Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000389.1 Hibiscus syriacus cultivar Beakdansim tig00000715_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: 2672246
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 15
Found at i:419695 original size:15 final size:15
Alignment explanation
Indices: 419675--419712 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
419665 AAGAACAAGT
419675 TCCACGAAGAAATCC
1 TCCACGAAGAAATCC
419690 TCCACGAAGAAATCC
1 TCCACGAAGAAATCC
419705 TCCACGAA
1 TCCACGAA
419713 ATAGACAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.39, C:0.34, G:0.13, T:0.13
Consensus pattern (15 bp):
TCCACGAAGAAATCC
Found at i:419943 original size:28 final size:28
Alignment explanation
Indices: 419911--419981 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
419901 GATAAATGTT
* *
419911 TTTAAAATACAAATTATATTATTCGAAA
1 TTTAAAATAAAAATAATATTATTCGAAA
419939 TTTAAAATAAAAATAATATTATTCGAAA
1 TTTAAAATAAAAATAATATTATTCGAAA
* *
419967 ATTAAAATTAAAATA
1 TTTAAAATAAAAATA
419982 TAAATTACAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (28 bp):
TTTAAAATAAAAATAATATTATTCGAAA
Found at i:419978 original size:34 final size:34
Alignment explanation
Indices: 419940--420012 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
419930 TATTCGAAAT
* *
419940 TTAAAATAAAAATAATATTATTCGAAAATTAAAA
1 TTAAAATAAAAATAACAGTATTCGAAAATTAAAA
* * * *
419974 TTAAAATATAAATTACAGTATTCGAAATTTAACA
1 TTAAAATAAAAATAACAGTATTCGAAAATTAAAA
420008 TTAAA
1 TTAAA
420013 TTTCAACTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.34
Consensus pattern (34 bp):
TTAAAATAAAAATAACAGTATTCGAAAATTAAAA
Found at i:420635 original size:128 final size:128
Alignment explanation
Indices: 420407--420885 Score: 814
Period size: 128 Copynumber: 3.7 Consensus size: 128
420397 ACAATCCATC
420407 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
420472 AGAATGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCTTGAGAAATAATAGGTACTTATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCATGAGAAATAATAGGTACTGATATGAA
* * *
420535 TAGTGTCCCTGAGGGGCATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
420600 GGAAGGTGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCATGAGAAATAATAGGTACTGATATGAA
* *
420663 TAGTGTCCTCGAGGGACGTGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
420728 GGAAGGCGCCCCCCCGGGAACGCGCCTTCAAGTCCCATGAGAAATAATAGGTACTGATATAAA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCATGAGAAATAATAGGTACTGATATGAA
*
420791 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
420856 AGAAGGCGCGCCCCCGAGAACGCGCCTTCA
66 AGAAGGCGCGCCCCCGGGAACGCGCCTTCA
420886 TGTGAATAGT
Statistics
Matches: 328, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 328 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
AGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCATGAGAAATAATAGGTACTGATATGAA
Found at i:420979 original size:8 final size:8
Alignment explanation
Indices: 420966--421006 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
420956 TCACAAGCTT
420966 TCAAATTC
1 TCAAATTC
420974 TCAAATTC
1 TCAAATTC
*
420982 TCAAACTC
1 TCAAATTC
420990 T-AAATTC
1 TCAAATTC
420997 TCAAATTC
1 TCAAATTC
421005 TC
1 TC
421007 TTAAAATGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (8 bp):
TCAAATTC
Found at i:420996 original size:15 final size:16
Alignment explanation
Indices: 420966--421006 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
420956 TCACAAGCTT
*
420966 TCAAATTCTCAAATTC
1 TCAAACTCTCAAATTC
420982 TCAAACTCT-AAATTC
1 TCAAACTCTCAAATTC
*
420997 TCAAATTCTC
1 TCAAACTCTC
421007 TTAAAATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (16 bp):
TCAAACTCTCAAATTC
Found at i:424598 original size:5 final size:6
Alignment explanation
Indices: 424572--424596 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
424562 ACTAATTTAT
424572 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
424597 TATTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:434030 original size:15 final size:15
Alignment explanation
Indices: 434012--434042 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
434002 AAACAAAAAC
434012 GTTAAATTGAGCCTT
1 GTTAAATTGAGCCTT
434027 GTTAAATTGAGCCTT
1 GTTAAATTGAGCCTT
434042 G
1 G
434043 AAGATCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (15 bp):
GTTAAATTGAGCCTT
Found at i:445802 original size:21 final size:21
Alignment explanation
Indices: 445776--445817 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
445766 CCAGAATTGG
*
445776 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
*
445797 GGGAATTGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
445818 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:445948 original size:19 final size:19
Alignment explanation
Indices: 445924--445989 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
445914 AGCCTCGGGA
*
445924 TACTGTTCAAACAGTGATT
1 TACTGTTCAAACAGTAATT
*
445943 TACTGTTCAAATAGTAATT
1 TACTGTTCAAACAGTAATT
* *
445962 TACTGTTCAAATAGTAAAT
1 TACTGTTCAAACAGTAATT
*
445981 TACTATTCA
1 TACTGTTCA
445990 TAAAAACATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TACTGTTCAAACAGTAATT
Found at i:446086 original size:29 final size:31
Alignment explanation
Indices: 446054--446113 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
446044 AAATTTTGAA
*
446054 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
446083 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
446114 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:449612 original size:47 final size:47
Alignment explanation
Indices: 449524--449613 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
449514 GTTAAATTAG
*
449524 GCTTCAAAAACTACAGATACTTGCATAAATGCTAACCTCAAACAAAA
1 GCTTCAAAAACTACAGATACTTGCATAAATGCTAAACTCAAACAAAA
* *
449571 GCTTCAAAAACTACAGATATTTG-ATTAAATGCTAAATTCAAAC
1 GCTTCAAAAACTACAGATACTTGCA-TAAATGCTAAACTCAAAC
449614 CATGACTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 1 0.03
47 38 0.97
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.26
Consensus pattern (47 bp):
GCTTCAAAAACTACAGATACTTGCATAAATGCTAAACTCAAACAAAA
Found at i:453334 original size:13 final size:13
Alignment explanation
Indices: 453316--453346 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
453306 ACAGTAAGAT
453316 AACACCGTCAGGA
1 AACACCGTCAGGA
453329 AACACCGTCAGGA
1 AACACCGTCAGGA
453342 AACAC
1 AACAC
453347 ACCTGTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.32, G:0.19, T:0.06
Consensus pattern (13 bp):
AACACCGTCAGGA
Found at i:460355 original size:18 final size:18
Alignment explanation
Indices: 460334--460381 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
460324 TATTAATGGA
460334 GTAAAAAAAATAAAAAAG
1 GTAAAAAAAATAAAAAAG
* *
460352 GTAAAAGAAATTAAAAAG
1 GTAAAAAAAATAAAAAAG
*
460370 G-AATAAAAATAA
1 GTAAAAAAAATAA
460382 TGTGTACATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (18 bp):
GTAAAAAAAATAAAAAAG
Found at i:460508 original size:15 final size:13
Alignment explanation
Indices: 460476--460504 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
460466 TATACATGAT
460476 ATAAT-GAAAAAA
1 ATAATAGAAAAAA
460488 ATAATAGAAAAAA
1 ATAATAGAAAAAA
460501 ATAA
1 ATAA
460505 AATAAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (13 bp):
ATAATAGAAAAAA
Found at i:460508 original size:18 final size:18
Alignment explanation
Indices: 460485--460541 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
460475 TATAATGAAA
460485 AAAATAATAGAAAAAAAT
1 AAAATAATAGAAAAAAAT
*
460503 AAAATAA-AG-TAAAAAT
1 AAAATAATAGAAAAAAAT
* * *
460519 ATAATATATATAAATAAAT
1 AAAATA-ATAGAAAAAAAT
460538 AAAA
1 AAAA
460542 ACAAAAATAG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 11 0.37
17 3 0.10
18 8 0.27
19 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAATAATAGAAAAAAAT
Found at i:460656 original size:2 final size:2
Alignment explanation
Indices: 460649--460707 Score: 56
Period size: 2 Copynumber: 31.5 Consensus size: 2
460639 CATCTAATAC
*
460649 AT AT AT AT AT AT AT AT AT AT A- AT GAT AT A- AG AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
*
460689 AT AT AA AT A- AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
460708 AAAAAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
1 5 0.10
2 41 0.85
3 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (2 bp):
AT
Found at i:460668 original size:14 final size:14
Alignment explanation
Indices: 460649--460707 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 14
460639 CATCTAATAC
460649 ATATATATATATAT
1 ATATATATATATAT
460663 ATATATA-ATGATAT
1 ATATATATAT-ATAT
*
460677 A-AGATATATATA-
1 ATATATATATATAT
*
460689 ATATAAATA-ATAT
1 ATATATATATATAT
460702 A-ATATA
1 ATATATA
460708 AAAAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
12 8 0.22
13 15 0.41
14 14 0.38
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:460683 original size:25 final size:25
Alignment explanation
Indices: 460653--460703 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
460643 TAATACATAT
*
460653 ATATATATATATATATAATGATATAAG
1 ATATATATA-ATATA-AATAATATAAG
460680 ATATATATAATATAAATAATATAA
1 ATATATATAATATAAATAATATAA
460704 TATAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.39
26 5 0.22
27 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (25 bp):
ATATATATAATATAAATAATATAAG
Found at i:460708 original size:14 final size:15
Alignment explanation
Indices: 460649--460709 Score: 72
Period size: 14 Copynumber: 4.1 Consensus size: 15
460639 CATCTAATAC
*
460649 ATATATAT-ATATAT
1 ATATATATAATATAA
*
460663 ATATATAATGATATAA
1 ATATAT-ATAATATAA
460679 GATATATATAATATAA
1 -ATATATATAATATAA
460695 ATA-ATATAATATAA
1 ATATATATAATATAA
460709 A
1 A
460710 AAAAAAAAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
14 18 0.43
15 5 0.12
16 13 0.31
17 6 0.14
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
ATATATATAATATAA
Found at i:462403 original size:110 final size:108
Alignment explanation
Indices: 462177--462435 Score: 321
Period size: 110 Copynumber: 2.4 Consensus size: 108
462167 AGTATTGTTC
**
462177 CGAGTCCAATATCCTTCG-TCGTGAAGTTGAAATTGGCTCTG--GAACTGGGAAATTGTTTGTTG
1 CGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAGAACTGAAAAATTGTTTGTTG
* *
462239 ACAGCCAGCCGCCCCTTCGCTGTGAAGTTAAGCTTGTGTTGTCT
65 ACAACCAGCCGCCCCTTCGCTATGAAGTTAAGCTTGTGTTGTCT
* *
462283 CGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-AAAAAGTTGTTTGT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA-G-AACTGAAAAA-TTGTTTGT
* * * * *
462347 TGACAATCAGTCGCCCCTTCGTTATGAATTTGAGCTTGTGTTGTCT
63 TGACAACCAGCCGCCCCTTCGCTATGAAGTTAAGCTTGTGTTGTCT
* *
462393 TGAGTCCAATATTCC-TCACTGTGAAGTTGAAATTGGCTCTGAA
1 CGAGTCCAATA-TCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
462436 ACTGGGAAGC
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
106 37 0.28
107 1 0.01
109 4 0.03
110 86 0.66
111 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (108 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAGAACTGAAAAATTGTTTGTTGA
CAACCAGCCGCCCCTTCGCTATGAAGTTAAGCTTGTGTTGTCT
Found at i:463307 original size:65 final size:68
Alignment explanation
Indices: 463181--463387 Score: 176
Period size: 65 Copynumber: 3.1 Consensus size: 68
463171 CTTAAAGGAA
* ** *
463181 ACAAAATTTTGTTTTAAGGGAAATTAATTTGAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGG
1 ACAAAATTTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTATCTCAAGG
463246 GAG
66 GAG
* * *
463249 ACAAAA-TTTGTTTT-AGGATAAATAAATTCAAAGA-TTT-TGTTTCAAGGGAAACTATCTCAAT
1 ACAAAATTTTGTTTTAAGG-GAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTATCTCAAG
*
463310 CGAG
65 GGAG
** ** * *** * * * *
463314 GTAAAA-TTCATTTCAAGGGAAATGTTTTCAATG--TTTATGTTTCAAGAGAAACTGTCTCAATG
1 ACAAAATTTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTATCTCAAGG
463376 GAG
66 GAG
463379 ACAAAATTT
1 ACAAAATTT
463388 AGTTCCAAAA
Statistics
Matches: 112, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
64 3 0.03
65 72 0.64
66 11 0.10
67 20 0.18
68 6 0.05
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (68 bp):
ACAAAATTTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTCAAGAGAAACTATCTCAAGG
GAG
Found at i:463801 original size:106 final size:106
