Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001793.1 Hibiscus syriacus cultivar Beakdansim tig00003621_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: 110115
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3125 original size:2 final size:2
Alignment explanation
Indices: 3118--3413 Score: 214
Period size: 2 Copynumber: 157.5 Consensus size: 2
3108 ATTATAAGAA
* *
3118 AT AT AT AT AT AT A- AT GT AT AT AT A- AT AA AT AT AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
3156 AT AT AA AT A- AT -T AT TT ACT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* *
3196 A- AT AT AT AT AT A- AT AT AA AA AT AT AT AT AT A- 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
* * *
3235 A- AT AT ACT AT A- AT AT AT A- AA AT ACT AT AA AT A- AT AA AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
*
3275 AT ACT AT AT AT AT AA AT A- AT AT AT A- AT AT AT A- AT AT AT ACT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
3316 AT AT A- AT AT A- AT A- AT AT -T AT AT AT AT -T AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
3352 -T AT AT A- AT AT AT A- AT AT AT ACT AT AA AT AT AT ACC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT
*
3393 AT GAC AT AT AT A- AT AT AT AT A
1 AT -AT AT AT AT AT AT AT AT AT A
3414 ACAGAAACCC
Statistics
Matches: 236, Mismatches: 23, Indels: 70
0.72 0.07 0.21
Matches are distributed among these distances:
1 27 0.11
2 195 0.83
3 14 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (2 bp):
AT
Found at i:3137 original size:11 final size:11
Alignment explanation
Indices: 3120--3394 Score: 233
Period size: 11 Copynumber: 25.7 Consensus size: 11
3110 TATAAGAAAT
3120 ATATATATATA
1 ATATATATATA
*
3131 ATGTATATATA
1 ATATATATATA
*
3142 ATAAATATATA
1 ATATATATATA
3153 ATA-ATATA-A
1 ATATATATATA
*
3162 ATA-ATTATTTA
1 ATATA-TATATA
*
3173 CTATAATATATA
1 ATAT-ATATATA
3185 TATATATATATA
1 -ATATATATATA
3197 ATATATATATA
1 ATATATATATA
3208 ATATA-A-A-A
1 ATATATATATA
3216 ATATATATAT-
1 ATATATATATA
3226 A-ATATATATA
1 ATATATATATA
*
3236 ATATA-CTATA
1 ATATATATATA
3246 ATATATA-A-A
1 ATATATATATA
*
3255 ATACTATAAATA
1 ATA-TATATATA
*
3267 ATAAATATATA
1 ATATATATATA
*
3278 CTATATATATA
1 ATATATATATA
3289 A-ATAATATATA
1 ATAT-ATATATA
3300 ATATATA-AT-
1 ATATATATATA
3309 ATATACTATATA
1 ATATA-TATATA
3321 ATATA-ATAATA
1 ATATATAT-ATA
* *
3332 TTATATATATT
1 ATATATATATA
*
3343 ATATA-ATATT
1 ATATATATATA
3353 ATATAATATATA
1 ATAT-ATATATA
3365 ATATATACTATA
1 ATATATA-TATA
**
3377 A-ATATATACC
1 ATATATATATA
3387 ATATATAT
1 ATATATAT
3395 GACATATATA
Statistics
Matches: 219, Mismatches: 20, Indels: 50
0.76 0.07 0.17
Matches are distributed among these distances:
8 6 0.03
9 24 0.11
10 46 0.21
11 101 0.46
12 38 0.17
13 4 0.02
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (11 bp):
ATATATATATA
Found at i:3155 original size:7 final size:7
Alignment explanation
Indices: 3117--3411 Score: 207
Period size: 7 Copynumber: 43.1 Consensus size: 7
3107 TATTATAAGA
3117 AATATAT
1 AATATAT
3124 -ATATAT
1 AATATAT
*
3130 AATGTAT
1 AATATAT
3137 -ATATAAT
1 AATAT-AT
3144 AAATATAT
1 -AATATAT
3152 AATA-AT
1 AATATAT
*
3158 -ATAAAT
1 AATATAT
3164 AAT-TAT
1 AATATAT
*
3170 -TTACTAT
1 AATA-TAT
3177 AATATAT
1 AATATAT
3184 -ATATAT
1 AATATAT
3190 -ATATAT
1 AATATAT
3196 AATATAT
1 AATATAT
3203 ATATAATAT
1 A-AT-ATAT
*
3212 AA-AAAT
1 AATATAT
3218 ATATATAT
1 A-ATATAT
3226 AATATAT
1 AATATAT
3233 -ATA-AT
1 AATATAT
3238 -ATACTAT
1 AATA-TAT
3245 AATATAT
1 AATATAT
3252 AA-A-AT
1 AATATAT
*
3257 ACTATA-
1 AATATAT
3263 AATA-AT
1 AATATAT
3269 AAATATAT
1 -AATATAT
*
3277 ACTATAT
1 AATATAT
*
3284 ATATAAAT
1 A-ATATAT
3292 AATATAT
1 AATATAT
3299 AATATAT
1 AATATAT
3306 AATATAT
1 AATATAT
*
3313 ACTATAT
1 AATATAT
3320 AATATAAT
1 AATAT-AT
3328 AATAT-T
1 AATATAT
3334 ATATATAT
1 A-ATATAT
*
3342 TATATAAT
1 AATAT-AT
*
3350 ATTATAT
1 AATATAT
3357 AATATAT
1 AATATAT
3364 AATATAT
1 AATATAT
*
3371 ACTATA-
1 AATATAT
3377 AATATAT
1 AATATAT
**
3384 ACCATAT
1 AATATAT
3391 -ATATGA-
1 AATAT-AT
