAAGGATCGTACTTTAATTTTTGACACGAAATTATAATTTCCATTGTCACGACAACATATA
1395676 AGCTATTAGGTATTAATTTTGGGCG
66 AGCTATTAGGTATTAATTTTGGGCG
1395701 TTGTGGAGTG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (91 bp):
ATAAAAAGGATCGTACTTTAATTTTTGACACGAAATTATAATTTCCATTGTCACGACAACATATA
AGCTATTAGGTATTAATTTTGGGCGC
Found at i:1396991 original size:18 final size:18
Alignment explanation
Indices: 1396968--1397006 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1396958 TAAGTCAATC
1396968 TCAACATGTTTCATTCGG
1 TCAACATGTTTCATTCGG
1396986 TCAACATGTTTCATTCGG
1 TCAACATGTTTCATTCGG
1397004 TCA
1 TCA
1397007 TGATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (18 bp):
TCAACATGTTTCATTCGG
Found at i:1398740 original size:18 final size:18
Alignment explanation
Indices: 1398719--1398768 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
1398709 TGGTTCGACG
*
1398719 GGCAAGGCTTGTTCAGCT
1 GGCAAGGCTGGTTCAGCT
*
1398737 GGC-AGAACTGGTTCAGCT
1 GGCAAG-GCTGGTTCAGCT
*
1398755 GACAAGGCTGGTTC
1 GGCAAGGCTGGTTC
1398769 GACTGGTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.20, C:0.22, G:0.34, T:0.24
Consensus pattern (18 bp):
GGCAAGGCTGGTTCAGCT
Found at i:1401247 original size:15 final size:15
Alignment explanation
Indices: 1401227--1401265 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
1401217 TCATTGGCGG
1401227 CTAGAAAAAAGATTT
1 CTAGAAAAAAGATTT
1401242 CTAGAAAAAAGATTT
1 CTAGAAAAAAGATTT
1401257 CTAGAAAAA
1 CTAGAAAAA
1401266 CTAAATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.13, T:0.23
Consensus pattern (15 bp):
CTAGAAAAAAGATTT
Found at i:1411169 original size:167 final size:167
Alignment explanation
Indices: 1410886--1411205 Score: 442
Period size: 167 Copynumber: 1.9 Consensus size: 167
1410876 GAAAATATGG
* * * * * *
1410886 TTAAAATAAACATTGATGGTGCTTTTGTTAAGGATAGAAAGATGGTTGCAGTTGGTGTTGTGTCC
1 TTAAAATAAACACTGATGGTGCTTTTGATAAGGATAGAAAGATGGCTACAGTTGATGTTGTGGCC
* * **
1410951 CGTGATAAACCAGGAAATGTCCTTGGTAGTTTTGTGCAACCTTCGGTCGGTTGTTTTAATGCTGG
66 CGTCATAAACCAGGAAATGCCCTTGGTAGTTTTGCACAACCTTCGGTCGGTTGTTTTAATGCTGG
*
1411016 GTATGCCGAGCTTCACGCTCTGCGTGACGGTTTGTTC
131 GTATGCCAAGCTTCACGCTCTGCGTGACGGTTTGTTC
* * *
1411053 TTAAAATAAACACTGATGGTGCTTTTGATAAGGCTAGAATGATGGCTATAGTTGATGTTGTGGCC
1 TTAAAATAAACACTGATGGTGCTTTTGATAAGGATAGAAAGATGGCTACAGTTGATGTTGTGGCC
* * * * * * *
1411118 CGTCATATACGAGGGAATGCCCTTGGTGGTTTTGCACCACCTTCTGTCGGTTGTTTTGATGCTGG
66 CGTCATAAACCAGGAAATGCCCTTGGTAGTTTTGCACAACCTTCGGTCGGTTGTTTTAATGCTGG
*
1411183 GTATGTCAAGCTTCACGCTCTGC
131 GTATGCCAAGCTTCACGCTCTGC
1411206 TTGTAGGTTT
Statistics
Matches: 131, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
167 131 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35
Consensus pattern (167 bp):
TTAAAATAAACACTGATGGTGCTTTTGATAAGGATAGAAAGATGGCTACAGTTGATGTTGTGGCC
CGTCATAAACCAGGAAATGCCCTTGGTAGTTTTGCACAACCTTCGGTCGGTTGTTTTAATGCTGG
GTATGCCAAGCTTCACGCTCTGCGTGACGGTTTGTTC
Found at i:1415688 original size:21 final size:22
Alignment explanation
Indices: 1415664--1415714 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1415654 ATATTTCCTA
*
1415664 TTTTATTCTATTTT-ATTCTGT
1 TTTTATTATATTTTGATTCTGT
* *
1415685 TTTTTTTATATTTTGTTTCTG-
1 TTTTATTATATTTTGATTCTGT
1415706 TTTTATTAT
1 TTTTATTAT
1415715 CTTATTCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.75
Consensus pattern (22 bp):
TTTTATTATATTTTGATTCTGT
Found at i:1415689 original size:22 final size:23
Alignment explanation
Indices: 1415664--1415714 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
1415654 ATATTTCCTA
*
1415664 TTTTATTCTATTTT-ATTCTGTT
1 TTTTATTATATTTTGATTCTGTT
*
1415686 TTTT-TTATATTTTGTTTCTGTT
1 TTTTATTATATTTTGATTCTGTT
1415708 TTATTAT
1 TT-TTAT
1415715 CTTATTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 8 0.33
22 13 0.54
23 2 0.08
24 1 0.04
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.75
Consensus pattern (23 bp):
TTTTATTATATTTTGATTCTGTT
Found at i:1419704 original size:504 final size:505
Alignment explanation
Indices: 1418756--1419753 Score: 1606
Period size: 504 Copynumber: 2.0 Consensus size: 505
1418746 AAAGAATAGC
* *
1418756 TAAAGACTGCTCAAAGGCGTTTGATAGATAGTCAACATCAGAACAAGAGTTTGAAGATCCATGTA
1 TAAAGACTGCTCAAAGGCGTTTGATAGACAATCAACATCAGAACAAGAGTTTGAAGATCCATGTA
* * * ** *
1418821 GCTGATTTAGAGAAGTCTCTTCAGGAGCAGCAAGAACGGGATGACAAAATCATGGCTGAGTTAGA
66 GCTAATTTAAAGAAGTCTCTTCAGAAGCAGCAAGAACGGGACAACAAAATCATAGCTGAGTTAGA
*
1418886 AGCCATTGTGGATGGATTTAAGAAACAAGCAAGCGAGCTTCATATAGTGCCCTTTGATGGAGGTT
131 AGCCATTGTGGATGGATTTAAGAAACAAGCAAGCGAGCTTCAGATAGTGCCCTTTGATGGAGGTT
* *
1418951 TACAATGACACTTTCATTGGGAACAAGCTCAGCAAAGGGTAAAGGCTAGAGATGCAGTCATCCGT
196 TACAATGACACTTTCATTGGAAACAAGCTCAGCAAAGGGTAAAGGCTAGAGATGCAGTCATCCAT
*
1419016 GATTTCTTGGAACAAGTACAGAAGATAACTCATCAGTTGCATGGTTTAGCAAGAGAGGCTGGAGT
261 GATTTCTTGGAACAAGTACAGAAGACAACTCATCAGTTGCATGGTTTAGCAAGAGAGGCTGGAGT
** * * *
1419081 GGTTCGAAAAGGCATTCAACTTGTGACAGATGAAGGAAGAAGACTTGTTAACCTATTAGAAGCTG
326 GGTTCGAAAAGGCATTCAACCAGTGACAGATAAAGGAAAAAGACTTGTCAACCTATTAGAAGCTG
*
1419146 TTTGGGGTCTAGAGGATTTAGTCCGAATATACCTTTAGATTATTTTTGTCTCTTAAAAGATAAAA
391 TTTGGGGTCTAGAGAATTTAGTCCGAATATACCTTTAGATTATTTTTGTCTCTTAAAAGATAAAA
* *
1419211 CACTTTTGTTTAAATATAGATTATTTATAATAACATACATTTTTTCTCTT
456 CACTTTTGTTTAAATACAAATTATTTATAATAACATACATTTTTTCTCTT
* * *
1419261 TAAAGACTGCTCAAAGGCGTTTGATAGACAATCAGCATCAGAACAAGCGTTTGAGGATCCATGTA
1 TAAAGACTGCTCAAAGGCGTTTGATAGACAATCAACATCAGAACAAGAGTTTGAAGATCCATGTA
* *
1419326 GCTAATTTAAAGAAGTTTCTTCAGAAGCAGCAAGAATGGGACAACAAAA-CTATAGCTGAGTTAG
66 GCTAATTTAAAGAAGTCTCTTCAGAAGCAGCAAGAACGGGACAACAAAATC-ATAGCTGAGTTAG
*
1419390 AAGCCATTGTGGATGGATTTAAGAAGCAAGCAAGCGAGCTT-AGATAGTGCCCTTTGATGGAGGT
130 AAGCCATTGTGGATGGATTTAAGAAACAAGCAAGCGAGCTTCAGATAGTGCCCTTTGATGGAGGT
* * * * *
1419454 TTACAGTGGCACTTTCATTGGAAACAAGCTCAGCAAATGGTGAAGGCTAGAGATGCAGTCATCTA
195 TTACAATGACACTTTCATTGGAAACAAGCTCAGCAAAGGGTAAAGGCTAGAGATGCAGTCATCCA
* * * *
1419519 TGATTTCTTGGAACAAGTACAGAAGGCAGCTCGTCATTTGCATGGTTTAGCAAGAGAGGCTGGAG
260 TGATTTCTTGGAACAAGTACAGAAGACAACTCATCAGTTGCATGGTTTAGCAAGAGAGGCTGGAG
* * *
1419584 TGGTTCGACAAGGCATTCAACCAGTGACATATAAAGGAAAAAGACTTGTCAATCTATTAGAAGCT
325 TGGTTCGAAAAGGCATTCAACCAGTGACAGATAAAGGAAAAAGACTTGTCAACCTATTAGAAGCT
*
1419649 GTTTGGGGTCTAGAGAATTTAGTCC-AGATGTACCTTTAGATTATTTTTGTCTCTTAAAAGATAA
390 GTTTGGGGTCTAGAGAATTTAGTCCGA-ATATACCTTTAGATTATTTTTGTCTCTTAAAAGATAA
1419713 AACACTTTTGTTTAAATACAAATTATTTATAATAACATACA
454 AACACTTTTGTTTAAATACAAATTATTTATAATAACATACA
1419754 CATTTATGGA
Statistics
Matches: 452, Mismatches: 39, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
503 1 0.00
504 297 0.66
505 154 0.34
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (505 bp):
TAAAGACTGCTCAAAGGCGTTTGATAGACAATCAACATCAGAACAAGAGTTTGAAGATCCATGTA
GCTAATTTAAAGAAGTCTCTTCAGAAGCAGCAAGAACGGGACAACAAAATCATAGCTGAGTTAGA
AGCCATTGTGGATGGATTTAAGAAACAAGCAAGCGAGCTTCAGATAGTGCCCTTTGATGGAGGTT
TACAATGACACTTTCATTGGAAACAAGCTCAGCAAAGGGTAAAGGCTAGAGATGCAGTCATCCAT
GATTTCTTGGAACAAGTACAGAAGACAACTCATCAGTTGCATGGTTTAGCAAGAGAGGCTGGAGT
GGTTCGAAAAGGCATTCAACCAGTGACAGATAAAGGAAAAAGACTTGTCAACCTATTAGAAGCTG
TTTGGGGTCTAGAGAATTTAGTCCGAATATACCTTTAGATTATTTTTGTCTCTTAAAAGATAAAA
CACTTTTGTTTAAATACAAATTATTTATAATAACATACATTTTTTCTCTT
Found at i:1422828 original size:3 final size:3
Alignment explanation
Indices: 1422810--1422871 Score: 65
Period size: 3 Copynumber: 20.7 Consensus size: 3
1422800 TTAAAATATA
* *
1422810 TAT TA- TAT TGAT TAT TAT TAT TAT TAT GAT TAT TAT TAAT TAA TA-
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
*
1422855 TAT TAT GAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
1422872 ATACTAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
2 4 0.08
3 40 0.80
4 6 0.12
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:1422833 original size:18 final size:19