Alignment explanation
Indices: 463616--463831 Score: 279
Period size: 106 Copynumber: 2.0 Consensus size: 106
463606 GTATTGTTCT
* *
463616 GAGTCCAATATCCTCCGCCGTGAAGTTAAAATTGGCTCTGGAACTAAGAAATTGTTTGTTGACAG
1 GAGTCCAATATCCTCCGCCGTGAAGTTAAAATTGGCTCTGAAACTAAGAAATTGTTTGTTGACAA
* *
463681 CTAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTC
66 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTC
* * * * **
463722 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTCCGCCGTGAAGTTAAAATTGGCTCTGAAACTAAGAAATTGTTTGTTGACAA
* * * * * * *
463787 CCAGTCGTCCCTTCGTTGTGGATTTGAACTTGTGTTGTCTG
66 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTC
463828 GAGT
1 GAGT
463832 GGCACGATAT
Statistics
Matches: 93, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTCCGCCGTGAAGTTAAAATTGGCTCTGAAACTAAGAAATTGTTTGTTGACAA
CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTC
Found at i:464475 original size:32 final size:32
Alignment explanation
Indices: 464429--464519 Score: 128
Period size: 32 Copynumber: 2.8 Consensus size: 32
464419 CCCAAAGATA
* *
464429 CCCAATATTCGATGTTGAATCTCAAAAAATGC
1 CCCAAAATTTGATGTTGAATCTCAAAAAATGC
* * *
464461 CCCAACATTTGATGTTAAATCTAAAAAAATGC
1 CCCAAAATTTGATGTTGAATCTCAAAAAATGC
464493 CCCAAAATTTGATGTTGAATCTTCAAA
1 CCCAAAATTTGATGTTGAATC-TCAAA
464520 TATGCCCTCA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 47 0.92
33 4 0.08
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.30
Consensus pattern (32 bp):
CCCAAAATTTGATGTTGAATCTCAAAAAATGC
Found at i:465683 original size:32 final size:32
Alignment explanation
Indices: 465642--465712 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
465632 ATGCATCTTG
465642 TCTTTTTTTTTTCAATTTTCCTT-TGTTTTTTC
1 TCTTTTTTTTTTC-ATTTTCCTTCTGTTTTTTC
* ** *
465674 TCTTTTTTTTTTCTTTTTTTTTCTTTTTTTTC
1 TCTTTTTTTTTTCATTTTCCTTCTGTTTTTTC
465706 TCTTTTT
1 TCTTTTT
465713 GTTCTGATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 6 0.18
32 28 0.82
ACGTcount: A:0.03, C:0.14, G:0.01, T:0.82
Consensus pattern (32 bp):
TCTTTTTTTTTTCATTTTCCTTCTGTTTTTTC
Found at i:465691 original size:21 final size:21
Alignment explanation
Indices: 465667--465717 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
465657 TTTTCCTTTG
*
465667 TTTTTTCTCTTTTTTTTTTCT
1 TTTTTTCTCTTTTTTTTCTCT
*
465688 TTTTTTTTCTTTTTTTTCTCT
1 TTTTTTCTCTTTTTTTTCTCT
465709 TTTTGTTCT
1 TTTT-TTCT
465718 GATTGAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (21 bp):
TTTTTTCTCTTTTTTTTCTCT
Found at i:465701 original size:30 final size:30
Alignment explanation
Indices: 465642--465717 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
465632 ATGCATCTTG
*
465642 TCTTTTTTTTTTCAATTTTCCTTTGTTTTTTC
1 TCTTTTTTTTTTC--TTTTCCTTTCTTTTTTC
** *
465674 TCTTTTTTTTTTCTTTTTTTTTCTTTTTTT
1 TCTTTTTTTTTTCTTTTCCTTTCTTTTTTC
* *
465704 TCTCTTTTTGTTCT
1 TCTTTTTTTTTTCT
465718 GATTGAATCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 25 0.66
32 13 0.34
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.80
Consensus pattern (30 bp):
TCTTTTTTTTTTCTTTTCCTTTCTTTTTTC
Found at i:465717 original size:11 final size:10
Alignment explanation
Indices: 465667--465717 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 10
465657 TTTTCCTTTG
465667 TTTTTTCTCTT
1 TTTTTTCTC-T
*
465678 TTTTTTTTCT
1 TTTTTTCTCT
*
465688 TTTTTTTTCTT
1 TTTTTTCTC-T
465699 TTTTTTCTCT
1 TTTTTTCTCT
465709 TTTTGTTCT
1 TTTT-TTCT
465718 GATTGAATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
10 15 0.42
11 21 0.58
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:470208 original size:22 final size:21
Alignment explanation
Indices: 470175--470250 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 21
470165 TGCAAACGTG
470175 AAAATAATAAATAAAACAAGAA
1 AAAATAA-AAATAAAACAAGAA
470197 AAAATGAAAAATAACAAAACAAGTAA
1 AAAAT-AAAAAT---AAAACAAG-AA
* * *
470223 AAAATAATAATAAAATAA-TA
1 AAAATAAAAATAAAACAAGAA
470243 AAAATAAA
1 AAAATAAA
470251 CAAAATGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
20 8 0.18
22 15 0.33
23 2 0.04
25 13 0.29
26 7 0.16
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAATAAAAATAAAACAAGAA
Found at i:470234 original size:25 final size:25
Alignment explanation
Indices: 470177--470235 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
470167 CAAACGTGAA
*
470177 AATAATAAATAAAACAAGAAAAAATG
1 AATAAT-AACAAAACAAGAAAAAATG
*
470203 AAAAATAACAAAACAAGTAAAAAAT-
1 AATAATAACAAAACAAG-AAAAAATG
470228 AATAATAA
1 AATAATAA
470236 AATAATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (25 bp):
AATAATAACAAAACAAGAAAAAATG
Found at i:470248 original size:14 final size:13
Alignment explanation
Indices: 470175--470250 Score: 55
Period size: 14 Copynumber: 5.6 Consensus size: 13
470165 TGCAAACGTG
*
470175 AAAATAATAAATAA
1 AAAATAAAAAAT-A
*
470189 AACAAGAAAAAATGA
1 AA-AATAAAAAAT-A
*
470204 AAAATAACAAA-A
1 AAAATAAAAAATA
* *
470216 CAAGTAAAAAATA
1 AAAATAAAAAATA
*
470229 ATAATAAAATAATA
1 AAAATAAAA-AATA
470243 AAAATAAA
1 AAAATAAA
470251 CAAAATGAAT
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
12 9 0.19
13 7 0.15
14 20 0.43
15 11 0.23
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:470480 original size:18 final size:18
Alignment explanation
Indices: 470457--470513 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
470447 ATATTAAGAA
470457 AAAATAATAGAAAAAAAT
1 AAAATAATAGAAAAAAAT
*
470475 AAAATAA-AG-TAAAAAT
1 AAAATAATAGAAAAAAAT
* * *
470491 ATAATATATATAAATAAAT
1 AAAATA-ATAGAAAAAAAT
470510 AAAA
1 AAAA
470514 ACAAAAATAG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 11 0.37
17 3 0.10
18 8 0.27
19 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAATAATAGAAAAAAAT
Found at i:470670 original size:14 final size:14
Alignment explanation
Indices: 470632--470672 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
470622 ATATATAATG
470632 ATATAA-AAAAAT-
1 ATATAATAAAAATA
470644 ATATAATAAAAATA
1 ATATAATAAAAATA
*
470658 ATATAATATAAATA
1 ATATAATAAAAATA
470672 A
1 A
470673 AAAAGGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.23
13 6 0.23
14 14 0.54
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:470700 original size:24 final size:22
Alignment explanation
Indices: 470641--470687 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
470631 GATATAAAAA
*
470641 AATATATAAT-AAAAAT-AATAT
1 AATATA-AATAAAAAAGGAATAT
470662 AATATAAATAAAAAAGGAATAT
1 AATATAAATAAAAAAGGAATAT
470684 AATA
1 AATA
470688 AATAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.13
21 11 0.48
22 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (22 bp):
AATATAAATAAAAAAGGAATAT
Found at i:470709 original size:12 final size:12
Alignment explanation
Indices: 470687--470716 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
470677 GGAATATAAT
470687 AAATA-AATTAA
1 AAATATAATTAA
470698 AAATATAATTAA
1 AAATATAATTAA
470710 AAATATA
1 AAATATA
470717 TTTATAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATATAATTAA
Found at i:473333 original size:19 final size:19
Alignment explanation
Indices: 473300--473336 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
473290 GGGTCAGACG
*
473300 GGTTCAGACTAGTCAAACC
1 GGTTCAGACCAGTCAAACC
*
473319 GGTTCAGACCGGTCAAAC
1 GGTTCAGACCAGTCAAAC
473337 TGCCCTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (19 bp):
GGTTCAGACCAGTCAAACC
Found at i:480368 original size:19 final size:19
Alignment explanation
Indices: 480346--480391 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
480336 AAAGATACAG
480346 GAAATATGTAATTTTTGGA
1 GAAATATGTAATTTTTGGA
480365 GAAATATGTAATTTTTGGA
1 GAAATATGTAATTTTTGGA
480384 GAAATATG
1 GAAATATG
480392 GAACTGGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (19 bp):
GAAATATGTAATTTTTGGA
Found at i:490565 original size:20 final size:20
Alignment explanation
Indices: 490540--490600 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
490530 TTTTGGTGTA
*
490540 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
* *
490560 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATACCCCC-AT
*
490581 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATACCCCC
490601 CACAGGGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.46
21 2 0.06
22 1 0.03
23 16 0.46
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:490609 original size:21 final size:21
Alignment explanation
Indices: 490583--490622 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
490573 CCCCCTTTGA
*
490583 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
490604 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
490623 CTGGGGTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:492640 original size:17 final size:17
Alignment explanation
Indices: 492607--492640 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
492597 TGAATATTTT
* *
492607 TGGATTGTTTGATTTTG
1 TGGATTGTTAGACTTTG
492624 TGGATTGTTAGACTTTG
1 TGGATTGTTAGACTTTG
492641 GATTTGTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.29, T:0.53
Consensus pattern (17 bp):
TGGATTGTTAGACTTTG
Found at i:504342 original size:2 final size:2
Alignment explanation
Indices: 504335--504361 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
504325 TATGAATTTA
504335 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
504362 CCAACAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:505268 original size:2 final size:2
Alignment explanation
Indices: 505261--505304 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
505251 CTTTAAGAGC
505261 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
505303 AT
1 AT
505305 TTGAAATTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:509215 original size:2 final size:2
Alignment explanation
Indices: 509198--509230 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
509188 ATGTATGTTA
*
509198 AT AT A- AT AT GT 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
509231 TGCAGGAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:516839 original size:15 final size:15
Alignment explanation
Indices: 516819--516848 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
516809 TTTTAAAAAA
516819 TGAATTACTGAAATT
1 TGAATTACTGAAATT
*
516834 TGAATTACTGGAATT
1 TGAATTACTGAAATT
516849 GGAAAATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (15 bp):
TGAATTACTGAAATT
Found at i:516887 original size:14 final size:15
Alignment explanation
Indices: 516850--516891 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
516840 ACTGGAATTG
*
516850 GAAAATGAATTATTA
1 GAAAATGAATTACTA
**
516865 GAATTTGAATT-CTA
1 GAAAATGAATTACTA
516879 GAAAATGAATTAC
1 GAAAATGAATTAC
516892 ATTTATGGAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (15 bp):
GAAAATGAATTACTA
Found at i:516932 original size:14 final size:14
Alignment explanation
Indices: 516898--516933 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
516888 TTACATTTAT
*
516898 GGAAAACGTTTTCC
1 GGAAAATGTTTTCC
516912 GGAAAATGTTTTCC
1 GGAAAATGTTTTCC
*
516926 GTAAAATG
1 GGAAAATG
516934 AATTACATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (14 bp):
GGAAAATGTTTTCC
Found at i:517138 original size:49 final size:50
Alignment explanation
Indices: 517041--517139 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
517031 TACAAATATT
*
517041 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATTATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
* * * *
517091 AAATATTA-AAATAAT-TTATTTATTATTAAATA-TTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCA-TAAA-ACTTAATATTATAATTTTA
517140 TTAATAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 9 0.21
49 25 0.60
50 8 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (50 bp):
AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
Found at i:517184 original size:32 final size:30
Alignment explanation
Indices: 517118--517186 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 30
517108 ATTTATTATT
*
517118 AAATATT-ATTTTTATAATTTTATTAATAA
1 AAATATTAATTTTTATAATTTTATAAATAA
*
517147 AAATATTAATTTTTGTATATTTTAGTGAAAT-A
1 AAATATTAATTTTTATA-ATTTTA-T-AAATAA
517179 AAATATTA
1 AAATATTA
517187 TAAATTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 7 0.21
30 8 0.24
31 6 0.18
32 10 0.29