*
3397 CATATAT
1 AATATAT
3404 AATATAT
1 AATATAT
3411 A
1 A
3412 TAACAGAAAC
Statistics
Matches: 231, Mismatches: 26, Indels: 62
0.72 0.08 0.19
Matches are distributed among these distances:
5 13 0.06
6 49 0.21
7 126 0.55
8 34 0.15
9 9 0.04
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:11710 original size:23 final size:23
Alignment explanation
Indices: 11674--11728 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
11664 GAACATATAT
*
11674 GTGGTCCTTTGGGATAATTCTAC
1 GTGGTCCTTTGGGACAATTCTAC
*
11697 GTGGT-CTTTCGGGACATTTCTAC
1 GTGGTCCTTT-GGGACAATTCTAC
*
11720 GTTGTCCTT
1 GTGGTCCTT
11729 CAGGAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 20 0.74
24 3 0.11
ACGTcount: A:0.13, C:0.20, G:0.25, T:0.42
Consensus pattern (23 bp):
GTGGTCCTTTGGGACAATTCTAC
Found at i:14705 original size:17 final size:17
Alignment explanation
Indices: 14683--14721 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
14673 AAAGCAAATA
14683 TAGGTGATGATTTGGGT
1 TAGGTGATGATTTGGGT
*
14700 TAGGTGATGATTTTGGT
1 TAGGTGATGATTTGGGT
14717 TAGGT
1 TAGGT
14722 ATCGATACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (17 bp):
TAGGTGATGATTTGGGT
Found at i:15628 original size:21 final size:21
Alignment explanation
Indices: 15594--15652 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
15584 GTTTCTACGC
* * *
15594 GGTCCTTTGAGACATATATGT
1 GGTCCTTCGGGACATATAGGT
*
15615 GGTCCTTCGGGACAATTCTAGGT
1 GGTCCTTCGGGAC-A-TATAGGT
15638 GGTCCTTCGGGACAT
1 GGTCCTTCGGGACAT
15653 TTCTACGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 12 0.38
22 2 0.06
23 18 0.56
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (21 bp):
GGTCCTTCGGGACATATAGGT
Found at i:15642 original size:23 final size:23
Alignment explanation
Indices: 15613--15692 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
15603 AGACATATAT
*
15613 GTGGTCCTTCGGGACAATTCTAG
1 GTGGTCCTTCGGGACAATTCTAC
*
15636 GTGGTCCTTCGGGACATTTCTAC
1 GTGGTCCTTCGGGACAATTCTAC
* * *
15659 GTAGTCATTCGGGAC-ATTCTAT
1 GTGGTCCTTCGGGACAATTCTAC
*
15681 GTGGTACTTCGG
1 GTGGTCCTTCGG
15693 TGCAATTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
22 14 0.29
23 34 0.71
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (23 bp):
GTGGTCCTTCGGGACAATTCTAC
Found at i:20651 original size:21 final size:21
Alignment explanation
Indices: 20627--20819 Score: 92
Period size: 21 Copynumber: 9.4 Consensus size: 21
20617 TGCATTTCGG
*
20627 GTTGCGATAGTTGAAAATCGC
1 GTTGCGATAGTTCAAAATCGC
* * **
20648 GTTGCGAT-TTTCCATTTCGC
1 GTTGCGATAGTTCAAAATCGC
*
20668 GTTGCGATAGTTGAAAATCGC
1 GTTGCGATAGTTCAAAATCGC
* * * **
20689 TTTGCGAT-TTTCCATTTCGC
1 GTTGCGATAGTTCAAAATCGC
* * *
20709 GTTGCGATAG-TCTACAGTAGC
1 GTTGCGATAGTTC-AAAATCGC
* * ** *
20730 GTTGCGAT-TTTCCATTTGGC
1 GTTGCGATAGTTCAAAATCGC
*
20750 GTTGCGATAGTTGAAAATCGC
1 GTTGCGATAGTTCAAAATCGC
* * **
20771 GTTGCGAT-TTTCCATTTCGC
1 GTTGCGATAGTTCAAAATCGC
* *
20791 GTTGCGATAG-TCTACAGTCGC
1 GTTGCGATAGTTC-AAAATCGC
20812 GTTGCGAT
1 GTTGCGAT
20820 TTTCCGTTTC
Statistics
Matches: 120, Mismatches: 45, Indels: 14
0.67 0.25 0.08
Matches are distributed among these distances:
20 59 0.49
21 61 0.51
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (21 bp):
GTTGCGATAGTTCAAAATCGC
Found at i:20777 original size:123 final size:124
Alignment explanation
Indices: 20619--20883 Score: 414
Period size: 123 Copynumber: 2.2 Consensus size: 124
20609 ATTCGCGTTG
20619 CATTTCGG-GTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGA
1 CATTT-GGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-A
*
20682 AAATCGCTTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTAG-CGTTGCGATTTTC
64 AAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTAGTCGTTGCGATTTTC
*
20742 CATTTGGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
1 CATTTGGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTAAA
* * *
20807 GTCGCGTTGCGATTTTCCGTTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTC
66 ATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTAGTCGTTGCGATTTTC
*
20866 CAAATT--CGTTGCGATAGT
1 C-ATTTGGCGTTGCGATAGT
20884 CTACAGTTGT
Statistics
Matches: 132, Mismatches: 6, Indels: 8
0.90 0.04 0.05
Matches are distributed among these distances:
122 2 0.02
123 112 0.85
124 15 0.11
125 3 0.02
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (124 bp):
CATTTGGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTAAA
ATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTAGTCGTTGCGATTTTC
Found at i:20843 original size:41 final size:41
Alignment explanation
Indices: 20619--20908 Score: 365
Period size: 41 Copynumber: 7.0 Consensus size: 41
20609 ATTCGCGTTG
* * *
20619 CATTTCGGGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
* * *
20660 CATTTCGCGTTGCGATAGT-TGAAAATCGCTTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
*
20701 CATTTCGCGTTGCGATAGTCTACAGTAGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTC
* * *
20742 CATTTGGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
20783 CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTC
* *
20824 CGTTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCTACAGTCG-CGTTGCGATTTTC
* *
20866 CAAATT--CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTC
1 C-ATTTCGCGTTGCGATAGTCTACAGTCG-CGTTGCGATTTTC
20907 CA
1 CA
20909 AATTCGTTGT
Statistics
Matches: 227, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
40 2 0.01
41 207 0.91
42 16 0.07
43 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTC
Found at i:20876 original size:19 final size:19
Alignment explanation
Indices: 20852--20917 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
20842 TCTACAGTTG
20852 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * **
20871 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
20892 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
20912 TCGTTG
1 TCGTTG
20918 TGATAGTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 16 0.44
20 5 0.14
21 5 0.14
22 10 0.28
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:21013 original size:6 final size:6
Alignment explanation
Indices: 21002--21055 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
20992 GACACGTATT
21002 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
21048 ACC-CG ACC
1 ACCACG ACC
21056 CGAGACGAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.31
6 33 0.69
ACGTcount: A:0.30, C:0.54, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:21584 original size:6 final size:6
Alignment explanation
Indices: 21563--21599 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
21553 TCTCGTCTCG
21563 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
21600 AATACGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.00, C:0.16, G:0.54, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:21745 original size:20 final size:20
Alignment explanation
Indices: 21720--21834 Score: 94
Period size: 20 Copynumber: 5.6 Consensus size: 20
21710 ACTGTATACT
21720 ATCGCAACGCGAAACGGAAA
1 ATCGCAACGCGAAACGGAAA
**
21740 ATCGCAACGCG--ACTGTAGACT
1 ATCGCAACGCGAAAC-G--GAAA
*
21761 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAACGGAAA
**
21781 ATCGCAA--CGACAACTGTAGACT
1 ATCGCAACGCGA-AAC-G--GAAA
21803 ATCGCAACGCGAAACGGAAA
1 ATCGCAACGCGAAACGGAAA
21823 ATCGCAACGCGA
1 ATCGCAACGCGA
21835 CTGTAGACTA
Statistics
Matches: 74, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
18 5 0.07
19 3 0.04
20 35 0.47
21 13 0.18
22 11 0.15
23 4 0.05
24 3 0.04
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (20 bp):
ATCGCAACGCGAAACGGAAA
Found at i:21755 original size:41 final size:42
Alignment explanation
Indices: 21693--21855 Score: 276
Period size: 41 Copynumber: 3.9 Consensus size: 42
21683 CAACGAATTT
*
21693 GGAAAATCGCAACGACAACTGTATACTATCGCAACGCGAAAC
1 GGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAAC
* *
21735 GGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAAAT
1 GGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAAC
21776 GGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAAC
1 GGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAAC
*
21818 GGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGA
1 GGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGA
21856 TTTTCAACTA
Statistics
Matches: 114, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
41 61 0.54
42 53 0.46
ACGTcount: A:0.38, C:0.26, G:0.23, T:0.13
Consensus pattern (42 bp):
GGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAAC
Found at i:21785 original size:83 final size:83
Alignment explanation
Indices: 21692--21855 Score: 319
Period size: 83 Copynumber: 2.0 Consensus size: 83
21682 ACAACGAATT
*
21692 TGGAAAATCGCAACGACAACTGTATACTATCGCAACGCGAAACGGAAAATCGCAACGCGACTGTA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAACGGAAAATCGCAACGCGACTGTA
21757 GACTATCGCAACGCGAAA
66 GACTATCGCAACGCGAAA
21775 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAACGGAAAATCGCAACGCGACTGTA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAACGGAAAATCGCAACGCGACTGTA
21840 GACTATCGCAACGCGA
66 GACTATCGCAACGCGA
21856 TTTTCAACTA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.38, C:0.26, G:0.23, T:0.14
Consensus pattern (83 bp):
TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAACGGAAAATCGCAACGCGACTGTA
GACTATCGCAACGCGAAA
Found at i:21834 original size:62 final size:62
Alignment explanation
Indices: 21761--21896 Score: 161
Period size: 62 Copynumber: 2.2 Consensus size: 62
21751 ACTGTAGACT
21761 ATCGCAACGCGAAATG-GAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAACGGAAA
1 ATCGCAACGCGAAATGAGAAAATCGCAACG-CAACTGTCA-ACTATCGCAACGCGAAACGGAAA
* ** * * * *
21823 ATCGCAACGCG-ACTGTAGACTATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATG-AGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAACGGAAA
21885 ATCGCAACGCGA
1 ATCGCAACGCGA
21897 TTTTCAACTA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
61 3 0.05
62 48 0.76
63 12 0.19
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.15
Consensus pattern (62 bp):
ATCGCAACGCGAAATGAGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAACGGAAA
Found at i:21889 original size:41 final size:41
Alignment explanation
Indices: 21844--21921 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
21834 ACTGTAGACT
21844 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
21885 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
21922 CAACACGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:21907 original size:62 final size:62
Alignment explanation
Indices: 21800--21917 Score: 193
Period size: 62 Copynumber: 1.9 Consensus size: 62
21790 ACAACTGTAG
21800 ACTATCGCAACGCGAAACGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAACGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGATTTTCA
* * *
21862 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGA
1 ACTATCGCAACGCGAAACGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGA
21918 AATGCAACAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
62 51 0.98
63 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (62 bp):
ACTATCGCAACGCGAAACGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGATTTTCA
Found at i:21911 original size:21 final size:21
Alignment explanation
Indices: 21823--21917 Score: 104
Period size: 21 Copynumber: 4.6 Consensus size: 21
21813 GAAACGGAAA
* *
21823 ATCGCAACGCGACTGT-AGACT
1 ATCGCAACGCGATTTTCA-ACT
21844 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
21865 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
21885 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
21906 ATCGCAACGCGA
1 ATCGCAACGCGA
21918 AATGCAACAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
20 15 0.25
21 44 0.73
22 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:21977 original size:20 final size:20
Alignment explanation
Indices: 21954--22059 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
21944 AGATCGTGTT
*
21954 GCGATTTCAACTATCGCAAC
1 GCGATTGCAACTATCGCAAC
* * *
21974 GCGAAATGGAA-AATCGCAAC