Alignment explanation
Indices: 1422810--1422869 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 19
1422800 TTAAAATATA
1422810 TATTATAT-TGATTATTAT
1 TATTATATATGATTATTAT
1422828 TATTAT-TATGATTATTAT
1 TATTATATATGATTATTAT
*
1422846 TAATTA-ATAT-ATTATGAT
1 T-ATTATATATGATTATTAT
1422864 TATTAT
1 TATTAT
1422870 TAATACTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
17 5 0.14
18 25 0.68
19 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TATTATATATGATTATTAT
Found at i:1422872 original size:24 final size:23
Alignment explanation
Indices: 1422806--1422873 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 23
1422796 CGGATTAAAA
1422806 TATATATTAT-ATTGATTATT-AT
1 TATATATTATGATT-ATTATTAAT
1422828 TAT-TATTATGATTATTATTAAT
1 TATATATTATGATTATTATTAAT
1422850 TAATATATTATGATTATTATTAAT
1 T-ATATATTATGATTATTATTAAT
1422874 ACTAATAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
21 12 0.29
22 9 0.21
23 2 0.05
24 19 0.45
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TATATATTATGATTATTATTAAT
Found at i:1422883 original size:33 final size:33
Alignment explanation
Indices: 1422822--1422891 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
1422812 TTATATTGAT
* * * *
1422822 TATTATTATTATTATGATTATTATTAATTAATA
1 TATTATGATTATTATGAATACTAATAATTAATA
* *
1422855 TATTATGATTATTATTAATACTAATAATTTATA
1 TATTATGATTATTATGAATACTAATAATTAATA
1422888 -ATTA
1 TATTA
1422892 CATATTTTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
32 4 0.13
33 27 0.87
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (33 bp):
TATTATGATTATTATGAATACTAATAATTAATA
Found at i:1436051 original size:10 final size:10
Alignment explanation
Indices: 1436036--1436137 Score: 59
Period size: 10 Copynumber: 10.0 Consensus size: 10
1436026 GCTTAAAGAG
1436036 AAAAAAATGA
1 AAAAAAATGA
1436046 AAAAAAATG-
1 AAAAAAATGA
1436055 --AAAAATGA
1 AAAAAAATGA
*
1436063 AAAATGAAAAGA
1 AAAA--AAATGA
*
1436075 AAAAAGA-GA
1 AAAAAAATGA
*
1436084 GAAAAGAATGAA
1 -AAAAAAATG-A
*
1436096 TAAAAAAAAGA
1 -AAAAAAATGA
*
1436107 GAAAAAATGA
1 AAAAAAATGA
*
1436117 GAAAAAATGA
1 AAAAAAATGA
*
1436127 AGCAAAAATGA
1 A-AAAAAATGA
1436138 GAGTATAAGA
Statistics
Matches: 72, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
7 7 0.10
9 2 0.03
10 36 0.50
11 10 0.14
12 17 0.24
ACGTcount: A:0.74, C:0.01, G:0.17, T:0.09
Consensus pattern (10 bp):
AAAAAAATGA
Found at i:1436058 original size:7 final size:7
Alignment explanation
Indices: 1436048--1436072 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1436038 AAAAATGAAA
1436048 AAAAATG
1 AAAAATG
1436055 AAAAATG
1 AAAAATG
1436062 AAAAATG
1 AAAAATG
1436069 AAAA
1 AAAA
1436073 GAAAAAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:1436079 original size:14 final size:13
Alignment explanation
Indices: 1436045--1436113 Score: 52
Period size: 14 Copynumber: 5.2 Consensus size: 13
1436035 GAAAAAAATG
1436045 AAAAAAAATGAAA
1 AAAAAAAATGAAA
*
1436058 AATGAAAAATGAAA
1 AA-AAAAAATGAAA
* *
1436072 AGAAAAAA-GAGA
1 AAAAAAAATGAAA
* *
1436084 GAAAAGAATGAATA
1 AAAAAAAATGAA-A
1436098 AAAAAAAGA-GAAA
1 AAAAAAA-ATGAAA
1436111 AAA
1 AAA
1436114 TGAGAAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
12 8 0.19
13 13 0.31
14 20 0.48
15 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (13 bp):
AAAAAAAATGAAA
Found at i:1436093 original size:25 final size:22
Alignment explanation
Indices: 1436030--1436123 Score: 91
Period size: 24 Copynumber: 4.0 Consensus size: 22
1436020 TATTTTGCTT
1436030 AAAGAGAAAAAAATGAAAAAAAA
1 AAAGAG-AAAAAATGAAAAAAAA
*
1436053 TGAAAAATG-AAAAATGAAAAGAAAA
1 --AAAGA-GAAAAAATGAAAA-AAAA
*
1436078 AAGAGAGAAAAGAATGAATAAAAA
1 AA-AGAGAAAA-AATGAAAAAAAA
*
1436102 AAAGAGAAAAAATGAGAAAAAA
1 AAAGAGAAAAAATGAAAAAAAA
1436124 TGAAGCAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
22 10 0.17
23 11 0.19
24 22 0.37
25 15 0.25
26 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (22 bp):
AAAGAGAAAAAATGAAAAAAAA
Found at i:1436134 original size:32 final size:32
Alignment explanation
Indices: 1436069--1436134 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
1436059 ATGAAAAATG
*
1436069 AAAAGAAAAAAGAGAGAAAAGAATGAATAAAA
1 AAAAGAAAAAAGAGAGAAAAGAATGAAGAAAA
*
1436101 AAAAGAGAAAAA-ATGAGAAAA-AATGAAGCAAA
1 AAAAGA-AAAAAGA-GAGAAAAGAATGAAGAAAA
1436133 AA
1 AA
1436135 TGAGAGTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (32 bp):
AAAAGAAAAAAGAGAGAAAAGAATGAAGAAAA
Found at i:1437239 original size:55 final size:55
Alignment explanation
Indices: 1437168--1437519 Score: 539
Period size: 55 Copynumber: 6.4 Consensus size: 55
1437158 ATTAAAGAAC
* * * *
1437168 GAAGATTATTTGAGTCTTATACTCTCTGAAGGAATAGGGAGTAGACACGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTT
* *
1437223 AAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGAAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTT
*
1437278 GAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTT
* * *
1437333 AAAGATTGTTCGAGTATTATACTCTCTGAAGGAATAGGGAGCAGACACAATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTT
*
1437388 GAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCA-TCACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTT
* * * *
1437442 GAAGATTGTTCGAGTCTTATAATCTCTGAAGGAATAGGGAGAAGGCAAGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTT
1437497 GAAGA-TGTTCGAGT-TCTATACTC
1 GAAGATTGTTCGAGTCT-TATACTC
1437520 CCTAAAGAAA
Statistics
Matches: 274, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
53 1 0.00
54 65 0.24
55 208 0.76
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTT
Found at i:1437555 original size:54 final size:54
Alignment explanation
Indices: 1437497--1437754 Score: 241
Period size: 54 Copynumber: 4.7 Consensus size: 54
1437487 CAAGATTGTT
* *
1437497 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGGGCGAACTCGTGGGAA
1 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACTCGTGGCAA
* * *
1437551 GAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGGACTCGTAGCAA
1 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACTCGTGGCAA
* * ** * * * *
1437605 GAAGATGTTCTAGTTCTATACTCCCTGAAGTGATAGGGAGCAAACTCTTTGTTC-A
1 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACTC-GTG-GCAA
* * * * *
1437660 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACGCGTGTTCAA
1 GAAGA-TGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACTCGTG-GCAA
* * *
1437716 -AAGATTTTTTCGAGTCCTATACTCTCTCAAAGAATAGAG
1 GAAGA--TGTTCGAGTTCTATACTCCCT-AAAGAA-AGAG
1437755 AGCGGACATG
Statistics
Matches: 169, Mismatches: 28, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
54 88 0.52
55 16 0.09
56 58 0.34
57 4 0.02
58 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (54 bp):
GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACTCGTGGCAA
Found at i:1437962 original size:3 final size:3
Alignment explanation
Indices: 1437944--1438001 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
1437934 TTAAAATATA
*
1437944 TAT TA- TAT TGAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TA- TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1437988 TAT GAT TAT TAT TA
1 TAT TAT TAT TAT TA
1438002 ATACTAATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
2 4 0.08
3 42 0.86
4 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1438016 original size:26 final size:26
Alignment explanation
Indices: 1437959--1438021 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
1437949 TATTGATTAT
* * *
1437959 TATTATTATTATTATTATTATTAATA
1 TATTATAATTATTATTAATACTAATA
*
1437985 TATTATGATTATTATTAATACTAATA
1 TATTATAATTATTATTAATACTAATA
1438011 -ATTTATAATTA
1 TA-TTATAATTA
1438022 CATATTTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.03
26 31 0.97
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
TATTATAATTATTATTAATACTAATA