33 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (30 bp):
AAATATTAATTTTTATAATTTTATAAATAA
Found at i:517309 original size:29 final size:30
Alignment explanation
Indices: 517274--517349 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 30
517264 CTTTATTAAA
* *
517274 ATATTATTTAAATATATAAATAA-TATTAT
1 ATATTATTTAAATATAAAAAAAATTATTAT
517303 -TCATTA-TTAAATATAAAAAAAATTATTAT
1 AT-ATTATTTAAATATAAAAAAAATTATTAT
517332 ATATTA-TTAAA-ATAAAAA
1 ATATTATTTAAATATAAAAA
517350 TATAATATCT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 22 0.52
29 19 0.45
30 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
ATATTATTTAAATATAAAAAAAATTATTAT
Found at i:517327 original size:26 final size:27
Alignment explanation
Indices: 517275--517337 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 27
517265 TTTATTAAAA
*
517275 TATTATTTAAATATATAAATAATATTAT
1 TATTA-TTAAATATATAAATAAAATTAT
517303 TCATTATTAAATATA-AAA-AAAATTAT
1 T-ATTATTAAATATATAAATAAAATTAT
517329 TATATATTA
1 TAT-TATTA
517338 TTAAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 2 0.06
26 13 0.41
27 3 0.09
28 10 0.31
29 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
TATTATTAAATATATAAATAAAATTAT
Found at i:517357 original size:24 final size:23
Alignment explanation
Indices: 517316--517362 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
517306 TTATTAAATA
* *
517316 TAAAAAAAATTATTATATATTAT
1 TAAAAAAAAATATAATATATTAT
*
517339 TAAAATAAAAATATAATATCTTAT
1 TAAAA-AAAAATATAATATATTAT
517363 ATTATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAAAAAAAATATAATATATTAT
Found at i:517363 original size:29 final size:28
Alignment explanation
Indices: 517274--517374 Score: 84
Period size: 29 Copynumber: 3.5 Consensus size: 28
517264 CTTTATTAAA
* *
517274 ATATTATTTAAATATATAAATAA-TATTAT
1 ATATTA-TTAAA-ATAAAAAAAATTATTAT
517303 -TCATTATTAAATATAAAAAAAATTATTAT
1 AT-ATTATTAAA-ATAAAAAAAATTATTAT
517332 ATATTATTAAAATAAAAATATAA-TATCT-T
1 ATATTATTAAAATAAAAA-A-AATTAT-TAT
*
517361 ATATTATTATAATA
1 ATATTATTAAAATA
517375 TAATTGATTA
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
28 22 0.35
29 37 0.59
30 4 0.06
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
ATATTATTAAAATAAAAAAAATTATTAT
Found at i:518033 original size:20 final size:20
Alignment explanation
Indices: 518010--518061 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
518000 AACGCGATCT
518010 CCAGAATCGCAAATCAGTTC
1 CCAGAATCGCAAATCAGTTC
518030 CCAGAATCGCAAATCAGTTC
1 CCAGAATCGCAAATCAGTTC
518050 CCAGAATCGCAA
1 CCAGAATCGCAA
518062 TGCGATAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.17
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTC
Found at i:518197 original size:20 final size:20
Alignment explanation
Indices: 518173--518348 Score: 138
Period size: 20 Copynumber: 8.8 Consensus size: 20
518163 AGCTCGTATC
518173 CGTAAATCGCAACGAAAATA
1 CGTAAATCGCAACGAAAATA
* * * *
518193 TGTAAAATCGCAACGCATATC
1 CGT-AAATCGCAACGAAAATA
*
518214 CGTAAATCGCAACGAGAATA
1 CGTAAATCGCAACGAAAATA
* * *
518234 CGTAAATCACAACGCATAT-
1 CGTAAATCGCAACGAAAATA
*
518253 CTGTAAATCGCAACGAGAATA
1 C-GTAAATCGCAACGAAAATA
* * *** *
518274 CGTAAATCGTAATGCGTATC
1 CGTAAATCGCAACGAAAATA
* **
518294 CGTAAATCGCAATGCGAATA
1 CGTAAATCGCAACGAAAATA
* **
518314 CGTAAATCGCAATGCGAATA
1 CGTAAATCGCAACGAAAATA
518334 CGTAAATCGCAACGA
1 CGTAAATCGCAACGA
518349 GATTCTGACT
Statistics
Matches: 126, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
19 1 0.01
20 108 0.86
21 17 0.13
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
CGTAAATCGCAACGAAAATA
Found at i:518252 original size:40 final size:40
Alignment explanation
Indices: 518137--518350 Score: 241
Period size: 40 Copynumber: 5.3 Consensus size: 40
518127 GATTCTGACT
* * * * * *
518137 ATCGCAACGAGTATCCGTAAAATTGCAGCTCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCATATCCGTAA
* *
518178 ATCGCAACGAAAATATGTAAAATCGCAACGCATATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCATATCCGTAA
* *
518219 ATCGCAACGAGAATACGTAAATCACAACGCATATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCATATCCGTAA
* * *
518259 ATCGCAACGAGAATACGTAAATCGTAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCATATCCGTAA
* * * *
518299 ATCGCAATGCGAATACGTAAATCGCAATGCGA-ATACGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGC-ATATCCGTAA
518339 ATCGCAACGAGA
1 ATCGCAACGAGA
518351 TTCTGACTAT
Statistics
Matches: 148, Mismatches: 24, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
40 99 0.67
41 49 0.33
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCATATCCGTAA
Found at i:518281 original size:60 final size:59
Alignment explanation
Indices: 518173--518350 Score: 171
Period size: 60 Copynumber: 2.9 Consensus size: 59
518163 AGCTCGTATC
* * * *
518173 CGTAAATCGCAACGAAAATATGTAAAATCGCAACGCA-TATCCGTAAATCGCAACGAGAATA
1 CGTAAATCGCAACG-CAATCTGT-AAATCGCAACG-AGAATACGTAAATCGCAACGAGAATA
* * * * * *
518234 CGTAAATCACAACGCATATCTGTAAATCGCAACGAGAATACGTAAATCGTAATGCGTATC
1 CGTAAATCGCAACGCA-ATCTGTAAATCGCAACGAGAATACGTAAATCGCAACGAGAATA
* * *
518294 CGTAAATCGCAATGCGAATAC-GTAAATCGCAATGCGAATACGTAAATCGCAACGAGA
1 CGTAAATCGCAACGC-AAT-CTGTAAATCGCAACGAGAATACGTAAATCGCAACGAGA
518351 TTCTGACTAT
Statistics
Matches: 95, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
59 1 0.01
60 74 0.78
61 20 0.21
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (59 bp):
CGTAAATCGCAACGCAATCTGTAAATCGCAACGAGAATACGTAAATCGCAACGAGAATA
Found at i:519234 original size:24 final size:24
Alignment explanation
Indices: 519207--519260 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
519197 GTATTCGAAA
519207 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
519231 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
519255 TTTGAT
1 TTTGAT
519261 GATTTTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:521701 original size:20 final size:20
Alignment explanation
Indices: 521676--521727 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
521666 CATTCATTTG
* *
521676 ACTATCGCAATGCGGAATTA
1 ACTATCGCAACGCGGAAATA
*
521696 ACTATCGCAACGCGGAAATG
1 ACTATCGCAACGCGGAAATA
521716 ACTATCGCAACG
1 ACTATCGCAACG
521728 AGAGAATCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (20 bp):
ACTATCGCAACGCGGAAATA
Found at i:521756 original size:19 final size:19
Alignment explanation
Indices: 521732--521820 Score: 128
Period size: 19 Copynumber: 4.7 Consensus size: 19
521722 GCAACGAGAG
521732 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
521751 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
521770 AATCGCAATGCTAAATGAA
1 AATCGCAATGCGAAATGAA
*
521789 AATCGCAA--CGAGTATGAA
1 AATCGCAATGCGA-AATGAA
*
521807 AATCGCAACGCGAA
1 AATCGCAATGCGAA
521821 TCGCATTGCA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
17 2 0.03
18 13 0.21
19 45 0.71
20 3 0.05
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:521786 original size:38 final size:37
Alignment explanation
Indices: 521699--521820 Score: 128
Period size: 38 Copynumber: 3.4 Consensus size: 37
521689 GGAATTAACT
* **
521699 ATCGCAACGCGGAAATGACTATCGCAACGAG-A-G--A
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAATGAAA
521733 ATCGCAATGCGAAATGAAAATCGCAATGCGA-AATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CGAGAATGAAA
* *
521771 ATCGCAATGCTAAATGAAAATCGCAACGAGTATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAATGAAA
*
521808 ATCGCAACGCGAA
1 ATCGCAATGCGAA
521821 TCGCATTGCA
Statistics
Matches: 74, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
33 14 0.19
34 9 0.12
35 4 0.05
36 4 0.05
37 17 0.23
38 26 0.35
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (37 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAATGAAA
Found at i:522081 original size:20 final size:20
Alignment explanation
Indices: 522056--522109 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
522046 AGACATTCAT
**
522056 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAACACGGAA
522076 TTGACTATCGCAACACGGAA
1 TTGACTATCGCAACACGGAA
*
522096 ATGACTATCGCAAC
1 TTGACTATCGCAAC
522110 GAGAGAATCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (20 bp):
TTGACTATCGCAACACGGAA
Found at i:522139 original size:33 final size:34
Alignment explanation
Indices: 522102--522177 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
522092 GGAAATGACT
522102 ATCGCAACGAGAGAATCGCAATGC-AAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
* *
522135 ATCGCAACGAGTGAATCGTAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
522169 ATCGCAACG
1 ATCGCAACG
522178 CGAAATTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 22 0.55
34 18 0.45
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
Found at i:522515 original size:20 final size:20
Alignment explanation
Indices: 522492--522530 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
522482 ATCGTAATGC
*
522492 GGAATTAACTATCGCAACGT
1 GGAAATAACTATCGCAACGT
*
522512 GGAAATGACTATCGCAACG
1 GGAAATAACTATCGCAACG
522531 AGAGAATCGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (20 bp):
GGAAATAACTATCGCAACGT
Found at i:522846 original size:20 final size:20
Alignment explanation
Indices: 522821--522875 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
522811 AGACATTCAT
*
522821 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAACGCGGAA
522841 TTGACTATCGCAACGCGGAA
1 TTGACTATCGCAACGCGGAA
*
522861 ATGACTATCGCAACG
1 TTGACTATCGCAACG
522876 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (20 bp):
TTGACTATCGCAACGCGGAA
Found at i:522889 original size:345 final size:345
Alignment explanation
Indices: 522242--523256 Score: 1933
Period size: 345 Copynumber: 2.9 Consensus size: 345
522232 GATTTTCATT
* * *
522242 TCGCATTACGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTCAATCACAA
1 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
*
522307 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
522372 TATTATGTGTGAACTTTTAACA-TTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
131 TATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
* *
522436 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGTAATGCGGAATTAAC
196 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGAC
*
522501 TATCGCAACGTGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAG
261 TATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAG
522566 TATGAAAATCGCAACGCGAA
326 TATGAAAATCGCAACGCGAA
*
522586 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAAACACAA
1 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
522651 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
*
522716 TATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTT
131 TATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
522781 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGAC
196 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGAC
522846 TATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAG
261 TATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAG
522911 TATGAAAATCGCAACGCGAA
326 TATGAAAATCGCAACGCGAA
522931 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
1 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
522996 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
523061 TATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
131 TATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
*
523126 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACGATCGCAATGCGGAATTGAC
196 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGAC
523191 TATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAG
261 TATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAG
523256 T
326 T
523257 GAATCGTAAT
Statistics
Matches: 658, Mismatches: 12, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
344 147 0.22
345 511 0.78
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (345 bp):
TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
TATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGAC
TATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAG
TATGAAAATCGCAACGCGAA
Found at i:522897 original size:33 final size:34
Alignment explanation
Indices: 522847--522928 Score: 94
Period size: 33 Copynumber: 2.3 Consensus size: 34
522837 GGAATTGACT