1 GCG-ATTGCAACTATCGCAAC
*
21994 GCGATCTCCAACTATCGCAAC
1 GCGAT-TGCAACTATCGCAAC
* * * *
22015 GCGAAATGGAA-AAACGCAAC
1 GCG-ATTGCAACTATCGCAAC
* *
22035 GCGATTTTCAACTATCGCAAT
1 GCGA-TTGCAACTATCGCAAC
22056 GCGA
1 GCGA
22060 AATGCAACGT
Statistics
Matches: 61, Mismatches: 19, Indels: 11
0.67 0.21 0.12
Matches are distributed among these distances:
19 2 0.03
20 30 0.49
21 28 0.46
22 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (20 bp):
GCGATTGCAACTATCGCAAC
Found at i:22006 original size:41 final size:41
Alignment explanation
Indices: 21961--22063 Score: 170
Period size: 41 Copynumber: 2.5 Consensus size: 41
21951 GTTGCGATTT
*
21961 CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
* *
22002 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
*
22043 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
22064 CAACGTGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (41 bp):
CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
Found at i:22039 original size:101 final size:102
Alignment explanation
Indices: 21740--22039 Score: 333
Period size: 101 Copynumber: 2.9 Consensus size: 102
21730 GAAACGGAAA
* * * **
21740 ATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAAATCGCAACGAC-AACTGTAGACT
1 ATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAAATCGCAACG-CGATCTCCA-ACT
* * *
21803 ATCGCAACGCGAAACGGAAAATCGCAACGCGACTGTAGACT
63 ATCGCAACGCGAAATGGAAAAACGCAACGCGA-TGTAGACG
* *
21844 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATC
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATC
* * * *
21909 GCAACGCGAAAT-GCAACACG-AATTTGCGATGATGGA-G
66 GCAACGCGAAATGGAAAAACGCAA--CGCGATG-TAGACG
****
21946 ATCGTGTTGCGA-TTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATC
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATC
22010 GCAACGCGAAATGGAAAAACGCAACGCGAT
66 GCAACGCGAAATGGAAAAACGCAACGCGAT
22040 TTTCAACTAT
Statistics
Matches: 167, Mismatches: 22, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
101 69 0.41
102 21 0.13
103 27 0.16
104 49 0.29
105 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (102 bp):
ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATC
GCAACGCGAAATGGAAAAACGCAACGCGATGTAGACG
Found at i:23369 original size:21 final size:21
Alignment explanation
Indices: 23343--23386 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
23333 TTTCTGGGCT
* *
23343 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
23364 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
23385 AG
1 AG
23387 CGAACAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:23458 original size:23 final size:22
Alignment explanation
Indices: 23414--23458 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23404 AATGTCATGG
*
23414 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
23436 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
23459 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:26807 original size:4 final size:4
Alignment explanation
Indices: 26794--26826 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
26784 TTTAAACCTA
26794 AAAT -AAT AAAT AAAT AAAT AAAT AATAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT A
26827 TGATAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 20 0.74
5 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:26825 original size:9 final size:9
Alignment explanation
Indices: 26798--27115 Score: 135
Period size: 9 Copynumber: 36.1 Consensus size: 9
26788 AACCTAAAAT
26798 AATAA-ATA
1 AATAATATA
26806 AATAA-ATA
1 AATAATATA
26814 AATAATATA
1 AATAATATA
26823 AAT-ATGAT-
1 AATAAT-ATA
*
26831 AATATTATA
1 AATAATATA
*
26840 AGTAGTATATA
1 AATA--ATATA
26851 TAATAAATATA
1 -AAT-AATATA
26862 TAATAATATA
1 -AATAATATA
26872 AATAATACTA
1 AATAATA-TA
* *
26882 TATACTAT-
1 AATAATATA
* *
26890 AATAGTACA
1 AATAATATA
26899 TAAT-ATATA
1 -AATAATATA
*
26908 TATAATATA
1 AATAATATA
26917 ACA-AATATA
1 A-ATAATATA
*
26926 TATAATAT-
1 AATAATATA
*
26934 ACT-ATATA
1 AATAATATA
26942 AATATATAATA