Found at i:1444528 original size:27 final size:27
Alignment explanation
Indices: 1444498--1444555 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
1444488 GCCCTAAATC
*
1444498 AAAAAAGAAAAAAG-AGAAGAAAGAAGA
1 AAAAAAGAAAAAAGAAAAAGAAA-AAGA
*
1444525 AAAATAGAAAAAAGAAAAAGAAAAAGA
1 AAAAAAGAAAAAAGAAAAAGAAAAAGA
1444552 AAAA
1 AAAA
1444556 GAAATAAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (27 bp):
AAAAAAGAAAAAAGAAAAAGAAAAAGA
Found at i:1444534 original size:76 final size:76
Alignment explanation
Indices: 1444395--1444537 Score: 182
Period size: 76 Copynumber: 1.9 Consensus size: 76
1444385 TCGCTTAGGA
* * * * **
1444395 TGAAAACCCGAGAGGGCGTCCTAAGTTGAAAAAGAAAAACAAAAGAAAAAAAAGAAAAAAGAAAA
1 TGAAAACCAGAAAGGGCGCCCTAAATCAAAAAAGAAAAACAAAAGAAAAAAAAGAAAAAAGAAAA
1444460 AATGTTTAAGG
66 AATGTTTAAGG
* *
1444471 TGAAAACCAGAAAGGGCGCCCTAAATCAAAAAAG-AAAA-AAGAGAAGAAAGAAGAAAAATAGAA
1 TGAAAACCAGAAAGGGCGCCCTAAATCAAAAAAGAAAAACAAAAGAA-AAAAAAGAAAAA-AGAA
1444534 AAAA
64 AAAA
1444538 GAAAAAGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
74 6 0.11
75 15 0.26
76 36 0.63
ACGTcount: A:0.61, C:0.10, G:0.20, T:0.09
Consensus pattern (76 bp):
TGAAAACCAGAAAGGGCGCCCTAAATCAAAAAAGAAAAACAAAAGAAAAAAAAGAAAAAAGAAAA
AATGTTTAAGG
Found at i:1444535 original size:8 final size:7
Alignment explanation
Indices: 1444498--1444559 Score: 62
Period size: 7 Copynumber: 9.4 Consensus size: 7
1444488 GCCCTAAATC
1444498 AAAAAAG
1 AAAAAAG
1444505 AAAAAAG
1 AAAAAAG
*
1444512 --AGAAG
1 AAAAAAG
*
1444517 AAAGAAG
1 AAAAAAG
1444524 AAAAATAG
1 AAAAA-AG
1444532 AAAAAAG
1 AAAAAAG
1444539 -AAAAAG
1 AAAAAAG
1444545 -AAAAAG
1 AAAAAAG
1444551 -AAAAAG
1 AAAAAAG
1444557 AAA
1 AAA
1444560 TAAGGTGGGT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
5 4 0.08
6 18 0.37
7 20 0.41
8 7 0.14
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:1444544 original size:6 final size:6
Alignment explanation
Indices: 1444499--1444559 Score: 61
Period size: 6 Copynumber: 9.5 Consensus size: 6
1444489 CCCTAAATCA
*
1444499 AAAAAG AAAAA- AGAGAAG AAAGAAG AAAAATAG AAAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG A-AAAAG AAA-AAG -AAAA-AG -AAAAAG AAAAAG AAAAAG
1444551 AAAAAG AAA
1 AAAAAG AAA
1444560 TAAGGTGGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
5 1 0.02
6 30 0.62
7 7 0.15
8 10 0.21
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:1446239 original size:2 final size:2
Alignment explanation
Indices: 1446215--1446261 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
1446205 TTCTACACGT
* *
1446215 TA TA TA T- TA CA TA TT TA TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1446255 TA TA TA T
1 TA TA TA T
1446262 TATTTCTTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1447576 original size:21 final size:21
Alignment explanation
Indices: 1447514--1447576 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
1447504 TTTTTATATT
* *
1447514 TTTTTATCTTATTCAATTCTA
1 TTTTTATCTTATTCTATTTTA
1447535 TTTTTATCTTA---T-TTTTA
1 TTTTTATCTTATTCTATTTTA
*
1447552 TTTTTATCTTATTCTATTTTG
1 TTTTTATCTTATTCTATTTTA
1447573 TTTT
1 TTTT
1447577 ATTCATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
17 15 0.43
20 1 0.03
21 19 0.54
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTTATCTTATTCTATTTTA
Found at i:1447594 original size:38 final size:38
Alignment explanation
Indices: 1447505--1447618 Score: 117
Period size: 38 Copynumber: 2.9 Consensus size: 38
1447495 TTGTATTCTT
* *
1447505 TTTTATATTTTTTTATCTTATTCAATTCTAT-TTTTATCTTA
1 TTTT-TATTTTTTTATCTTATTCTATT-T-TGTTTTAT-TCA
1447546 TTTTTA--TTTTTATCTTATTCTATTTTGTTTTATTCA
1 TTTTTATTTTTTTATCTTATTCTATTTTGTTTTATTCA
* * *
1447582 TTTTTATTTTTTTATTTGTGTTCTATATTGTTTTATT
1 TTTTTATTTTTTTATCT-TATTCTATTTTGTTTTATT
1447619 TTCTGTTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
36 9 0.14
37 7 0.11
38 25 0.39
39 17 0.27
40 2 0.03
41 4 0.06
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.72
Consensus pattern (38 bp):
TTTTTATTTTTTTATCTTATTCTATTTTGTTTTATTCA
Found at i:1447739 original size:11 final size:11
Alignment explanation
Indices: 1447725--1447749 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1447715 TTTAGGATTT
1447725 TTTATATTTTA
1 TTTATATTTTA
1447736 TTTATATTTTA
1 TTTATATTTTA
1447747 TTT
1 TTT
1447750 CGTTTCTTTA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATATTTTA
Found at i:1454594 original size:40 final size:40
Alignment explanation
Indices: 1454545--1454627 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
1454535 CACCGTAGTG
*
1454545 TTACACATAAGGTCATGCCCACCATATACACCGAAGTGTA
1 TTACACATAAGGTCATGCCCACCATATACACCAAAGTGTA
*
1454585 TTACACATAAGGTCGTGCCCACCATATACACCAAAGTGTA
1 TTACACATAAGGTCATGCCCACCATATACACCAAAGTGTA
1454625 TTA
1 TTA
1454628 TAAACATGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (40 bp):
TTACACATAAGGTCATGCCCACCATATACACCAAAGTGTA
Found at i:1455394 original size:29 final size:30
Alignment explanation
Indices: 1455330--1455394 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 30
1455320 ACAACCCATC
* *
1455330 AATTTTCCAAAAATGCCAAATTGATCCCCA
1 AATTTTCCAAAAATGACAAAATGATCCCCA
* * * *
1455360 ACTTTT-CAAAAATTACAAAATGGTCCCTA
1 AATTTTCCAAAAATGACAAAATGATCCCCA
1455389 AATTTT
1 AATTTT
1455395 TTTAAGGCTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (30 bp):
AATTTTCCAAAAATGACAAAATGATCCCCA
Found at i:1456678 original size:20 final size:20
Alignment explanation
Indices: 1456636--1456679 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1456626 CATCATTGAT
* *
1456636 GGTATCAATATCTTTTCTAG
1 GGTATCAATATCTATCCTAG
1456656 GGTATCAATATC-ATCCTATG
1 GGTATCAATATCTATCCTA-G
1456676 GGTA
1 GGTA
1456680 CCGATACTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (20 bp):
GGTATCAATATCTATCCTAG
Found at i:1468602 original size:39 final size:39
Alignment explanation
Indices: 1468531--1468608 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
1468521 CCCGCAATAT
* *
1468531 TACCCGGGGACGCATCTGCTACTAAAGGGAAAGTAGCAC
1 TACCCGGGGACGCATCTGCTACCAAAGAGAAAGTAGCAC
* * *
1468570 TACCCGGGGACTCAT-TCGTTACCAAAGAGAAAGTTGCAC
1 TACCCGGGGACGCATCT-GCTACCAAAGAGAAAGTAGCAC
1468609 CTGCTGTGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.18
Consensus pattern (39 bp):
TACCCGGGGACGCATCTGCTACCAAAGAGAAAGTAGCAC
Found at i:1475337 original size:46 final size:46
Alignment explanation
Indices: 1475270--1475358 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
1475260 AATACTTCGC
*
1475270 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGGAAAAAAAACGT
1 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGAAAAAAAAACGT
1475316 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGAAAAAAAAA
1 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGAAAAAAAAA
1475359 GAAAAAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.17
Consensus pattern (46 bp):
TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGAAAAAAAAACGT
Found at i:1475366 original size:11 final size:11
Alignment explanation
Indices: 1475350--1475376 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1475340 TCCTAAGTTG
1475350 AAAAAAAAAGA
1 AAAAAAAAAGA
1475361 AAAAAAAAAGA
1 AAAAAAAAAGA
1475372 AAAAA
1 AAAAA
1475377 CGTTTAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:1475409 original size:64 final size:66
Alignment explanation
Indices: 1475307--1475437 Score: 196
Period size: 64 Copynumber: 2.0 Consensus size: 66
1475297 TAAGTTGGAA
* * *
1475307 AAAAAACGTTTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGA-AAAA-AAAAGAA-AAAAAAA
1 AAAAAACGTTTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAGAAAAGAAAA-AAGAAAAAAA
1475369 AG
65 AG
*
1475371 AAAAAACGTTTAGGGTGAAAACCCGAAAGGGCGCCCTAAATTGAGAAAAGAAAAAAGAAAAAAAA
1 AAAAAACGTTTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAGAAAAGAAAAAAGAAAAAAAA