**
522847 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCGGAAATGAAAATCGCAACGAGAGA
*
522881 ATCGCAATGC-GAAATGAAAATCGCAACGAGTATGAAA
1 ATCGCAACGCGGAAATGAAAATCGCAACGAG-A-G--A
522918 ATCGCAACGCG
1 ATCGCAACGCG
522929 AATCGCATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
33 18 0.46
34 10 0.26
35 1 0.03
37 10 0.26
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.13
Consensus pattern (34 bp):
ATCGCAACGCGGAAATGAAAATCGCAACGAGAGA
Found at i:523195 original size:20 final size:20
Alignment explanation
Indices: 523166--523220 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
523156 AGACATTCAT
* *
523166 TTGACGATCGCAATGCGGAA
1 TTGACTATCGCAACGCGGAA
523186 TTGACTATCGCAACGCGGAA
1 TTGACTATCGCAACGCGGAA
*
523206 ATGACTATCGCAACG
1 TTGACTATCGCAACG
523221 AGAGAATCGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (20 bp):
TTGACTATCGCAACGCGGAA
Found at i:523280 original size:34 final size:33
Alignment explanation
Indices: 523192--523287 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
523182 GGAATTGACT
* **
523192 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
523226 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
523259 ATCGTAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
523288 CGAAATTAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:523362 original size:19 final size:19
Alignment explanation
Indices: 523297--523388 Score: 122
Period size: 19 Copynumber: 5.1 Consensus size: 19
523287 GCGAAATTAG
*
523297 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
523316 TTTTCGCATTGCGA--TTCA
1 -TTTCGCATTGCGATTTTCA
*
523334 -CTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
523350 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
523369 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
523388 T
1 T
523389 CTTTTCCTCT
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
14 6 0.09
16 7 0.11
17 3 0.05
18 4 0.06
19 32 0.50
20 12 0.19
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:523633 original size:20 final size:20
Alignment explanation
Indices: 523608--523659 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
523598 CATTCATTTG
* *
523608 ACTATCGCAATGCGGAATTA
1 ACTATCGCAACGCGGAAATA
* *
523628 ACTATCACAACGCGGAAATG
1 ACTATCGCAACGCGGAAATA
523648 ACTATCGCAACG
1 ACTATCGCAACG
523660 AGAGAATCGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
ACTATCGCAACGCGGAAATA
Found at i:523688 original size:19 final size:19
Alignment explanation
Indices: 523664--523733 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
523654 GCAACGAGAG
523664 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
523683 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
523702 AATCGCAA--CGAGTATGAA
1 AATCGCAATGCGA-AATGAA
*
523720 AATCGCAACGCGAA
1 AATCGCAATGCGAA
523734 TCGCATTGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.07
18 13 0.28
19 27 0.59
20 3 0.07
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:523994 original size:20 final size:20
Alignment explanation
Indices: 523969--524023 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
523959 AGACATTCAT
* *
523969 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAACGCAGAA
523989 TTGACTATCGCAACGCAGAA
1 TTGACTATCGCAACGCAGAA
**
524009 AAGACTATCGCAACG
1 TTGACTATCGCAACG
524024 AGAGAATCGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (20 bp):
TTGACTATCGCAACGCAGAA
Found at i:524054 original size:33 final size:34
Alignment explanation
Indices: 524015--524090 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
524005 AGAAAAGACT
524015 ATCGCAACGAGAGAATCGCAATGC-AAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
* *
524048 ATCGCAACGAGTGAATCGTAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
524082 ATCGCAACG
1 ATCGCAACG
524091 CGAAATTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 22 0.55
34 18 0.45
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
Found at i:524165 original size:19 final size:19
Alignment explanation
Indices: 524100--524248 Score: 218
Period size: 19 Copynumber: 8.1 Consensus size: 19
524090 GCGAAATTAG
*
524100 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
524119 TTTTCGCATTGCGA--TTCA
1 -TTTCGCATTGCGATTTTCA
*
524137 -CTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
524153 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
*
524172 TTTCGCATTGCAATTTTCA
1 TTTCGCATTGCGATTTTCA
*
524191 TTTCGAATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
524210 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
524229 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
524248 T
1 T
524249 CTTTTCCTCT
Statistics
Matches: 117, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
14 6 0.05
16 7 0.06
17 3 0.03
18 4 0.03
19 85 0.73
20 12 0.10
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:524490 original size:20 final size:20
Alignment explanation
Indices: 524465--524519 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
524455 AGACATTCAT
*
524465 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAACGCGGAA
524485 TTGACTATCGCAACGCGGAA
1 TTGACTATCGCAACGCGGAA
*
524505 ATGACTATCGCAACG
1 TTGACTATCGCAACG
524520 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (20 bp):
TTGACTATCGCAACGCGGAA
Found at i:524530 original size:14 final size:14
Alignment explanation
Indices: 524511--524598 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
524501 GGAAATGACT
524511 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
524525 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
*
524544 ATCGCAACGAGTGA
1 ATCGCAACGAGAGA
*
524558 ATCGCAATGCGAAAATGAAA
1 ATCGCAA--CG---A-GAGA
524578 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
524592 ATCGCAA
1 ATCGCAA
524599 TGCGAAATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 22
0.67 0.07 0.26
Matches are distributed among these distances:
14 26 0.46
15 2 0.04
16 4 0.07
17 2 0.04
18 3 0.05
19 11 0.19
20 9 0.16
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:524548 original size:19 final size:19
Alignment explanation
Indices: 524524--524636 Score: 129
Period size: 19 Copynumber: 6.4 Consensus size: 19
524514 GCAACGAGAG
524524 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
524543 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
524557 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
524577 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
524591 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
524610 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
524629 AATCGCAA
1 AATCGCAA
524637 CCGGCTTCAC
Statistics
Matches: 79, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.23
15 1 0.01
16 7 0.09
17 2 0.03
18 6 0.08
19 37 0.47
20 8 0.10
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:524579 original size:34 final size:33
Alignment explanation
Indices: 524491--524617 Score: 200
Period size: 33 Copynumber: 3.8 Consensus size: 33
524481 GGAATTGACT
* **
524491 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
524525 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
524558 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCG-AAATGAAAATCGCAACGAGAGA
524592 ATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
524618 TGCGAAATGA
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
33 46 0.53
34 41 0.47
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:524599 original size:67 final size:67
Alignment explanation
Indices: 524491--524617 Score: 218
Period size: 67 Copynumber: 1.9 Consensus size: 67
524481 GGAATTGACT
* **
524491 ATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGT
1 ATCGCAACGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGT
524556 GA
66 GA
*
524558 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA
524618 TGCGAAATGA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (67 bp):
ATCGCAACGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGT
GA
Found at i:524894 original size:20 final size:21
Alignment explanation
Indices: 524869--524923 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
524859 AGACATTCAT
*
524869 TTGACTATCGCAATGC-GAAA
1 TTGACTATCGCAACGCGGAAA
524889 TTGACTATCGCAACGCGGAAA
1 TTGACTATCGCAACGCGGAAA
524910 -TGACTATCGCAACG
1 TTGACTATCGCAACG
524924 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (21 bp):
TTGACTATCGCAACGCGGAAA
Found at i:524934 original size:14 final size:14
Alignment explanation
Indices: 524915--525002 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
524905 GGAAATGACT
524915 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
524929 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
*
524948 ATCGCAACGAGTGA
1 ATCGCAACGAGAGA
*
524962 ATCGCAATGCGAAAATGAAA
1 ATCGCAA--CG---A-GAGA
524982 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
524996 ATCGCAA
1 ATCGCAA
525003 TGCGAAATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 22
0.67 0.07 0.26
Matches are distributed among these distances:
14 26 0.46
15 2 0.04
16 4 0.07
17 2 0.04
18 3 0.05
19 11 0.19
20 9 0.16
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:524945 original size:33 final size:33
Alignment explanation
Indices: 524895--525063 Score: 221
Period size: 33 Copynumber: 4.9 Consensus size: 33
524885 GAAATTGACT
* **
524895 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
524929 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
524962 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCG-AAATGAAAATCGCAACGAGAGA
*
524996 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGA
*
525034 ATCGCAATGCTAAATGAAAATCGCAACGAG
1 ATCGCAATGCGAAATGAAAATCGCAACGAG
525064 TATGAAAATC
Statistics
Matches: 122, Mismatches: 7, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
33 47 0.39
34 42 0.34
35 2 0.02
36 2 0.02
37 1 0.01
38 28 0.23
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:524952 original size:19 final size:19
Alignment explanation
Indices: 524928--525083 Score: 165
Period size: 19 Copynumber: 8.7 Consensus size: 19
524918 GCAACGAGAG
524928 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
524947 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
524961 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
524981 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
524995 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
525014 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
525033 AATCGCAATGCTAAATGAA
1 AATCGCAATGCGAAATGAA
*
525052 AATCGCAA--CGAGTATGAA
1 AATCGCAATGCGA-AATGAA
*
525070 AATCGCAACGCGAA
1 AATCGCAATGCGAA
525084 TCGCATTGCA
Statistics
Matches: 115, Mismatches: 8, Indels: 28
0.76 0.05 0.19
Matches are distributed among these distances:
14 18 0.16
15 1 0.01
16 7 0.06
17 4 0.03
18 19 0.17
19 55 0.48
20 11 0.10
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:525003 original size:67 final size:70
Alignment explanation
Indices: 524875--525063 Score: 242
Period size: 67 Copynumber: 2.7 Consensus size: 70
524865 TCATTTGACT
* * * **
524875 ATCGCAATGCGAAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCG
1 ATCGCAA-GCGAAA-TGA-AATCGCAATGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCG
524940 AAATGAAA
63 AAATGAAA
*
524948 ATCGCAA-CG-AGTG-AATCGCAATGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAA
1 ATCGCAAGCGAAATGAAATCGCAATGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAA
525010 TGAAA
66 TGAAA
*
525015 ATCGCAATGCGAAATGAAAATCGCAATGC-TAAATGAAAATCGCAACGAG
1 ATCGCAA-GCGAAATG-AAATCGCAATGCGAAAATGAAAATCGCAACGAG
525064 TATGAAAATC
Statistics
Matches: 103, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
67 56 0.54
69 4 0.04
70 4 0.04
71 21 0.20
72 11 0.11
73 7 0.07
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (70 bp):
ATCGCAAGCGAAATGAAATCGCAATGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAA
TGAAA
Found at i:525347 original size:20 final size:20
Alignment explanation
Indices: 525322--525373 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
525312 CATTCATTTG
* *
525322 ACTATCGCAATGCGGAATTA
1 ACTATCGCAACGCGGAAATA
* *
525342 ACTATCGCAACGTGGAAATG
1 ACTATCGCAACGCGGAAATA
525362 ACTATCGCAACG
1 ACTATCGCAACG