1 AATA-AT-ATA
*
26953 TATAATATA
1 AATAATATA
*
26962 AATATTATA
1 AATAATATA
*
26971 TAT-ATATA
1 AATAATATA
*
26979 TAATACTATA
1 -AATAATATA
26989 AATAAT-T-
1 AATAATATA
26996 AATATATATA
1 AATA-ATATA
*
27006 TATAATATA
1 AATAATATA
*
27015 TATAATAT-
1 AATAATATA
27023 AATAAT-T-
1 AATAATATA
27030 AATAAT-T-
1 AATAATATA
27037 AATAATAT-
1 AATAATATA
*
27045 ACT-ATATA
1 AATAATATA
27053 ATATAATATA
1 A-ATAATATA
* *
27063 TATTATAT-
1 AATAATATA
*
27071 ACT-ATATA
1 AATAATATA
27079 AAT-AT-TA
1 AATAATATA
*
27086 TATAATATA
1 AATAATATA
27095 TAA-AATATA
1 -AATAATATA
27104 CAATAATTATA
1 -AATAA-TATA
27115 A
1 A
27116 TATATACCAT
Statistics
Matches: 240, Mismatches: 37, Indels: 64
0.70 0.11 0.19
Matches are distributed among these distances:
7 34 0.14
8 54 0.22
9 89 0.37
10 37 0.15
11 23 0.10
12 2 0.01
13 1 0.00
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (9 bp):
AATAATATA
Found at i:26852 original size:2 final size:2
Alignment explanation
Indices: 26845--27096 Score: 143
Period size: 2 Copynumber: 138.0 Consensus size: 2
26835 TTATAAGTAG
* *
26845 TA TA TA TA -A TA AA TA TA TA -A TA -A TA TA AA TA -A TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
26884 TA CTA TA -A TA GTA CA TA -A TA TA TA TA TA -A TA TA -A CA AA TA
1 TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
26924 TA TA TA -A TA TA CTA TA TA AA TA TA TA -A TA TA TA -A TA TA AA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
26964 TA T- TA TA TA TA TA TA TA -A TA CTA TA AA TA -A T- TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
27002 TA TA TA TA -A TA TA TA TA -A TA TA -A TA -A T- TA -A TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27036 TA -A TA -A TA TA CTA TA TA -A TA TA -A TA TA TA T- TA TA TA CTA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
27075 TA TA AA TA T- TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
27097 AAATATACAA
Statistics
Matches: 196, Mismatches: 16, Indels: 76
0.68 0.06 0.26
Matches are distributed among these distances:
1 31 0.16
2 151 0.77
3 14 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (2 bp):
TA
Found at i:26855 original size:35 final size:35
Alignment explanation
Indices: 26796--27132 Score: 168
Period size: 34 Copynumber: 9.8 Consensus size: 35
26786 TAAACCTAAA
*
26796 ATAATAA-ATAAATAA-A-TAAATAATATAAATAT
1 ATAATAATATAAATAATACTATATAATATAAATAT
* * *
26828 GATAATATTATAAGTAGTA-TATAT-A-ATAAATAT
1 -ATAATAATATAAATAATACTATATAATATAAATAT
* *
26861 ATAATAATATAAATAATACTATATACTATAATAGTAC
1 ATAATAATATAAATAATACTATATAATATAA-A-TAT
* * *
26898 ATAAT-ATATATATAATA-TA-ACAAATATATATAAT
1 ATAATAATATAAATAATACTATA-TAATATAAAT-AT
* *
26932 ATACT-ATATAAATATATAATATATAATATAAATAT
1 ATAATAATATAAATA-ATACTATATAATATAAATAT
* *
26967 -T-ATATATATATATAATAC--TATAA-ATAATTA-
1 ATAATA-ATATAAATAATACTATATAATATAAATAT
*
26997 AT-AT-ATATATATAATA-TATATAATAT-AATAAT
1 ATAATAATATAAATAATACTATATAATATAAAT-AT
27029 -TAATAAT-T-AATAATATACTATATAATATAATATAT
1 ATAATAATATAAAT-A-ATACTATATAATATAA-ATAT
*
27064 ATTATATACTATATAAATATTA-TATA-ATATATAAAATAT
1 A-TA-ATA--ATATAAATAATACTATATA-ATAT-AAATAT
* *
27103 ACAATAAT-TATAATATATACCATATAATAT
1 ATAATAATATA-AATA-ATACTATATAATAT
27133 GACATAATAT
Statistics
Matches: 236, Mismatches: 28, Indels: 76
0.69 0.08 0.22
Matches are distributed among these distances:
29 12 0.05
30 7 0.03
31 15 0.06
32 24 0.10
33 26 0.11
34 38 0.16
35 38 0.16
36 26 0.11
37 20 0.08
38 6 0.03
39 13 0.06
40 6 0.03
41 2 0.01
42 3 0.01
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (35 bp):
ATAATAATATAAATAATACTATATAATATAAATAT
Found at i:26856 original size:16 final size:15
Alignment explanation
Indices: 26806--27121 Score: 134
Period size: 16 Copynumber: 20.1 Consensus size: 15
26796 ATAATAAATA
*
26806 AATAAATAAATA-AT
1 AATAAATATATATAT
26820 -ATAAATATGATAATAT
1 AATAAATAT-AT-ATAT
* *
26836 TATAAGTAGTATATAT
1 AATAAATA-TATATAT
26852 AATAAATATATA-AT
1 AATAAATATATATAT
26866 AATATAAATAATACTATAT
1 -A-ATAAAT-ATA-TATAT
* * *
26885 ACTATAATA-GTACAT
1 AATA-AATATATATAT