1475436 G
66 G
1475437 A
1 A
1475438 GGAAAAAAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
64 40 0.67
65 6 0.10
66 14 0.23
ACGTcount: A:0.55, C:0.11, G:0.22, T:0.11
Consensus pattern (66 bp):
AAAAAACGTTTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAGAAAAGAAAAAAGAAAAAAAA
G
Found at i:1475444 original size:19 final size:20
Alignment explanation
Indices: 1475414--1475463 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
1475404 CCCTAAATTG
*
1475414 AGAAAAGAAAAAAGAA-AAA
1 AGAAGAGAAAAAAGAATAAA
1475433 A-AAGAGGAAAAAAGAATAAA
1 AGAAGA-GAAAAAAGAATAAA
1475453 AGAAGAGAAAA
1 AGAAGAGAAAA
1475464 TAAGGTGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 11 0.41
20 9 0.33
21 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AGAAGAGAAAAAAGAATAAA
Found at i:1476386 original size:105 final size:106
Alignment explanation
Indices: 1476204--1476868 Score: 1104
Period size: 105 Copynumber: 6.4 Consensus size: 106
1476194 AGGTTTTACC
1476204 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1476269 ACGAAGGGACCGCTGGTTGTCAACAAAAATCTT-TCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAAATCTTCTCAATTT
1476309 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1476374 ACGAAGGGACCGCTGGTTGTCAACAAAAATCTT-TCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAAATCTTCTCAATTT
1476414 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1476479 ACGAAGGGACCGCTGGTTGTCCACAAAAATC-TCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAAATCTTCTCAATTT
1476519 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
1476584 ACGAAGGGACCGATGGTTGTCAACAAACAT-TTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAAATCTTCTCAATTT
1476624 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1476689 ACGAA-GGACCGCTGGTTGTCAACAAACAT-TTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAAATCTTCTCAATTT
* *
1476728 CAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACT-CA-A-GA--C-AGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
** * *
1476787 ACGAAGGGACCGCTGACTGTCAACCGACAA-CTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAA-CAAAAATCTTCTCAATTT
* * * *
1476828 TAGAGACAATTTCAACTTCACAATGAATGATATTGGACTCC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1476869 GGAACAATAC
Statistics
Matches: 537, Mismatches: 17, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
98 19 0.04
99 16 0.03
100 47 0.09
101 2 0.00
102 1 0.00
103 2 0.00
104 72 0.13
105 378 0.70
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAAAATCTTCTCAATTT
Found at i:1484450 original size:31 final size:31
Alignment explanation
Indices: 1484412--1484474 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
1484402 AAGTTTTCCT
1484412 TTACCTTTCGCCGGTCTCACTCCCTCTTCGC
1 TTACCTTTCGCCGGTCTCACTCCCTCTTCGC
1484443 TTACCTTTCGCCGGTCTCACTCCCTCTTCGC
1 TTACCTTTCGCCGGTCTCACTCCCTCTTCGC
1484474 T
1 T
1484475 GAATCTACTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.06, C:0.44, G:0.13, T:0.37
Consensus pattern (31 bp):
TTACCTTTCGCCGGTCTCACTCCCTCTTCGC
Found at i:1485918 original size:7 final size:7
Alignment explanation
Indices: 1485908--1485941 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
1485898 TTCTTTTAAA
1485908 GTTTAGG
1 GTTTAGG
1485915 GTTTAGG
1 GTTTAGG
*
1485922 GCTTA-G
1 GTTTAGG
1485928 GTTTAGG
1 GTTTAGG
1485935 GTTTAGG
1 GTTTAGG
1485942 ACTCAAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.15, C:0.03, G:0.41, T:0.41
Consensus pattern (7 bp):
GTTTAGG
Found at i:1490563 original size:86 final size:86
Alignment explanation
Indices: 1490298--1490630 Score: 282
Period size: 86 Copynumber: 3.9 Consensus size: 86
1490288 TGGAGTACAT
* * * * ** *
1490298 AATTAGTTGCGTTTGTATAAAAAATGCCT-CTAAATACCCTAACCTTTTGTGACATTTTTGGCTA
1 AATTAGTGGCGTTTGAAT-AAAAACG-CTGCTAAATAACCTAACCTTTTACGACATTTTTAGCTA
* *
1490362 AAAATGCCGCTATAT-T-AAAAGGA
64 AAAATGTCGCTATATATCACAA--A
* * * * ** * *
1490385 AATTAGTGGCGTTTGAATGAAAACGCCGCTAAATAACC-AACATATTGTGGCGTTTTTAG-TAAA
1 AATTAGTGGCGTTTGAATAAAAACGCTGCTAAATAACCTAACCTTTTACGACATTTTTAGCT-AA
** * *
1490448 AAACATTGCTATATATCACAAG
65 AAATGTCGCTATATATCACAAA
* ** *
1490470 AATTAGTGGGGTTTGAATAAAAACAATGCTAAATAACCTAACCTTTTACGACATTTTTGGCTAAA
1 AATTAGTGGCGTTTGAATAAAAACGCTGCTAAATAACCTAACCTTTTACGACATTTTTAGCTAAA
*
1490535 AATGTCGCTATATATCACAAC
66 AATGTCGCTATATATCACAAA
* * * * *
1490556 AATTAGTGACATTT-ATATAGAAACGCTGCTAAATAACCTAACCTTTTACAACATTTTCAGCTAA
1 AATTAGTGGCGTTTGA-ATAAAAACGCTGCTAAATAACCTAACCTTTTACGACATTTTTAGCTAA
*
1490620 AAATGACGCTA
65 AAATGTCGCTA
1490631 AATAACCTAA
Statistics
Matches: 196, Mismatches: 43, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
84 1 0.01
85 63 0.32
86 112 0.57
87 20 0.10
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (86 bp):
AATTAGTGGCGTTTGAATAAAAACGCTGCTAAATAACCTAACCTTTTACGACATTTTTAGCTAAA
AATGTCGCTATATATCACAAA
Found at i:1494484 original size:45 final size:38
Alignment explanation
Indices: 1494433--1494734 Score: 153
Period size: 45 Copynumber: 7.5 Consensus size: 38
1494423 CTTTATGTTG
1494433 ATAATGCACCCATATGCATTTCAACATTGGCATCCCTTCATGCCA
1 ATAATGCACCCATATGCATTT----ATT-GCAT--CTTCATGCCA
* *
1494478 ATAATGCACCCATATACA-TTATT-C-T-TTTATGCCA
1 ATAATGCACCCATATGCATTTATTGCATCTTCATGCCA
* *
1494512 ATAATGCACCCATATGCATTTAAGCTAAGGCATCCTACCATGCCA
1 ATAATGCACCCATATGCATTT-A--T--TGCAT-CT-TCATGCCA
* *
1494557 ATAATGCACCCATATGCA-TTATT-C-T-TTTATGCCG
1 ATAATGCACCCATATGCATTTATTGCATCTTCATGCCA
*
1494591 ATAATGCACCCATATGCATTTCAGCTAAGACATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTT-A--T-TG-CAT-C-TTCATGCCA
* *
1494636 ATAATGCACCCATATACA-TTATT-C-T-TTTATGCTC-
1 ATAATGCACCCATATGCATTTATTGCATCTTCATGC-CA
*
1494670 ATAATGCACCCATATGCATTTCAGATAAGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTT---AT--TGCAT-C-TTCATGCCA
*
1494715 ATAATGCACCGATATGCATT
1 ATAATGCACCCATATGCATT
1494735 ATTATTTTAA
Statistics
Matches: 202, Mismatches: 20, Indels: 70
0.69 0.07 0.24
Matches are distributed among these distances:
34 71 0.35
35 8 0.04
36 2 0.01
37 3 0.01
38 7 0.03
40 3 0.01
41 5 0.02
42 3 0.01
43 2 0.01
44 8 0.04
45 90 0.45
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (38 bp):
ATAATGCACCCATATGCATTTATTGCATCTTCATGCCA
Found at i:1494510 original size:34 final size:34
Alignment explanation
Indices: 1494472--1494689 Score: 159
Period size: 34 Copynumber: 5.8 Consensus size: 34
1494462 GCATCCCTTC
*
1494472 ATGCCAATAATGCACCCATATACATTATTCTTTT
1 ATGCCAATAATGCACCCATATGCATTATTCTTTT
***
1494506 ATGCCAATAATGCACCCATATGCATTTAAGCTAAGGCATCCTACC
1 ATGCCAATAATGCACCCATATGCA-TT-A--T------T-CTTTT
1494551 ATGCCAATAATGCACCCATATGCATTATTCTTTT
1 ATGCCAATAATGCACCCATATGCATTATTCTTTT
* *
1494585 ATGCCGATAATGCACCCATATGCATTTCAGCTAAGACATCCTTTC
1 ATGCCAATAATGCACCCATATGCA-TT-A--T------T-CTTTT
*
1494630 ATGCCAATAATGCACCCATATACATTATTCTTTT
1 ATGCCAATAATGCACCCATATGCATTATTCTTTT
1494664 ATGCTC-ATAATGCACCCATATGCATT
1 ATGC-CAATAATGCACCCATATGCATT
1494690 TCAGATAAGG
Statistics
Matches: 148, Mismatches: 13, Indels: 46
0.71 0.06 0.22
Matches are distributed among these distances:
34 75 0.51
35 7 0.05
36 2 0.01
38 2 0.01
41 2 0.01
43 2 0.01
44 6 0.04
45 52 0.35
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (34 bp):
ATGCCAATAATGCACCCATATGCATTATTCTTTT
Found at i:1494555 original size:79 final size:78
Alignment explanation
Indices: 1494433--1494743 Score: 455
Period size: 79 Copynumber: 3.9 Consensus size: 78
1494423 CTTTATGTTG
* *
1494433 ATAATGCACCCATATGCATTTCAA-C-ATTGGCATCCCTTCATGCCAATAATGCACCCATATACA
1 ATAATGCACCCATATGCATTT-AAGCTA-AGGCATCCTTTCATGCCAATAATGCACCCATATACA
1494496 TTATTCTTTTATGCC
64 TTATTCTTTTATGCC
** *
1494511 AATAATGCACCCATATGCATTTAAGCTAAGGCATCCTACCATGCCAATAATGCACCCATATGCAT
1 -ATAATGCACCCATATGCATTTAAGCTAAGGCATCCTTTCATGCCAATAATGCACCCATATACAT
1494576 TATTCTTTTATGCC