525374 AGAGAATCGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
ACTATCGCAACGCGGAAATA
Found at i:525691 original size:20 final size:20
Alignment explanation
Indices: 525662--525716 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
525652 AGACATTCAT
* *
525662 TTGACGATCGCAATGCGGAA
1 TTGACTATCGCAACGCGGAA
525682 TTGACTATCGCAACGCGGAA
1 TTGACTATCGCAACGCGGAA
*
525702 ATGACTATCGCAACG
1 TTGACTATCGCAACG
525717 AGAGAATCGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (20 bp):
TTGACTATCGCAACGCGGAA
Found at i:525776 original size:34 final size:33
Alignment explanation
Indices: 525688--525783 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
525678 GGAATTGACT
* **
525688 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
525722 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
525755 ATCGTAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
525784 CGAAATTAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:525858 original size:19 final size:19
Alignment explanation
Indices: 525793--525884 Score: 122
Period size: 19 Copynumber: 5.1 Consensus size: 19
525783 GCGAAATTAG
*
525793 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
525812 TTTTCGCATTGCGA--TTCA
1 -TTTCGCATTGCGATTTTCA
*
525830 -CTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
525846 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
525865 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
525884 T
1 T
525885 CTTTTCCTCT
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
14 6 0.09
16 7 0.11
17 3 0.05
18 4 0.06
19 32 0.50
20 12 0.19
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:526129 original size:20 final size:20
Alignment explanation
Indices: 526104--526155 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
526094 CATTCATTTG
* *
526104 ACTATCGCAATGCGGAATTA
1 ACTATCGCAACGCGGAAATA
* *
526124 ACTATCACAACGCGGAAATG
1 ACTATCGCAACGCGGAAATA
526144 ACTATCGCAACG
1 ACTATCGCAACG
526156 AGAGAATCGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
ACTATCGCAACGCGGAAATA
Found at i:526471 original size:20 final size:20
Alignment explanation
Indices: 526446--526500 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
526436 AGACATTCAT
* *
526446 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAACGCAGAA
526466 TTGACTATCGCAACGCAGAA
1 TTGACTATCGCAACGCAGAA
**
526486 AAGACTATCGCAACG
1 TTGACTATCGCAACG
526501 AGAGAATCGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (20 bp):
TTGACTATCGCAACGCAGAA
Found at i:526531 original size:33 final size:34
Alignment explanation
Indices: 526492--526567 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
526482 AGAAAAGACT
526492 ATCGCAACGAGAGAATCGCAATGC-AAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
* *
526525 ATCGCAACGAGTGAATCGTAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
526559 ATCGCAACG
1 ATCGCAACG
526568 CGAAATTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 22 0.55
34 18 0.45
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
Found at i:526535 original size:345 final size:344
Alignment explanation
Indices: 525867--526536 Score: 1223
Period size: 345 Copynumber: 1.9 Consensus size: 344
525857 GATTTTCATT
* *
525867 TCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTCAATCACAA
1 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
* *
525932 CCGGCTTCACCTTTTGGGACTGTTAACTTGGGTGATTTTCAAATGCAAATGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTCAAATGCAAACGTTGTATTATGTGTA
525997 TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
131 TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
*
526062 TATGATAAGTTCAGTTGTTATCCCTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
196 TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
* * *
526127 ATCACAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGT
261 ATCACAACGCAGAAAAGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGT
526192 ATGAAAATCGCAACGCGAA
326 ATGAAAATCGCAACGCGAA
*
526211 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGTATCCTCATCAAAATCCCAATCACAA
1 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
*
526276 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTCAAATGCAAACGTTGTATTATGTGTA
526341 TATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
131 TATTATGTGTGAACTTTTAACA-TTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
*
526406 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGAC
195 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAAC
*
526471 TATCGCAACGCAGAAAAGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAG
260 TATCACAACGCAGAAAAGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAG
526536 T
325 T
526537 GAATCGTAAT
Statistics
Matches: 313, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
344 146 0.47
345 167 0.53
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (344 bp):
TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTCAAATGCAAACGTTGTATTATGTGTA
TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
ATCACAACGCAGAAAAGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGT
ATGAAAATCGCAACGCGAA
Found at i:526645 original size:19 final size:19
Alignment explanation
Indices: 526577--526706 Score: 180
Period size: 19 Copynumber: 7.1 Consensus size: 19
526567 GCGAAATTAG
*
526577 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
526596 TTTTCGCATTGCGA--TTCA
1 -TTTCGCATTGCGATTTTCA
*
526614 -CTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
*
526630 TTTCGCATTGCAATTTTCA
1 TTTCGCATTGCGATTTTCA
*
526649 TTTCGAATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
526668 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
526687 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
526706 T
1 T
526707 CTTTTCCTCT
Statistics
Matches: 98, Mismatches: 7, Indels: 11
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.06
16 7 0.07
17 3 0.03
18 4 0.04
19 66 0.67
20 12 0.12
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:526903 original size:822 final size:822
Alignment explanation
Indices: 523302--531984 Score: 10548
Period size: 822 Copynumber: 10.5 Consensus size: 822
523292 ATTAGTTTCG
* *
523302 CGTTGCGATTTTCATTTTCGCATTGCGA--TTCA-CTCG--TTGCGATTTTCATTTCGCATTGCG
1 CGTTGCGATTTTCA-TTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGCG
523362 ATTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCT
65 ATTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCT
523427 CAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTA
130 CAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTA
523492 TTATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTT
195 TTATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTT
*
523557 GAACATTGCTATGATAAGTTCAGTTGTTATCCCTTATTAGACATTCATTTGACTATCGCAATGCG
260 GAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCG
*
523622 GAATTAACTATCACAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATC
325 GAATTAACTATCGCAACGCGGAAATGACTATCG---C-----AA-CG--A---G--A-G--AATC
523687 GCAATGCGAAATGAAAATCGCAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCAT
371 GCAATGCGAAATGAAAATCGCAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCAT
*
523752 CTTTTCCTCTACCAAAATATGTATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGG
436 CTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGG
523817 ACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTT
501 ACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTT
523882 AACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTG
566 AACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTG
* *
523947 TTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCAGAAAAG
631 TTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCGGAAATG
524012 ACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAA
696 ACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAA
524077 TGAAAATCGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGT
761 TGAAAATCGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCG----A----T
524142 TGCGATTTTCATTT
818 T-C-A----C---T
524156 CGCATTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGC
1 CG--TTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGC
524221 GATTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATC
64 GATTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATC
**
524286 TCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACATTGT
129 TCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGT
*
524351 ATTATGTGTATATTATGTGTGAACTTTTAATATTTTCAGTTAGGCATGTATTAGTAACTTGAGTT
194 ATTATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTT
524416 TGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGC
259 TGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGC
*
524481 GGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAAT
324 GGAATTAACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAAT
* * * ***** * * *
524546 CGCAACGAG--TG--AATCGCAATGCGAAAAT-GAAAATCGCAA----CGAGAGAAT-CGCAATG
389 CGCAACGAGTATGAAAATCGCAACGCG--AATCG--CATTGCAATTTTC-ATCTTTTCCTCTA-C
* ** * * *** * ****
524601 CGAAATGA-AAATCGC-AATGCGAAATGAAAATCGCAACCGGCTTCACAATCATATTTTCCTCTA
448 CAAAAT-ATGGATC-CTCAT-CAAAATCCCAATCACAACCGGCTTCAC---C-T-TTTGGGACT-
*** * * * * ** * *
524664 CCAAAATATAGATCCTCATCAAAATCCAAAT-CACAACCGGCTT-CACCTTTTGGGACTGT-TAA
504 GTTAACT-TAG---GTGAT----TTTTAAATGCA-AA-C-G-TTGTA--TTAT--G--TGTAT-A
** * *
524726 CTTA-G-GTGATTTTTAAATGCAAACATTGTATT-ATGTGTA--TAT-TATGT-GTGAACTTTTA
550 -TTATGTGTGAACTTT---T---AACATT-T-TTCA-GT-TAGGCATGTAT-TAGT-AAC-TTGA
* ** * * * * * * *
524784 ATATT-TTCAGTTAGGCATGTATTAGTAACTTGAGTT-TGAACATTGCTATGATAAGTTCAGTT-
601 GT-TTGAACA-TT--GC---TATGA-TAAGTTCAGTTGTTATCA---CT-T-ATTAG-ACA-TTC
* * * **
524846 GTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGAAATTGACTATCGCAACGCGGAAAT
651 ATT-TGAC-TA-TCG-CA---A--TG-C-GG----------AATTGACTATCGCAACGCGGAAAT
* *
524911 GACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAA
695 GACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAA
* * ** ** * *** *
524976 ATGAAAATCGCAACGAGAGA--A---TCGCAATGCGA-AATGAAAATCGCAATGCGA---A--
760 ATGAAAATCGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* ** * * ** ** * ** ** **
525028 --AT--GA-----AAATCGCAATGCTAA-ATGAAAATCGCAA---CGAGTATGAAAATCGCAACG
1 CGTTGCGATTTTCATTTCGCATTGC-AATTTTCATTTCG-AATTGCGA-TTTTCATTTCGCATTG
*
525080 CGA-----A--TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAAT
63 CGATTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAAT
* *
525138 CCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTG
128 CTCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTG
525203 TATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAG
193 TATTATGTGTATATTATGTGTGAACTTTTAACA-TTTTCAGTTAGGCATGTATTAGTAACTTGAG
525268 TTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAAT
257 TTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAAT
*
525333 GCGGAATTAACTATCGCAACGTGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAA
322 GCGGAATTAACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAA
525398 ATCGCAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATC-TTTCCTCTACC-AA
387 ATCGCAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATCTTTTCCTCTACCAAA
525461 ATATGGATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTG
452 ATATGGATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTG
525526 ATTTTTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAG
517 ATTTTTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAG
525591 GCATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGAC
582 GCATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGAC
*
525656 ATTCATTTGACGATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAG
647 ATTCATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAG
*
525721 AATCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGCG
712 AATCGCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGCG
525786 AAATTAGTTTCGCGTTGCGATTTTCA--TT----TT-CG---CA--
777 AAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
525820 --TT--G----------CG-ATT-C-A----C---TCG--TTGCGATTTTCATTTCGCATTGCGA
1 CGTTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGCGA
525859 TTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTC
66 TTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTC
* *
525924 AATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTGGGTGATTTTCAAATGCAAATGTTGTAT
131 AATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTAT
525989 TATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTG
196 TATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTG
*
526054 AACATTGCTATGATAAGTTCAGTTGTTATCCCTTATTAGACATTCATTTGACTATCGCAATGCGG
261 AACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGG
*
526119 AATTAACTATCACAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCG
326 AATTAACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCG
526184 CAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATAT
391 CAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATAT
*
526249 GTATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTT
456 GGATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTT
526314 TTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCAT
521 TTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCAT
526379 GTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTC
586 GTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTC
* *
526444 ATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCAGAAAAGACTATCGCAACGAGAGAATC
651 ATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATC
526509 GCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGCGAAAT
716 GCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGCGAAAT
526574 TAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
781 TAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
526616 CGTTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGCGA
1 CGTTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGCGA
526681 TTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTC
66 TTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTC
*
526746 AATCACAACCGGCTTCACCTTTTGGGACTGTTAACATAGGTGATTTTTAAATGCAAATGTTGTAT
131 AATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTAT
526811 TATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTG
196 TATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTG
526876 AACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGG
261 AACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGG
* *
526941 AATTAACTATCGCAACGTGGAAATGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCG
326 AATTAACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCG
527006 CAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATAT
391 CAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATAT
527071 GGATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTT
456 GGATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTT
527136 TTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCAT
521 TTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCAT
527201 GTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTC
586 GTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTC
*
527266 ATTTGACTATCGCAATGCGGAATTGACTATCGCAACACGGAAATGACTATCGCAACGAGAGAATC
651 ATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATC
527331 GCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGCGAAAT
716 GCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGCGAAAT
527396 TAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
781 TAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* * **** * * *** * *
527438 CGTTGCGATTTTCATTTCGCATTACGATTTTCATCTTTTCCTCTACCAAAAT-ATGGATCCTCA-
1 CGTTGCGATTTTCATTTCGCATTGCAATTTTCAT-TTCGAAT-TGCGATTTTCAT---TTCGCAT
* * * * * ** ** * *** *** ** *
527501 T-CAAAATCTCA-ATCACA-ACCG-GCTTCACCTTTTGGGACTGTTAACTTAGGTGAT--T--T-
61 TGC-GATTTTCATTTCGCATTGCGATTTTCATCTTTT-CCTCTACCAAAATATG-GATCCTCATC
* * * * *
527557 ----T-TAAATGCA-AA--TG-TT---GTATT---A-TGTGTATA-TTATGTGTGAACTTTTAAC
123 AAAATCTCAAT-CACAACCGGCTTCACCTTTTGGGACTGT-TA-ACTTA-G-GTG-ATTTTTAA-
**** * * * * **
527605 ATTTTCA-GTTAGGCATGTAT-TAGTA-ACTTGA-GTTTGAACATTGCTATGATAAGTTCAGTT-
181 ATGCAAATGTT--GTAT-TATGT-GTATA-TT-ATGTGTGAAC-TT--T-TAACATTTTCAGTTA
** * * * * * * * *
527665 GTTAT-CACTTATTAGACATTCA-TTTG-ACTATCGCAATGCGGAATTAACTATCGCAACGTGGA
236 GGCATGTA-TTAGTA-AC-TTGAGTTTGAAC-ATTGCTAT---G-A-TAAGT-T--C-A-GTTGT
* * * * ** * * * * *
527727 AATGAC-TA-TCG-CA-ACGA---GAGAATCGCAATGCGAAATGAA-AATCGCAACG-AG-TATG
287 TATCACTTATTAGACATTC-ATTTGACTATCGCAATGCGGAATTAACTATCGCAACGCGGAAATG
** * * * * *** * * * * *
527782 AAAATCGCAAC--GCGAATCGCATTGC-AATTTTCATCTTTTCCTCTACCAAAATATG--GATCC
351 ACTATCGCAACGAGAGAATCGCAATGCGAA--ATGA--AAAT-CGC-AAC-GAGTATGAAAAT-C
* * ** * ** ** * *** *** ** * *
527842 TCATC-AAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGAT--T--TT
408 GCAACGCGAATCGC-ATTGCAA---TTTTCATCTTTT-CCTCTACCAAAATATG-GATCCTCATC
* * *** ** ** * *** ***** * * *
527902 TAAAT-GCAA--AC-GTTGTATT-ATGTGTATATTA-TGTGTGAACTTTTAACATTTTTCAGT-T
467 AAAATCCCAATCACAACCGGCTTCACCT-TTTGGGACTGT-T-AACTTAGGTGATTTTTAAATGC
** * * * ** ** ** *
527960 AGGC-ATGTATTA---GTA-ACTTGA-GTTTGAACATTGCTATGATAAGTTCAGTT-GTTAT-CA
529 AAACGTTGTATTATGTGTATA-TT-ATGTGTGAAC-TT-TTAACAT-TTTTCAGTTAGGCATGTA
* * * * ** ** *
528017 CTTATTAGACATTCA-TTTG-ACTATCGCAATGCGGAA-TT--G--ACTATCGC--A--ACG-C-
589 -TTAGTA-AC-TTGAGTTTGAAC-ATTGCTATG-ATAAGTTCAGTTGTTATCACTTATTA-GACA
** ** * * * * ** *
528069 -GGAAATGACTATCGCAACGAGAGAATCG-CAAT-GC------GAAATGAAAATCGCAACGAGTG
648 TTCATTTGACTATCGCAATGCG-GAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAG
528125 AATCG---T----AATG-----CG--A--A---AAT--------GAAAAT----A--GCAACGCG
712 AATCGCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGCG
528157 AAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
777 AAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
528203 CGTTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGCGA
1 CGTTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGCGA
528268 TTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTC
66 TTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTC
528333 AATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTAT
131 AATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTAT
528398 TATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTG
196 TATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTG
*
528463 AACATTGCTATGATAAGTTCAGTTGTTATCCCTTATTAGACATTCATTTGACTATCGCAATGCGG
261 AACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGG
*
528528 AATTAACTATCACAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCG
326 AATTAACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCG
528593 CAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATAT
391 CAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATAT
*
528658 GAATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTT
456 GGATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTT
*
528723 TTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTATCAGTTAGGCAT
521 TTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCAT
528788 GTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTC
586 GTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTC
*
528853 ATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCGGAAAGGACTATCGCAACGAGAGAATC
651 ATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATC
*
528918 GCAATGCAAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAAAATCGCAACGCGAAAT
716 GCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGCGAAAT
528983 TAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
781 TAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
529025 CGTTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGCGA
1 CGTTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGCGA
529090 TTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTC
66 TTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTC
529155 AATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTAT
131 AATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTAT
529220 TATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTG
196 TATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTG
529285 AACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGG
261 AACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGG
* *
529350 AATTAACTATCGCAACGTGGAAATGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCG
326 AATTAACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCG
529415 CAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATAT
391 CAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATAT
529480 GGATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTT
456 GGATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTT
529545 TTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCAT
521 TTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCAT
529610 GTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTC
586 GTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTC
529675 ATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATC
651 ATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATC
* * *
529740 GCAATGCGAAATGAAAATTGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGTGAAAT
716 GCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGCGAAAT
529805 TAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
781 TAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
529847 CGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA
1 CGTTGCGATTTTCA--T----TT-CG-----CA-TT-GCA-----ATTTTCATTTCGAATTGCGA
529912 TTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATAT
47 TTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATAT
529977 GGATCCTCATCAAAATCTCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTT
112 GGATCCTCATCAAAATCTCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTT
530042 TTAAATGCAAATGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATG
177 TTAAATGCAAATGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATG
*
530107 TATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCCCTTATTAGACATTCA
242 TATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCA
*
530172 TTTGACTATCGCAATGCGGAATTAACTATCACAACGCGGAAATGACTATCGCAACGAGAGAATCG
307 TTTGACTATCGCAATGCGGAATTAACTATCGCAACGCGGAAATGACTATCG---C-----AA-CG
530237 CAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGTATGAAAATCGCAACGCGAA
363 --A---G--A-G--AATCGCAATGCGAAATGAAAATCGCAACGAGTATGAAAATCGCAACGCGAA
* *
530302 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGAATCCTCATCAAAATCCTAATCACAA
418 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
530367 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
483 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
530432 TATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
548 TATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
530497 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGAC
613 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGAC
*
530562 TATCGCAACGCGGAAAGGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAG
678 TATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAG
530627 TGAATCGTAATGCGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTC
743 TGAATCGTAATGCGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTC
530692 GCATTGCGATTCACTCGTTGCGATTTTCATTT
808 GCATTGCG----A----TT-C-A----C---T
530724 CGCATTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGC
1 CG--TTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGC
530789 GATTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATC
64 GATTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATC
530854 TCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGT
129 TCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGT
530919 ATTATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTT
194 ATTATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTT
530984 TGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGC
259 TGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGC
531049 GGAATTAACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAAT
324 GGAATTAACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAAT
531114 CGCAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATCTTTTCCTCTACCAAAAT
389 CGCAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATCTTTTCCTCTACCAAAAT
531179 ATGGATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGAT
454 ATGGATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGAT
*
531244 TTTTAAATGTAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAGGC
519 TTTTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAGGC
531309 ATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACAT
584 ATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACAT
531374 TCATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAA
649 TCATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAA
*
531439 TCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGCGAA
714 TCGCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGCGAA
531504 ATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
779 ATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
531548 CGTTGCGATTTTCATTTCGCATTGCGTTTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA
1 CGTTGCGATTTTCA--T----TT-CG-----CA-TT-GCA-----ATTTTCA--T----TT-CG-
531613 TTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATC
39 -----A------ATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATC
531678 TTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTCAATCACAACCGGCTTCACCTTTTGGGA
93 TTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTCAATCACAACCGGCTTCACCTTTTGGGA
*
531743 CTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTA
158 CTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTATTATGTGTATATTATGTGTGAACTTTTA
531808 ACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGT
223 ACA-TTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGT
* *
531873 TATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGACTATCGCAACACGGAAATGA
287 TATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACTATCGCAACGCGGAAATGA
*
531938 CTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGT
352 CTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGT
531985 GAATCGTAAT
Statistics
Matches: 6815, Mismatches: 546, Indels: 929
0.82 0.07 0.11
Matches are distributed among these distances:
761 4 0.00
762 12 0.00
763 17 0.00
764 24 0.00
765 109 0.02
766 2 0.00
767 16 0.00
768 33 0.00
769 18 0.00
770 17 0.00
771 35 0.01
772 60 0.01
773 43 0.01
774 8 0.00
775 16 0.00
776 35 0.01
777 11 0.00
778 4 0.00
779 17 0.00
780 5 0.00
781 8 0.00
782 233 0.03
783 164 0.02
784 349 0.05
785 1 0.00
786 6 0.00
787 2 0.00
789 23 0.00
790 2 0.00
791 6 0.00
792 6 0.00
793 107 0.02
794 2 0.00
795 2 0.00
796 4 0.00
797 1 0.00
798 35 0.01
799 2 0.00
800 1 0.00
801 2 0.00
803 1 0.00
804 6 0.00
805 26 0.00
806 7 0.00
807 6 0.00
808 17 0.00
809 4 0.00
810 9 0.00
811 28 0.00
812 18 0.00
813 14 0.00
814 47 0.01
815 65 0.01
816 36 0.01
817 20 0.00
818 19 0.00
819 42 0.01
820 27 0.00
821 2 0.00
822 1717 0.25
823 26 0.00
824 23 0.00
825 19 0.00
826 14 0.00
827 9 0.00
828 15 0.00
829 4 0.00
831 2 0.00
832 4 0.00
833 7 0.00
834 12 0.00
835 5 0.00
836 10 0.00
837 27 0.00
838 27 0.00
839 7 0.00
840 7 0.00
841 817 0.12
842 3 0.00
843 8 0.00
844 6 0.00
845 6 0.00
846 2 0.00
847 2 0.00
848 8 0.00
849 7 0.00
850 7 0.00
851 7 0.00
852 13 0.00
853 149 0.02
854 175 0.03
855 46 0.01
856 29 0.00
857 10 0.00
858 20 0.00
859 12 0.00
860 1283 0.19
861 187 0.03
862 5 0.00
864 1 0.00
865 14 0.00
866 12 0.00
867 12 0.00
868 9 0.00
869 1 0.00
870 3 0.00
872 2 0.00
873 10 0.00
874 10 0.00
876 2 0.00
877 5 0.00
878 4 0.00
879 16 0.00
880 5 0.00
881 3 0.00
882 2 0.00
883 2 0.00
886 1 0.00
888 2 0.00
889 1 0.00
890 1 0.00
894 11 0.00
895 9 0.00
898 1 0.00
900 103 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (822 bp):
CGTTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGAATTGCGATTTTCATTTCGCATTGCGA
TTTTCATTTCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTC
AATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTAT
TATGTGTATATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTG
AACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGG
AATTAACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCG
CAACGAGTATGAAAATCGCAACGCGAATCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATAT
GGATCCTCATCAAAATCCCAATCACAACCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTT
TTAAATGCAAACGTTGTATTATGTGTATATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCAT
GTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTTCAGTTGTTATCACTTATTAGACATTC
ATTTGACTATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGAATC
GCAATGCAAAATGAAAATCGCAACGAGTGAATCGTAATGCGAAAATGAAAATCGCAACGCGAAAT
TAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:526951 original size:20 final size:20
Alignment explanation
Indices: 526926--526977 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
526916 CATTCATTTG
* *
526926 ACTATCGCAATGCGGAATTA
1 ACTATCGCAACGCGGAAATA
* *
526946 ACTATCGCAACGTGGAAATG
1 ACTATCGCAACGCGGAAATA
526966 ACTATCGCAACG
1 ACTATCGCAACG
526978 AGAGAATCGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
ACTATCGCAACGCGGAAATA
Found at i:527004 original size:19 final size:18
Alignment explanation
Indices: 526982--527028 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
526972 GCAACGAGAG
*
526982 AATCGCAATGCAAAATGAA
1 AATCGCAACG-AAAATGAA
**
527001 AATCGCAACGAGTATGAA
1 AATCGCAACGAAAATGAA
527019 AATCGCAACG
1 AATCGCAACG
527029 CGAATCGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.15
Consensus pattern (18 bp):
AATCGCAACGAAAATGAA
Found at i:527293 original size:20 final size:20
Alignment explanation
Indices: 527268--527321 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
527258 AGACATTCAT
**
527268 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAACACGGAA
527288 TTGACTATCGCAACACGGAA
1 TTGACTATCGCAACACGGAA
*
527308 ATGACTATCGCAAC
1 TTGACTATCGCAAC
527322 GAGAGAATCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (20 bp):
TTGACTATCGCAACACGGAA
Found at i:527340 original size:345 final size:344
Alignment explanation
Indices: 526689--527358 Score: 1268
Period size: 345 Copynumber: 1.9 Consensus size: 344
526679 GATTTTCATT
* *
526689 TCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTCAATCACAA
1 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
*
526754 CCGGCTTCACCTTTTGGGACTGTTAACATAGGTGATTTTTAAATGCAAATGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACATAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
526819 TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
131 TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
526884 TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
196 TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
**
526949 ATCGCAACGTGGAAATGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGT
261 ATCGCAACACGGAAATGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGT
527014 ATGAAAATCGCAACGCGAA
326 ATGAAAATCGCAACGCGAA
527033 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
1 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
*
527098 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACATAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
527163 TATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
131 TATTATGTGTGAACTTTTAACA-TTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
*
527228 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGAC
195 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAAC
527293 TATCGCAACACGGAAATGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAG
260 TATCGCAACACGGAAATGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAG
527358 T
325 T
527359 GAATCGTAAT
Statistics
Matches: 318, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
344 148 0.47
345 170 0.53
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (344 bp):
TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
CCGGCTTCACCTTTTGGGACTGTTAACATAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
ATCGCAACACGGAAATGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGT
ATGAAAATCGCAACGCGAA
Found at i:527351 original size:33 final size:34
Alignment explanation
Indices: 527314--527389 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
527304 GGAAATGACT
527314 ATCGCAACGAGAGAATCGCAATGC-AAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
* *
527347 ATCGCAACGAGTGAATCGTAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
527381 ATCGCAACG
1 ATCGCAACG
527390 CGAAATTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 22 0.55
34 18 0.45
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
Found at i:527716 original size:20 final size:20
Alignment explanation
Indices: 527691--527742 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
527681 CATTCATTTG
* *
527691 ACTATCGCAATGCGGAATTA
1 ACTATCGCAACGCGGAAATA
* *
527711 ACTATCGCAACGTGGAAATG
1 ACTATCGCAACGCGGAAATA
527731 ACTATCGCAACG
1 ACTATCGCAACG
527743 AGAGAATCGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
ACTATCGCAACGCGGAAATA
Found at i:528058 original size:20 final size:20
Alignment explanation
Indices: 528033--528087 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
528023 AGACATTCAT
*
528033 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAACGCGGAA
528053 TTGACTATCGCAACGCGGAA
1 TTGACTATCGCAACGCGGAA
*
528073 ATGACTATCGCAACG
1 TTGACTATCGCAACG
528088 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (20 bp):
TTGACTATCGCAACGCGGAA
Found at i:528103 original size:345 final size:344
Alignment explanation
Indices: 527454--528123 Score: 1277
Period size: 345 Copynumber: 1.9 Consensus size: 344
527444 GATTTTCATT
* *
527454 TCGCATTACGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTCAATCACAA
1 TCGCATTACAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
*
527519 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
527584 TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
131 TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
527649 TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
196 TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
*
527714 ATCGCAACGTGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGT
261 ATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGT
527779 ATGAAAATCGCAACGCGAA
326 ATGAAAATCGCAACGCGAA
*
527798 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
1 TCGCATTACAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
527863 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
527928 TATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
131 TATTATGTGTGAACTTTTAACA-TTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
*
527993 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGAC
195 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAAC
528058 TATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAG
260 TATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAG
528123 T
325 T
528124 GAATCGTAAT
Statistics
Matches: 319, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
344 148 0.46
345 171 0.54
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (344 bp):
TCGCATTACAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
ATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGT
ATGAAAATCGCAACGCGAA
Found at i:528147 original size:34 final size:33
Alignment explanation
Indices: 528059--528154 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 33
528049 GGAATTGACT
* **
528059 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
528093 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
528126 ATCGTAATGCGAAAATGAAAATAGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
528155 CGAAATTAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:528232 original size:19 final size:19
Alignment explanation
Indices: 528164--528293 Score: 180
Period size: 19 Copynumber: 7.1 Consensus size: 19
528154 GCGAAATTAG
*
528164 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
528183 TTTTCGCATTGCGA--TTCA
1 -TTTCGCATTGCGATTTTCA
*
528201 -CTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
*
528217 TTTCGCATTGCAATTTTCA
1 TTTCGCATTGCGATTTTCA
*