*
26900 AATATATATATA-AT
1 AATAAATATATATAT
*
26914 -ATAACAAATATATAT
1 AATAA-ATATATATAT
* *
26929 AATATACTATATAAAT
1 AATA-AATATATATAT
26945 -ATATAATATATA-AT
1 AATA-AATATATATAT
26959 -ATAAATATTATATAT
1 AATAAATA-TATATAT
*
26974 ATATATAATACTATAAAT
1 A-ATA-AATA-TATATAT
*
26992 AATTAATATATATAT
1 AATAAATATATATAT
27007 -ATAATATATATAATAT
1 AATAA-ATATAT-ATAT
*
27023 AATAATTA-ATAATTAAT
1 AATAAATATAT-A-T-AT
*
27040 AATATACTATATAATAT
1 AATA-AATATAT-ATAT
*
27057 AATATATATTATATACT
1 AATAAATA-TATATA-T
27074 ATATAAATAT-TATAT
1 A-ATAAATATATATAT
* * *
27089 AATATATAAAATATAC
1 AATAAAT-ATATATAT
*
27105 AATAATTATAATATAT
1 AATAAATAT-ATATAT
27121 A
1 A
27122 CCATATAATA
Statistics
Matches: 235, Mismatches: 33, Indels: 66
0.70 0.10 0.20
Matches are distributed among these distances:
13 14 0.06
14 32 0.14
15 50 0.21
16 63 0.27
17 42 0.18
18 28 0.12
19 6 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (15 bp):
AATAAATATATATAT
Found at i:27082 original size:27 final size:26
Alignment explanation
Indices: 26818--27121 Score: 135
Period size: 26 Copynumber: 11.7 Consensus size: 26
26808 TAAATAAATA
*
26818 ATATAAATATGATA-ATATTATA-AGT
1 ATATAAATATAATATATATTATATA-T
*
26843 AGTAT--ATATAATAAATA-TATA-AT
1 A-TATAAATATAATATATATTATATAT
* *
26866 AATATAAATAATACTATATACTATA-AT
1 -ATATAAAT-ATAATATATATTATATAT
* * *
26893 AGTACATAATAT-ATATATAATATA-AC
1 A-TATA-AATATAATATATATTATATAT
* * *
26919 AAATATATATAATATACTA-TATAAAT
1 ATATAAATATAATATA-TATTATATAT
26945 ATATAATATATAATATAAATATTATATAT
1 ATATAA-ATATAATAT--ATATTATATAT
*
26974 ATATATAATACT-ATAAATAATTA-ATAT
1 ATATA-AATA-TAATATAT-ATTATATAT
27001 ATAT--ATATAATATATA-TA-ATAT
1 ATATAAATATAATATATATTATATAT
* *
27023 A-ATAATTAATAAT-TA-ATAATATACT
1 ATATAAAT-ATAATATATATTATATA-T
27048 ATAT-AATATAATATATATTATATACT
1 ATATAAATATAATATATATTATATA-T
* *
27074 ATATAAATATTATATAATATATAAAATAT
1 ATATAAATA-TA-AT-ATATATTATATAT
* *
27103 ACAATAATTATAATATATA
1 A-TATAAATATAATATATA
27122 CCATATAATA
Statistics
Matches: 221, Mismatches: 24, Indels: 66
0.71 0.08 0.21
Matches are distributed among these distances:
21 2 0.01
22 8 0.04
23 10 0.05
24 38 0.17
25 23 0.10
26 46 0.21
27 39 0.18
28 13 0.06
29 24 0.11
30 18 0.08
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (26 bp):
ATATAAATATAATATATATTATATAT
Found at i:27094 original size:7 final size:7
Alignment explanation
Indices: 26796--27132 Score: 193
Period size: 7 Copynumber: 49.0 Consensus size: 7
26786 TAAACCTAAA
*
26796 ATAATAA
1 ATAATAT
26803 ATAA-AT
1 ATAATAT
*
26809 A-AATAA
1 ATAATAT
26815 ATAATAT
1 ATAATAT
26822 A-AATAT
1 ATAATAT
26828 GATAATATT
1 -ATAATA-T
26837 ATAAGTAGT
1 ATAA-TA-T
26846 AT-ATAT
1 ATAATAT
26852 AATAAATAT
1 -AT-AATAT
26861 ATAATAAT
1 ATAAT-AT
26869 ATAA-AT
1 ATAATAT
*
26875 AATACTAT
1 -ATAATAT
*
26883 ATACTAT
1 ATAATAT
* *
26890 AATAGTAC
1 -ATAATAT
26898 ATAATAT
1 ATAATAT
26905 ATATATAAT
1 ATA-AT-AT
* *
26914 ATAACAA
1 ATAATAT
26921 AT-ATAT
1 ATAATAT
26927 ATAATAT
1 ATAATAT
26934 ACT-ATAT
1 A-TAATAT
26941 A-AATAT
1 ATAATAT
26947 ATAATAT
1 ATAATAT
26954 ATAATAT
1 ATAATAT
26961 A-AATAT
1 ATAATAT
26967 -T-ATAT
1 ATAATAT
26972 AT-ATAT
1 ATAATAT
26978 ATAATACT
1 ATAATA-T
26986 ATAA-AT
1 ATAATAT
26992 AATTAATAT
1 -A-TAATAT
27001 AT-ATAT
1 ATAATAT
27007 ATAATAT
1 ATAATAT
27014 AT-ATAAT
1 ATAAT-AT
27021 ATAATA-
1 ATAATAT
27027 ATTAATA-
1 A-TAATAT
27034 ATTAATAAT
1 A-TAAT-AT
*
27043 ATACTAT
1 ATAATAT
27050 AT-A-AT
1 ATAATAT
27055 ATAATAT
1 ATAATAT
*
27062 ATATTAT
1 ATAATAT
*
27069 ATACTAT
1 ATAATAT
27076 ATAA-AT
1 ATAATAT
27082 AT--TAT
1 ATAATAT
27087 ATAATAT
1 ATAATAT
*
27094 ATAAAAT
1 ATAATAT
*
27101 AT-ACA-
1 ATAATAT
27106 ATAAT-T
1 ATAATAT
27112 ATAATAT
1 ATAATAT
**
27119 ATACCAT
1 ATAATAT
27126 ATAATAT
1 ATAATAT
27133 GACATAATAT
Statistics
Matches: 265, Mismatches: 25, Indels: 80
0.72 0.07 0.22
Matches are distributed among these distances:
5 16 0.06
6 56 0.21
7 132 0.50
8 43 0.16
9 18 0.07
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (7 bp):
ATAATAT