65 TATTCTTTTATGCC
* *
1494590 GATAATGCACCCATATGCATTTCAGCTAAGACATCCTTTCATGCCAATAATGCACCCATATACAT
1 -ATAATGCACCCATATGCATTTAAGCTAAGGCATCCTTTCATGCCAATAATGCACCCATATACAT
1494655 TATTCTTTTATGCTC
65 TATTCTTTTATGC-C
* * * *
1494670 ATAATGCACCCATATGCATTTCAGATAAGGCATCCTTTCATGCCAATAATGCACCGATATGCATT
1 ATAATGCACCCATATGCATTTAAGCTAAGGCATCCTTTCATGCCAATAATGCACCCATATACATT
*
1494735 ATTATTTTA
66 ATTCTTTTA
1494744 ATCATTTTTT
Statistics
Matches: 213, Mismatches: 16, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
78 2 0.01
79 209 0.98
80 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (78 bp):
ATAATGCACCCATATGCATTTAAGCTAAGGCATCCTTTCATGCCAATAATGCACCCATATACATT
ATTCTTTTATGCC
Found at i:1494712 original size:158 final size:158
Alignment explanation
Indices: 1494432--1494743 Score: 502
Period size: 158 Copynumber: 2.0 Consensus size: 158
1494422 CCTTTATGTT
* *
1494432 GATAATGCACCCATATGCATTTCAACATTGGCATCCCTTCATGCCAATAATGCACCCATATACAT
1 GATAATGCACCCATATGCATTTCAACATAGACATCCCTTCATGCCAATAATGCACCCATATACAT
*
1494497 TATTCTTTTATGCCAATAATGCACCCATATGCATTTAAGCTAAGGCATCCTACCATGCCAATAAT
66 TATTCTTTTATGCCAATAATGCACCCATATGCATTTAAGATAAGGCATCCTACCATGCCAATAAT
*
1494562 GCACCCATATGCATTATTCTTTTATGCC
131 GCACCCATATGCATTATTATTTTATGCC
* *
1494590 GATAATGCACCCATATGCATTTCAGC-TAAGACATCCTTTCATGCCAATAATGCACCCATATACA
1 GATAATGCACCCATATGCATTTCAACAT-AGACATCCCTTCATGCCAATAATGCACCCATATACA
* **
1494654 TTATTCTTTTATGCTC-ATAATGCACCCATATGCATTTCAGATAAGGCATCCTTTCATGCCAATA
65 TTATTCTTTTATGC-CAATAATGCACCCATATGCATTTAAGATAAGGCATCCTACCATGCCAATA
*
1494718 ATGCACCGATATGCATTATTATTTTA
129 ATGCACCCATATGCATTATTATTTTA
1494744 ATCATTTTTT
Statistics
Matches: 142, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
157 1 0.01
158 140 0.99
159 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (158 bp):
GATAATGCACCCATATGCATTTCAACATAGACATCCCTTCATGCCAATAATGCACCCATATACAT
TATTCTTTTATGCCAATAATGCACCCATATGCATTTAAGATAAGGCATCCTACCATGCCAATAAT
GCACCCATATGCATTATTATTTTATGCC
Found at i:1495099 original size:2 final size:2
Alignment explanation
Indices: 1495092--1495129 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1495082 ATTCAAAAGG
1495092 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1495130 TATTAACTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1495438 original size:96 final size:96
Alignment explanation
Indices: 1495215--1495442 Score: 250
Period size: 95 Copynumber: 2.4 Consensus size: 96
1495205 CGAATACTTT
* * ** * *
1495215 TATACTATGGTATCGATAC-CCCCTACCAGTATCGATACCAATATTAGGTTCGATGTTGCCTGGT
1 TATACAATGGTACCGATACTCCATTATCAGTATCGATACCAATATTAGATTCGATGTTGCCTGGT
*
1495279 ATCGATACCCTTACCATGGTATCGATATTAC
66 ATCGATACCCTTACAATGGTATCGATATTAC
* * * * *
1495310 TATACTATGGTACCGATACTCCATTAT-GGTATCGATCCCAATATTAGATTCGATGTTTTCTTGG
1 TATACAATGGTACCGATACTCCATTATCAGTATCGATACCAATATTAGATTCGATG-TTGCCTGG
*
1495374 TATCGATACCCTTACAATGGTATCGATATT-G
65 TATCGATACCCTTACAATGGTATCGATATTAC
* * *
1495405 TCT-CAATGGTATCGATACT-GATTGAATCAGTATCGATA
1 TATACAATGGTACCGATACTCCATT--ATCAGTATCGATA
1495443 TTATCTAGTA
Statistics
Matches: 111, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
93 3 0.03
94 14 0.13
95 47 0.42
96 47 0.42
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (96 bp):
TATACAATGGTACCGATACTCCATTATCAGTATCGATACCAATATTAGATTCGATGTTGCCTGGT
ATCGATACCCTTACAATGGTATCGATATTAC
Found at i:1501407 original size:45 final size:45
Alignment explanation
Indices: 1501358--1501467 Score: 159
Period size: 45 Copynumber: 2.4 Consensus size: 45
1501348 CTTTATGTTG
** *
1501358 ATAATGCACCCATATGCATTTCAA-CTTTGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTT-AAGCTAAGACATCCTTTCATGCCA
*
1501403 ATAATGCACCCATATGCATTTAAGCTAAGATATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTAAGCTAAGACATCCTTTCATGCCA
*
1501448 ATAATGCACCCATATCCATT
1 ATAATGCACCCATATGCATT
1501468 ATTTTATGCC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 2 0.03
45 57 0.97
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTAAGCTAAGACATCCTTTCATGCCA
Found at i:1501462 original size:27 final size:28
Alignment explanation
Indices: 1501432--1501501 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 28
1501422 TTAAGCTAAG
1501432 ATATCC-TTTCATGCCAATAATGCACCC
1 ATATCCATTTCATGCCAATAATGCACCC
* *
1501459 ATATCCATTATTTTATGCCGATAATGCACCC
1 ATATCC---ATTTCATGCCAATAATGCACCC
*
1501490 ATATGCATTTCA
1 ATATCCATTTCA
1501502 GCTAAGGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
27 6 0.17
28 5 0.14
31 24 0.69
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (28 bp):
ATATCCATTTCATGCCAATAATGCACCC
Found at i:1501528 original size:45 final size:45
Alignment explanation
Indices: 1501473--1501622 Score: 187
Period size: 45 Copynumber: 3.6 Consensus size: 45
1501463 CCATTATTTT
*
1501473 ATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTC
1 ATGCCAATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTC
*
1501518 ATGCCAATAATGTACCCATATGCA-TT-A-CT----C-T--TTT-
1 ATGCCAATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTC
* *
1501552 ATGTCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTC
1 ATGCCAATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTC
1501597 ATGCCAATAATGCACCCATATGCATT
1 ATGCCAATAATGCACCCATATGCATT
1501623 ATTCTTTTAA
Statistics
Matches: 87, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
34 21 0.24
35 5 0.06
36 1 0.01
37 3 0.03
38 1 0.01
41 1 0.01
42 3 0.03
43 1 0.01
44 5 0.06
45 46 0.53
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (45 bp):
ATGCCAATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTC
Found at i:1501583 original size:79 final size:78
Alignment explanation
Indices: 1501392--1501631 Score: 376
Period size: 79 Copynumber: 3.1 Consensus size: 78
1501382 CTTTGGCATC
* * * **
1501392 CTTTCATGCCAATAATGCACCCATATGCATTTAAGCTAAGATATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
*
1501457 CCATATCCATTA-
66 CCATATGCATTAT
*
1501469 -TTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGTAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
1501533 CCATATGCATTACT
66 CCATATGCATTA-T
*
1501547 CTTTTATGTCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
1501612 CCATATGCATTATT
66 CCATATGCATTA-T
1501626 CTTTTA
1 CTTTTA
1501632 ATCATTTATT
Statistics
Matches: 150, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
76 69 0.46
79 81 0.54
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (78 bp):
CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTAT
Found at i:1506196 original size:28 final size:28
Alignment explanation
Indices: 1506164--1506220 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
1506154 AATGTAACAA
1506164 GAAAGATTGAATGGTCTAGTCATTTTAT
1 GAAAGATTGAATGGTCTAGTCATTTTAT
1506192 GAAAGATTGAATGGTCTAGTCATTTTAT
1 GAAAGATTGAATGGTCTAGTCATTTTAT
1506220 G
1 G
1506221 TATTGAGAAA
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:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (28 bp):
GAAAGATTGAATGGTCTAGTCATTTTAT
Found at i:1506672 original size:30 final size:30
Alignment explanation
Indices: 1506638--1506720 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
1506628 TATTGTATTA
* *
1506638 GGAGTATGAATATTTATTGCTAAATAAGTG
1 GGAGTATAAATATTTATTACTAAATAAGTG
* *
1506668 GGAGTATAAATATTTATTATTAAATAATTG
1 GGAGTATAAATATTTATTACTAAATAAGTG
**
1506698 ATAGTATTTAAATATTTATTACT
1 GGAGTA--TAAATATTTATTACT
1506721 TTATATTCAC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 30 0.68
32 14 0.32
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (30 bp):
GGAGTATAAATATTTATTACTAAATAAGTG
Found at i:1511467 original size:18 final size:19
Alignment explanation
Indices: 1511444--1511506 Score: 85
Period size: 18 Copynumber: 3.3 Consensus size: 19
1511434 TCCATTTTTG
1511444 TTATTATTATTA-AAATTA
1 TTATTATTATTATAAATTA