528236 TTTCGAATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
528255 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
528274 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
528293 T
1 T
528294 CTTTTCCTCT
Statistics
Matches: 98, Mismatches: 7, Indels: 11
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.06
16 7 0.07
17 3 0.03
18 4 0.04
19 66 0.67
20 12 0.12
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:528538 original size:20 final size:20
Alignment explanation
Indices: 528513--528564 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
528503 CATTCATTTG
* *
528513 ACTATCGCAATGCGGAATTA
1 ACTATCGCAACGCGGAAATA
* *
528533 ACTATCACAACGCGGAAATG
1 ACTATCGCAACGCGGAAATA
528553 ACTATCGCAACG
1 ACTATCGCAACG
528565 AGAGAATCGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
ACTATCGCAACGCGGAAATA
Found at i:528880 original size:20 final size:20
Alignment explanation
Indices: 528855--528909 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
528845 AGACATTCAT
*
528855 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAACGCGGAA
528875 TTGACTATCGCAACGCGGAA
1 TTGACTATCGCAACGCGGAA
**
528895 AGGACTATCGCAACG
1 TTGACTATCGCAACG
528910 AGAGAATCGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (20 bp):
TTGACTATCGCAACGCGGAA
Found at i:528937 original size:345 final size:344
Alignment explanation
Indices: 528276--528945 Score: 1250
Period size: 345 Copynumber: 1.9 Consensus size: 344
528266 GATTTTCATT
* * *
528276 TCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTCAATCACAA
1 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGAATCCTCATCAAAATCCCAATCACAA
*
528341 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
528406 TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
131 TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
*
528471 TATGATAAGTTCAGTTGTTATCCCTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
196 TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
* *
528536 ATCACAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGT
261 ATCACAACGCGGAAAGGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGT
528601 ATGAAAATCGCAACGCGAA
326 ATGAAAATCGCAACGCGAA
528620 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGAATCCTCATCAAAATCCCAATCACAA
1 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGAATCCTCATCAAAATCCCAATCACAA
528685 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
528750 TATTATGTGTGAACTTTTAACATTTATCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
131 TATTATGTGTGAACTTTTAACATTT-TCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
*
528815 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGAC
195 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAAC
*
528880 TATCGCAACGCGGAAAGGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAG
260 TATCACAACGCGGAAAGGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAG
528945 T
325 T
528946 GAATCGCAAT
Statistics
Matches: 316, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
344 151 0.48
345 165 0.52
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (344 bp):
TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGAATCCTCATCAAAATCCCAATCACAA
CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
ATCACAACGCGGAAAGGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGT
ATGAAAATCGCAACGCGAA
Found at i:528940 original size:33 final size:34
Alignment explanation
Indices: 528901--528976 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 34
528891 GGAAAGGACT
528901 ATCGCAACGAGAGAATCGCAATGC-AAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
*
528934 ATCGCAACGAGTGAATCGCAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
528968 ATCGCAACG
1 ATCGCAACG
528977 CGAAATTAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 23 0.56
34 18 0.44
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
Found at i:528972 original size:20 final size:20
Alignment explanation
Indices: 528914--528981 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
528904 GCAACGAGAG
528914 AATCGCAATGC-AAAATGAA
1 AATCGCAATGCGAAAATGAA
*
528933 AATCGCAA--CG--AGTG--
1 AATCGCAATGCGAAAATGAA
528947 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCGAAAATGAA
*
528967 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
528982 TTAGTTTCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
14 8 0.21
16 5 0.13
17 1 0.03
18 3 0.08
19 8 0.21
20 14 0.36
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (20 bp):
AATCGCAATGCGAAAATGAA
Found at i:529054 original size:19 final size:19
Alignment explanation
Indices: 528986--529115 Score: 180
Period size: 19 Copynumber: 7.1 Consensus size: 19
528976 GCGAAATTAG
*
528986 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
529005 TTTTCGCATTGCGA--TTCA
1 -TTTCGCATTGCGATTTTCA
*
529023 -CTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
*
529039 TTTCGCATTGCAATTTTCA
1 TTTCGCATTGCGATTTTCA
*
529058 TTTCGAATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
529077 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
529096 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
529115 T
1 T
529116 CTTTTCCTCT
Statistics
Matches: 98, Mismatches: 7, Indels: 11
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.06
16 7 0.07
17 3 0.03
18 4 0.04
19 66 0.67
20 12 0.12
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:529360 original size:20 final size:20
Alignment explanation
Indices: 529335--529386 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
529325 CATTCATTTG
* *
529335 ACTATCGCAATGCGGAATTA
1 ACTATCGCAACGCGGAAATA
* *
529355 ACTATCGCAACGTGGAAATG
1 ACTATCGCAACGCGGAAATA
529375 ACTATCGCAACG
1 ACTATCGCAACG
529387 AGAGAATCGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
ACTATCGCAACGCGGAAATA
Found at i:529413 original size:19 final size:18
Alignment explanation
Indices: 529391--529437 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
529381 GCAACGAGAG
*
529391 AATCGCAATGCAAAATGAA
1 AATCGCAACG-AAAATGAA
**
529410 AATCGCAACGAGTATGAA
1 AATCGCAACGAAAATGAA
529428 AATCGCAACG
1 AATCGCAACG
529438 CGAATCGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.15
Consensus pattern (18 bp):
AATCGCAACGAAAATGAA
Found at i:529702 original size:20 final size:20
Alignment explanation
Indices: 529677--529731 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
529667 AGACATTCAT
*
529677 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAACGCGGAA
529697 TTGACTATCGCAACGCGGAA
1 TTGACTATCGCAACGCGGAA
*
529717 ATGACTATCGCAACG
1 TTGACTATCGCAACG
529732 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (20 bp):
TTGACTATCGCAACGCGGAA
Found at i:529754 original size:345 final size:344
Alignment explanation
Indices: 529098--529767 Score: 1268
Period size: 345 Copynumber: 1.9 Consensus size: 344
529088 GATTTTCATT
* *
529098 TCGCATTGCGATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCTCAATCACAA
1 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
*
529163 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAATGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
529228 TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
131 TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
529293 TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
196 TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
*
529358 ATCGCAACGTGGAAATGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGT
261 ATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGT
529423 ATGAAAATCGCAACGCGAA
326 ATGAAAATCGCAACGCGAA
529442 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
1 TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
529507 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
66 CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
529572 TATTATGTGTGAACTTTTAACATTTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
131 TATTATGTGTGAACTTTTAACA-TTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTG
*
529637 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTGAC
195 CTATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAAC
* *
529702 TATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTGCAACGAG
260 TATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAG
529767 T
325 T
529768 GAATCGTAAT
Statistics
Matches: 318, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
344 149 0.47
345 169 0.53
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (344 bp):
TCGCATTGCAATTTTCATCTTTTCCTCTACCAAAATATGGATCCTCATCAAAATCCCAATCACAA
CCGGCTTCACCTTTTGGGACTGTTAACTTAGGTGATTTTTAAATGCAAACGTTGTATTATGTGTA
TATTATGTGTGAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGC
TATGATAAGTTCAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAATGCGGAATTAACT
ATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGAGT
ATGAAAATCGCAACGCGAA
Found at i:529791 original size:34 final size:33
Alignment explanation
Indices: 529703--529798 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 33
529693 GGAATTGACT
* **
529703 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
* *
529737 ATCGCAATGCGAAATGAAAATTGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
529770 ATCGTAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
529799 TGAAATTAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 29 0.54
34 25 0.46
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:529873 original size:19 final size:19
Alignment explanation
Indices: 529808--529956 Score: 236
Period size: 19 Copynumber: 8.1 Consensus size: 19
529798 GTGAAATTAG
*
529808 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
529827 TTTTCGCATTGCGA--TTCA
1 -TTTCGCATTGCGATTTTCA
*
529845 -CTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
529861 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
529880 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
529899 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
529918 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
529937 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
529956 T
1 T
529957 CTTTTCCTCT
Statistics
Matches: 121, Mismatches: 3, Indels: 11
0.90 0.02 0.08
Matches are distributed among these distances:
14 6 0.05
16 7 0.06
17 3 0.02
18 4 0.03
19 89 0.74
20 12 0.10
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:530201 original size:20 final size:20
Alignment explanation
Indices: 530176--530227 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
530166 CATTCATTTG
* *
530176 ACTATCGCAATGCGGAATTA
1 ACTATCGCAACGCGGAAATA
* *
530196 ACTATCACAACGCGGAAATG
1 ACTATCGCAACGCGGAAATA
530216 ACTATCGCAACG
1 ACTATCGCAACG
530228 AGAGAATCGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
ACTATCGCAACGCGGAAATA
Found at i:530256 original size:19 final size:19
Alignment explanation
Indices: 530232--530301 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
530222 GCAACGAGAG
530232 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
530251 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
530270 AATCGCAA--CGAGTATGAA
1 AATCGCAATGCGA-AATGAA
*
530288 AATCGCAACGCGAA
1 AATCGCAATGCGAA
530302 TCGCATTGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.07
18 13 0.28
19 27 0.59
20 3 0.07
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:530562 original size:20 final size:20
Alignment explanation
Indices: 530537--530591 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
530527 AGACATTCAT
*
530537 TTGACTATCGCAATGCGGAA
1 TTGACTATCGCAACGCGGAA
530557 TTGACTATCGCAACGCGGAA
1 TTGACTATCGCAACGCGGAA
**
530577 AGGACTATCGCAACG
1 TTGACTATCGCAACG
530592 AGAGAATCGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (20 bp):
TTGACTATCGCAACGCGGAA
Found at i:530622 original size:33 final size:34
Alignment explanation
Indices: 530583--530658 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
530573 GGAAAGGACT
530583 ATCGCAACGAGAGAATCGCAATGC-AAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
* *
530616 ATCGCAACGAGTGAATCGTAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
530650 ATCGCAACG
1 ATCGCAACG
530659 CGAAATTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 22 0.55
34 18 0.45
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
Done.