1511462 TTATTATTATTATAAA-TA
1 TTATTATTATTATAAATTA
*
1511480 TTACTATTATTATTAAATATA
1 TTATTATTATTA-TAAAT-TA
1511501 TTATTA
1 TTATTA
1511507 CAAGCCCAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 25 0.64
19 7 0.18
21 7 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATTATTATTATAAATTA
Found at i:1511470 original size:21 final size:20
Alignment explanation
Indices: 1511444--1511506 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 20
1511434 TCCATTTTTG
1511444 TTATTATTATTAAAATTATTA
1 TTATTATTATT-AAATTATTA
1511465 TTATTATTA-TAAA-TATTA
1 TTATTATTATTAAATTATTA
*
1511483 CTATTATTATTAAATATATTA
1 TTATTATTATTAAAT-TATTA
1511504 TTA
1 TTA
1511507 CAAGCCCAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 13 0.35
19 7 0.19
20 1 0.03
21 16 0.43
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTATTATTAAATTATTA
Found at i:1511506 original size:3 final size:3
Alignment explanation
Indices: 1511444--1511494 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
1511434 TCCATTTTTG
** * * *
1511444 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA ATA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1511492 TTA
1 TTA
1511495 AATATATTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:1512893 original size:16 final size:16
Alignment explanation
Indices: 1512874--1512929 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 16
1512864 TTACTTTTTA
1512874 TATTTAATTTTAATTT
1 TATTTAATTTTAATTT
1512890 TATTT-ATTTTACTCATTGTT
1 TATTTAATTTTA---A-T-TT
1512910 TATTTATATTTTAATTT
1 TATTTA-ATTTTAATTT
1512927 TAT
1 TAT
1512930 ATGTTTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
15 6 0.18
16 5 0.15
17 5 0.15
18 2 0.06
19 2 0.06
20 7 0.21
22 6 0.18
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTTAATTTTAATTT
Found at i:1513787 original size:22 final size:22
Alignment explanation
Indices: 1513752--1513793 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
1513742 TATTACTTAT
1513752 TATTTTTATATTATTTTATTAA
1 TATTTTTATATTATTTTATTAA
1513774 TATTTTCTAT-TTATTTTATT
1 TATTTT-TATATTATTTTATT
1513794 CAGATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTTTTATATTATTTTATTAA
Found at i:1519056 original size:22 final size:23
Alignment explanation
Indices: 1519031--1519076 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
1519021 TCTTATACTC
*
1519031 ATCCAACAAAGAAA-AAAAGAAA
1 ATCCAACAAAGAAAGAAAAAAAA
*
1519053 ATCCAGCAAAGAAAGAAAAAAAA
1 ATCCAACAAAGAAAGAAAAAAAA
1519076 A
1 A
1519077 GAAAAAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.72, C:0.13, G:0.11, T:0.04
Consensus pattern (23 bp):
ATCCAACAAAGAAAGAAAAAAAA
Found at i:1519124 original size:8 final size:8
Alignment explanation
Indices: 1519111--1519201 Score: 87
Period size: 8 Copynumber: 11.4 Consensus size: 8
1519101 TATACTCATA
1519111 AAAAAAGG
1 AAAAAAGG
*
1519119 AAAAAAAG
1 AAAAAAGG
1519127 -AAAAAGG
1 AAAAAAGG
1519134 -AAAAAGG
1 AAAAAAGG
*
1519141 AAAAAAAG
1 AAAAAAGG
*
1519149 AAAAAAGAA
1 AAAAAAG-G
**
1519158 AAAAAAAA
1 AAAAAAGG
*
1519166 AAAAAAAG
1 AAAAAAGG
1519174 AAAAAAGG
1 AAAAAAGG
*
1519182 AAAAAAGAA
1 AAAAAAG-G
1519191 AAAAAAGG
1 AAAAAAGG
1519199 AAA
1 AAA
1519202 TTGAATCAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
7 13 0.19
8 44 0.63
9 13 0.19
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:1519130 original size:7 final size:7
Alignment explanation
Indices: 1519120--1519194 Score: 93
Period size: 7 Copynumber: 10.9 Consensus size: 7
1519110 AAAAAAAGGA
1519120 AAAAAAG
1 AAAAAAG
*
1519127 AAAAAGG
1 AAAAAAG
*
1519134 AAAAAGG
1 AAAAAAG
1519141 AAAAAAAG
1 -AAAAAAG
1519149 AAAAAAG
1 AAAAAAG
1519156 -AAAAA-
1 AAAAAAG
1519161 AAAAAA-
1 AAAAAAG
1519167 AAAAAAG
1 AAAAAAG
1519174 AAAAAAGG
1 AAAAAA-G
1519182 AAAAAAG
1 AAAAAAG
1519189 AAAAAA
1 AAAAAA
1519195 AAGGAAATTG
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
6 16 0.26
7 33 0.53
8 13 0.21
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:1519132 original size:15 final size:14
Alignment explanation
Indices: 1519112--1519195 Score: 91
Period size: 15 Copynumber: 5.9 Consensus size: 14
1519102 ATACTCATAA
1519112 AAAAAGGAAAAAAAG
1 AAAAA-GAAAAAAAG
* *
1519127 AAAAAGGAAAAAGG
1 AAAAAGAAAAAAAG
*
1519141 AAAAAAAGAAAAAAG
1 AAAAAGA-AAAAAAG
1519156 AAAAA-AAAAAAA-
1 AAAAAGAAAAAAAG
*
1519168 AAAAAGAAAAAAGG
1 AAAAAGAAAAAAAG
1519182 AAAAAAGAAAAAAA
1 -AAAAAGAAAAAAA
1519196 AGGAAATTGA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
12 5 0.09
13 12 0.21
14 13 0.22
15 28 0.48
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:1519137 original size:22 final size:22
Alignment explanation
Indices: 1519112--1519193 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
1519102 ATACTCATAA
1519112 AAAAAGGAAAAAAAGAAAAAGG
1 AAAAAGGAAAAAAAGAAAAAGG
*
1519134 AAAAAGGAAAAAAAGAAAAAAG
1 AAAAAGGAAAAAAAGAAAAAGG
*
1519156 AAAAA--AAAAAAA-AAAAAGA
1 AAAAAGGAAAAAAAGAAAAAGG
1519175 AAAAAGG-AAAAAAGAAAAA
1 AAAAAGGAAAAAAAGAAAAA
1519194 AAAGGAAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
19 10 0.19
20 13 0.24
21 5 0.09
22 26 0.48
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (22 bp):
AAAAAGGAAAAAAAGAAAAAGG
Found at i:1519145 original size:1 final size:1
Alignment explanation
Indices: 1519141--1519196 Score: 58
Period size: 1 Copynumber: 56.0 Consensus size: 1
1519131 AGGAAAAAGG
* * * ** *
1519141 AAAAAAAGAAAAAAGAAAAAAAAAAAAAAAAAGAAAAAAGGAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1519197 GGAAATTGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:1521663 original size:114 final size:114
Alignment explanation
Indices: 1521460--1521685 Score: 355
Period size: 114 Copynumber: 2.0 Consensus size: 114
1521450 AAGTGCCATG
1521460 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * *
1521525 TGATTTGGTATGACCCCTAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGATTCGGTAGGACCACTAAAACCAATCATTGGATTAGAAAGATGAATT
* *
1521574 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * *
1521639 TGGTTCGGTAGGAACCAC-ATAACCAATCATTGGATTAGGAAGATGAA
66 TGATTCGGTAGG-ACCACTAAAACCAATCATTGGATTAGAAAGATGAA
1521686 GTGCATGATC
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
114 98 0.96
115 4 0.04
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGATTCGGTAGGACCACTAAAACCAATCATTGGATTAGAAAGATGAATT
Found at i:1523965 original size:53 final size:54
Alignment explanation
Indices: 1523771--1523979 Score: 287
Period size: 54 Copynumber: 3.9 Consensus size: 54
1523761 AAAAATCTTG
* * * *
1523771 GCAGAAGCCAC-AGAAAAGGATGAATGTGTTGTCAAACGCTTTACGAATGTCTGA
1 GCAGAAACCACAAG-AAAGGATGAATGTGTTGTCAAATGTTTTACGAACGTCTGA
* * *
1523825 GCAGAAACCACAAGAAAAGATGAATGTGTTGTAAAATATTTTACGAACGTCTGA
1 GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACGTCTGA
1523879 GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACGTCTGA
1 GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACGTCTGA
* * * * *
1523933 G-TGAAGCCACAGGAAAGGATGAATGCGCTGTCAAATGTTTTACGAAC
1 GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
1523980 CCGTTATTCT
Statistics
Matches: 139, Mismatches: 15, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
53 41 0.29
54 96 0.69
55 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (54 bp):
GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACGTCTGA
Found at i:1524373 original size:22 final size:22
Alignment explanation
Indices: 1524347--1524423 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
1524337 ATCTACACTC
*
1524347 TTCAAAAATGATAAATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
**
1524369 TTCAAAGATGATGGATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
* *
1524391 TTTAAAGATGATATATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
1524413 TTCAAAGATGA
1 TTCAAAGATGA
1524424 AAGCTTTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAAATTCTCTT
Found at i:1525421 original size:47 final size:46
Alignment explanation
Indices: 1525287--1526218 Score: 1535
Period size: 46 Copynumber: 20.0 Consensus size: 46
1525277 TTATTTCCCA
* *
1525287 CATCTGTAAGTCCTTCA-TACCATGACGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGT-GCATGATGTTTTCAAAAACCTTCGGGT
1525333 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC------AAAAACCTTCGGGT
* *
1525385 CATCTGTAAGTCCTTTAGTGTATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1525431 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGT
*
1525478 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTTGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
1525524 CATCTGTAAGTCCTTCAGTGCATGAGGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGT
1525571 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGT
* *
1525618 CATCTGTAAGTCCTTTAGTGCATGATGTTTTCAAAAACCTTCAGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
1525664 CATCTGTAATTCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGT
1525711 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGT
*
1525758 AATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGT
*
1525805 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCGTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1525851 CATCTGTAAGTCCTTCAGTGCATGATGTTTTGCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTT-CAAAAACCTTCGGGT
1525898 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
1525944 CATCTGTAAGTCCTTCAGCGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* *
1525990 CATCTGTAAGTCCTTCAGCGCATGATGTTTTCAAAAACCTTCGAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* *
1526036 CATCTGTAAGTCCTTCAGCGCATGATGTTTTCAAAAGCCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1526082 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* *
1526128 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAGCCTTAGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* *
1526173 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTTCGGG
1526219 AGCTTTTTGA
Statistics
Matches: 841, Mismatches: 32, Indels: 25
0.94 0.04 0.03
Matches are distributed among these distances:
45 41 0.05
46 431 0.51
47 325 0.39
52 44 0.05
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (46 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
Found at i:1525527 original size:93 final size:92
Alignment explanation
Indices: 1525287--1526218 Score: 1535
Period size: 93 Copynumber: 10.0 Consensus size: 92
1525277 TTATTTCCCA
* *
1525287 CATCTGTAAGTCCTTCA-TACCATGACGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
1 CATCTGTAAGTCCTTCAGT-GCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
1525351 TGCATGATGTTTTCAAAAAAAAAAACCTTCGGGT
65 TGCATGATGTTTTC------AAAAACCTTCGGGT
* *
1525385 CATCTGTAAGTCCTTTAGTGTATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1525450 GCATGATGTTTTCAAAAAACCTTCGGGT
66 GCATGATGTTTTC-AAAAACCTTCGGGT
*
1525478 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTTGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
1525543 GCATGAGGTTTTCAAAAAACCTTCGGGT
66 GCATGATGTTTTC-AAAAACCTTCGGGT
*
1525571 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTTAG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
*
1525636 TGCATGATGTTTTCAAAAACCTTCAGGT
65 TGCATGATGTTTTCAAAAACCTTCGGGT
*
1525664 CATCTGTAATTCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
1525729 TGCATGATGTTTTCAAAAAACCTTCGGGT
65 TGCATGATGTTTTC-AAAAACCTTCGGGT
*
1525758 AATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
*
1525823 TGCATGATGTTTTCAAAAACCGTCGGGT
65 TGCATGATGTTTTCAAAAACCTTCGGGT
1525851 CATCTGTAAGTCCTTCAGTGCATGATGTTTTGCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTT-CAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
1525916 TGCATGATGTTTTCAAAAACCTTCGGGT
65 TGCATGATGTTTTCAAAAACCTTCGGGT
* *
1525944 CATCTGTAAGTCCTTCAGCGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGC
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
1526009 GCATGATGTTTTCAAAAACCTTCGAGT
66 GCATGATGTTTTCAAAAACCTTCGGGT
* *
1526036 CATCTGTAAGTCCTTCAGCGCATGATGTTTTCAAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1526101 GCATGATGTTTTCAAAAACCTTCGGGT
66 GCATGATGTTTTCAAAAACCTTCGGGT
* * *
1526128 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAGCCTTAGGGTCATCTGTAAGTCCTACAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
1526192 GCATGATGTTTCCAAAAAGCCTTCGGG
66 GCATGATGTTTTCAAAAA-CCTTCGGG
1526219 AGCTTTTTGA
Statistics
Matches: 799, Mismatches: 30, Indels: 16
0.95 0.04 0.02
Matches are distributed among these distances:
91 47 0.06
92 187 0.23
93 358 0.45
94 134 0.17
98 72 0.09
99 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (92 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
GCATGATGTTTTCAAAAACCTTCGGGT
Found at i:1526457 original size:18 final size:19
Alignment explanation
Indices: 1526434--1526496 Score: 85
Period size: 18 Copynumber: 3.3 Consensus size: 19
1526424 TCCATTTTTG
1526434 TTATTATTATTA-AAATTA
1 TTATTATTATTATAAATTA
1526452 TTATTATTATTATAAA-TA
1 TTATTATTATTATAAATTA
*
1526470 TTACTATTATTATTAAATATA
1 TTATTATTATTA-TAAAT-TA
1526491 TTATTA
1 TTATTA
1526497 CAAGCCCAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 25 0.64
19 7 0.18
21 7 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATTATTATTATAAATTA
Found at i:1526460 original size:21 final size:20
Alignment explanation
Indices: 1526434--1526496 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 20
1526424 TCCATTTTTG
1526434 TTATTATTATTAAAATTATTA
1 TTATTATTATT-AAATTATTA
1526455 TTATTATTA-TAAA-TATTA
1 TTATTATTATTAAATTATTA
*
1526473 CTATTATTATTAAATATATTA
1 TTATTATTATTAAAT-TATTA
1526494 TTA
1 TTA
1526497 CAAGCCCAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 13 0.35
19 7 0.19
20 1 0.03
21 16 0.43
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTATTATTAAATTATTA
Found at i:1526496 original size:3 final size:3
Alignment explanation
Indices: 1526434--1526484 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
1526424 TCCATTTTTG
** * * *
1526434 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA ATA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1526482 TTA
1 TTA
1526485 AATATATTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:1528214 original size:14 final size:14
Alignment explanation
Indices: 1528190--1528235 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1528180 TTTCTAAATA
1528190 AATAAATAT-TTTT
1 AATAAATATATTTT
*
1528203 -ATAAATATATTTA
1 AATAAATATATTTT
*
1528216 AATTAATATATTTT
1 AATAAATATATTTT
*
1528230 ATTAAA
1 AATAAA
1528236 AATTATAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
12 8 0.31
13 3 0.12
14 15 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATAAATATATTTT
Found at i:1530403 original size:14 final size:14
Alignment explanation
Indices: 1530384--1530413 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1530374 TGATGAGGCC
*
1530384 CCTATTGGCTCTTT
1 CCTATTAGCTCTTT
1530398 CCTATTAGCTCTTT
1 CCTATTAGCTCTTT
1530412 CC
1 CC
1530414 CTTTTCCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.33, G:0.10, T:0.47
Consensus pattern (14 bp):
CCTATTAGCTCTTT
Found at i:1536497 original size:18 final size:18
Alignment explanation
Indices: 1536474--1536509 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1536464 ATGGGGTGGC
1536474 AAAATTGGTCAAATTTGG
1 AAAATTGGTCAAATTTGG
1536492 AAAATTGGTCAAATTTGG
1 AAAATTGGTCAAATTTGG
1536510 CCACCAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (18 bp):
AAAATTGGTCAAATTTGG
Found at i:1540682 original size:39 final size:39
Alignment explanation
Indices: 1540628--1540787 Score: 311
Period size: 39 Copynumber: 4.1 Consensus size: 39
1540618 TTAACCCCAT
1540628 TCTTCTTGAATTGTAAATACATTTCCATGATACATCATC
1 TCTTCTTGAATTGTAAATACATTTCCATGATACATCATC
1540667 TCTTCTTGAATTGTAAATACATTTCCATGATACATCATC
1 TCTTCTTGAATTGTAAATACATTTCCATGATACATCATC
1540706 TCTTCTTGAATTGTAAATACATTTCCATGATACATCATC
1 TCTTCTTGAATTGTAAATACATTTCCATGATACATCATC
*
1540745 TCTTCTTGAATTGTAAATACATTTCCATGATACATTATC
1 TCTTCTTGAATTGTAAATACATTTCCATGATACATCATC
1540784 TCTT
1 TCTT
1540788 TTACTGAACC
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 120 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.42
Consensus pattern (39 bp):
TCTTCTTGAATTGTAAATACATTTCCATGATACATCATC
Found at i:1551082 original size:24 final size:24
Alignment explanation
Indices: 1551050--1551117 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
1551040 CACTGAAGTG
* * *
1551050 CCACATAGAATTTTTCCCGAATGA
1 CCACGTAGAATTTGTCCCGAATAA
* *
1551074 CCGCGTAGAATTTGTCCTGAATAA
1 CCACGTAGAATTTGTCCCGAATAA
*
1551098 CCACGTAGAA-ATGTCCCGAA
1 CCACGTAGAATTTGTCCCGAA
1551118 GGACTACATA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 8 0.22
24 28 0.78
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (24 bp):
CCACGTAGAATTTGTCCCGAATAA
Found at i:1552191 original size:20 final size:21
Alignment explanation
Indices: 1552166--1552215 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
1552156 TTCGAGTAGC
* *
1552166 ATCGATACTGATGTGG-AGGT
1 ATCGATACTGAAGAGGAAGGT
*
1552186 ATCGATAC-CAAGAGGAAGGT
1 ATCGATACTGAAGAGGAAGGT
1552206 ATCGATACTG
1 ATCGATACTG
1552216 TAATTGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (21 bp):
ATCGATACTGAAGAGGAAGGT
Found at i:1553150 original size:54 final size:54
Alignment explanation
Indices: 1552999--1553423 Score: 525
Period size: 54 Copynumber: 7.9 Consensus size: 54
1552989 TTATGTGTAC
* * *
1552999 TATCGACACTATGTCTGCAACCCACAAAATTTATAATGAGTTTATGAATGATCG
1 TATCGACACTATGTGTGCAACCCACAAAATTCATAATGAGTTTATGAATGACCG
*
1553053 TATCGGCACTA--TGTGCAACCCACAAAATTCATAATGAGTTTATGAATGACCG
1 TATCGACACTATGTGTGCAACCCACAAAATTCATAATGAGTTTATGAATGACCG
* * *
1553105 TATCGGCACTATGTGTACAACCCACATAATTCATAATGAGTTTATGAATGACCG
1 TATCGACACTATGTGTGCAACCCACAAAATTCATAATGAGTTTATGAATGACCG
* *
1553159 TATC-ATCACTATGTGTGCAACCCACAAAATTCATAATGGGCTTATGAATGACCG
1 TATCGA-CACTATGTGTGCAACCCACAAAATTCATAATGAGTTTATGAATGACCG
* * * *
1553213 TATCGACACTATGTATGCAACCCACAGAATTCATAATGAGTTTGTGAATTACCG
1 TATCGACACTATGTGTGCAACCCACAAAATTCATAATGAGTTTATGAATGACCG
* * * * *
1553267 TATCGACACTATGTGTGCAACCTACGAAATTCATAATGAGTTTCTGAATTACCA
1 TATCGACACTATGTGTGCAACCCACAAAATTCATAATGAGTTTATGAATGACCG
* * * * * *
1553321 TATCAACACTATGTGTGCAACCCACAGAATTCATAATAAGTTTGTGAATTACCC
1 TATCGACACTATGTGTGCAACCCACAAAATTCATAATGAGTTTATGAATGACCG
* * *** * *
1553375 TAT-TAGCACTATGTGCGCAACCCATGGAATTCGTAATGAGTTTGTGAAT
1 TATCGA-CACTATGTGTGCAACCCACAAAATTCATAATGAGTTTATGAAT
1553424 TTCCAAATCG
Statistics
Matches: 330, Mismatches: 36, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
52 49 0.15
53 1 0.00
54 279 0.85
55 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (54 bp):
TATCGACACTATGTGTGCAACCCACAAAATTCATAATGAGTTTATGAATGACCG
Found at i:1556540 original size:55 final size:55
Alignment explanation
Indices: 1556302--1556693 Score: 490
Period size: 54 Copynumber: 7.2 Consensus size: 55
1556292 GATGCACATG
* * * * * ** *
1556302 TAGTGCCGATACAGTCATTCATAAACATATTATGAATTTTGTGGG-TTGCA-ACCT
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTGCACA-CA
* * * * *
1556356 TAGTGTCTATACGGTTGTTCATAAACATATGACGAATTCAGT-GGTTTGCACACA
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTGCACACA
* * * * *
1556410 TAGTGCCTATATGGTCATTCATCAATATATGATGAATTTCATGGG-TTGCACACA
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTGCACACA
* *
1556464 TAGTGTCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTACACACA
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTGCACACA
* *
1556519 TAGTACCTATACGGTCGTTCAT-AACATATGACGAATTCCGTGGGTTTGCACACA
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTGCACACA
* *
1556573 TAGTGCCTATACGGTCGTTCATGAACATAAT-ATGAATTCTGTGGGTTTGCACACA
1 TAGTGCCTATACGGTCGTTCATCAACAT-ATGATGAATTCCGTGGGTTTGCACACA
* *
1556628 TAGTGCCTATAAGGTCGTTCATCAACATATGATGAATTCTGTGGGTTTGCACACA
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTGCACACA
1556683 TAGTGCCTATA
1 TAGTGCCTATA
1556694 GTACACTTAG
Statistics
Matches: 295, Mismatches: 36, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
53 2 0.01
54 172 0.58
55 119 0.40
56 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (55 bp):
TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTGCACACA
Found at i:1556586 original size:109 final size:110
Alignment explanation
Indices: 1556302--1556693 Score: 483
Period size: 109 Copynumber: 3.6 Consensus size: 110
1556292 GATGCACATG
* * * * ** * *
1556302 TAGTGCCGATACA-GTCATTCATAAACATATTATGAATTTTGTGGG-TTGCA-ACCTTAGTGTCT
1 TAGTGCCTATA-AGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTGCACA-CATAGTGCCT
* *
1556364 ATACGGTTGTTCATAAACATATGACGAATTCAGT-GGTTTGCACACA
64 ATACGGTCGTTCATAAACATATGATGAATTCAGTGGGTTTGCACACA
* * * * * *
1556410 TAGTGCCTATATGGTCATTCATCAATATATGATGAATTTCATGGG-TTGCACACATAGTGTCTAT
1 TAGTGCCTATAAGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTGCACACATAGTGCCTAT
* * *
1556474 ACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTACACACA
66 ACGGTCGTTCATAAACATATGATGAATTCAGTGGGTTTGCACACA
* * *
1556519 TAGTACCTATACGGTCGTTCAT-AACATATGACGAATTCCGTGGGTTTGCACACATAGTGCCTAT
1 TAGTGCCTATAAGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTGCACACATAGTGCCTAT
* *
1556583 ACGGTCGTTCATGAACATAAT-ATGAATTCTGTGGGTTTGCACACA
66 ACGGTCGTTCATAAACAT-ATGATGAATTCAGTGGGTTTGCACACA
*
1556628 TAGTGCCTATAAGGTCGTTCATCAACATATGATGAATTCTGTGGGTTTGCACACATAGTGCCTAT
1 TAGTGCCTATAAGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTGCACACATAGTGCCTAT
1556693 A
66 A
1556694 GTACACTTAG
Statistics
Matches: 250, Mismatches: 28, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
108 99 0.40
109 108 0.43
110 43 0.17
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (110 bp):
TAGTGCCTATAAGGTCGTTCATCAACATATGATGAATTCCGTGGGTTTGCACACATAGTGCCTAT
ACGGTCGTTCATAAACATATGATGAATTCAGTGGGTTTGCACACA
Found at i:1557768 original size:8 final size:8
Alignment explanation
Indices: 1557755--1557779 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1557745 TTTAACTTTC
1557755 CCCTTCTT
1 CCCTTCTT
1557763 CCCTTCTT
1 CCCTTCTT
1557771 CCCTTCTT
1 CCCTTCTT
1557779 C
1 C
1557780 AATCCATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (8 bp):
CCCTTCTT
Found at i:1559861 original size:21 final size:21
Alignment explanation
Indices: 1559822--1559861 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1559812 AAGGAAGATT
*
1559822 AATGAAATGATAAAGATAATG
1 AATGAAATGATAAAAATAATG
1559843 AATGAAATGA-AATAAATAA
1 AATGAAATGATAA-AAATAA
1559862 AGGATAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (21 bp):
AATGAAATGATAAAAATAATG
Found at i:1561012 original size:42 final size:42
Alignment explanation
Indices: 1560953--1561043 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
1560943 ATTTACTCCT
*
1560953 TATGCTCTCTTAATCGTTCCCATGTAAGTATCATTGCTGTTG
1 TATGCTCTCTTAATCGTTCCCATGTAAGTATCATTCCTGTTG
1560995 TATGCTCTCTTAATCGTTCCCATGTAAGTATCATTCCTGTTG
1 TATGCTCTCTTAATCGTTCCCATGTAAGTATCATTCCTGTTG
*
1561037 CATGCTC
1 TATGCTC
1561044 CATTTAGCTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (42 bp):
TATGCTCTCTTAATCGTTCCCATGTAAGTATCATTCCTGTTG
Found at i:1564493 original size:21 final size:21
Alignment explanation
Indices: 1564454--1564493 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1564444 AAGGAATATT
*
1564454 AATGAAATGATAAAGATAAGG
1 AATGAAATGATAAAAATAAGG
1564475 AATGAAATGA-AATAAATAA
1 AATGAAATGATAA-AAATAA
1564494 AGGATAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.20
Consensus pattern (21 bp):
AATGAAATGATAAAAATAAGG
Done.