Found at i:32260 original size:22 final size:22
Alignment explanation
Indices: 32217--32268 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
32207 AAAATTTAGT
**
32217 GAAATTAAAATTAACCCAAACC
1 GAAATTAAAAACAACCCAAACC
* *
32239 GAAATTAAAAACAACTCGAACC
1 GAAATTAAAAACAACCCAAACC
*
32261 GAATTTAA
1 GAAATTAA
32269 TCAGACCCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.54, C:0.19, G:0.08, T:0.19
Consensus pattern (22 bp):
GAAATTAAAAACAACCCAAACC
Found at i:32868 original size:13 final size:13
Alignment explanation
Indices: 32852--32877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32842 TAACAAATAA
32852 GAAGACATATTTT
1 GAAGACATATTTT
32865 GAAGACATATTTT
1 GAAGACATATTTT
32878 TACAAGTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
GAAGACATATTTT
Found at i:33276 original size:15 final size:15
Alignment explanation
Indices: 33241--33284 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
33231 AATTAATCTA
*
33241 ACCCGAAATTACCCG
1 ACCCGAAATGACCCG
*
33256 ACCCGAAATGACTCG
1 ACCCGAAATGACCCG
*
33271 ATCCG-AATGACCCG
1 ACCCGAAATGACCCG
33285 TTTGCCCACC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.32, C:0.36, G:0.18, T:0.14
Consensus pattern (15 bp):
ACCCGAAATGACCCG
Found at i:36554 original size:28 final size:27
Alignment explanation
Indices: 36530--36584 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
36520 CGATTTAATC
*
36530 CTTTTTA-TTATTATTTATTATTTTAT
1 CTTTTTATTTAATATTTATTATTTTAT
36556 CTTTTTATTTTAATATTTATTATTATTAT
1 CTTTTTA-TTTAATATTTATTATT-TTAT
36585 TATTTTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 7 0.28
28 14 0.56
29 4 0.16
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (27 bp):
CTTTTTATTTAATATTTATTATTTTAT
Found at i:36563 original size:13 final size:13
Alignment explanation
Indices: 36530--36567 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
36520 CGATTTAATC
36530 CTTTTTATTATTAT
1 CTTTTTATT-TTAT
*
36544 -TTATTATTTTAT
1 CTTTTTATTTTAT
36556 CTTTTTATTTTA
1 CTTTTTATTTTA
36568 ATATTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTTTTATTTTAT
Found at i:36585 original size:13 final size:13
Alignment explanation
Indices: 36534--36585 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
36524 TTAATCCTTT
36534 TTATTATTATTTA
1 TTATTATTATTTA
*
36547 TTATT-TTATCTTT
1 TTATTATTAT-TTA
*
36560 TTATTTTAATATTTA
1 TTA--TTATTATTTA
36575 TTATTATTATT
1 TTATTATTATT
36586 ATTTTTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
12 4 0.13
13 17 0.55
15 7 0.23
16 3 0.10
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:36890 original size:24 final size:23
Alignment explanation
Indices: 36854--36915 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
36844 TATGTATATT
36854 TTTTTAT-TATTTATTTTT-TTTACC
1 TTTTTATAT-TTTATTTTTCTTT--C
36878 TTTTTATATTTTATTTTTCTTTC
1 TTTTTATATTTTATTTTTCTTTC
36901 -TTTTATATTTTATTT
1 TTTTTATATTTTATTT
36916 CGTTATTTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
22 15 0.42
23 1 0.03
24 16 0.44
25 4 0.11
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTATATTTTATTTTTCTTTC
Found at i:36916 original size:16 final size:15
Alignment explanation
Indices: 36850--36947 Score: 51
Period size: 15 Copynumber: 6.4 Consensus size: 15
36840 GTTTTATGTA
36850 TATTT-TTTTATTATT
1 TATTTCTTTTATT-TT
*
36865 TATTTTTTTTACCTTTT
1 TATTTCTTTTA--TTTT
*
36882 TA--TATTTTATTTT
1 TATTTCTTTTATTTT
*
36895 TCTTTCTTTTATATTT
1 TATTTCTTTTAT-TTT
* *
36911 TATTTC-GTTATTTG
1 TATTTCTTTTATTTT
*
36925 CATTATCTTCTTATTTT
1 TATT-TCTT-TTATTTT
*
36942 TGTTTC
1 TATTTC
36948 GTTGTTTGCT
Statistics
Matches: 63, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
13 5 0.08
14 5 0.08
15 24 0.38
16 15 0.24
17 12 0.19
18 2 0.03
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.72
Consensus pattern (15 bp):
TATTTCTTTTATTTT
Found at i:37046 original size:16 final size:18
Alignment explanation
Indices: 37025--37064 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
37015 TATCTTTGCC
37025 TTATTTTGATT-TT-TCT
1 TTATTTTGATTATTCTCT
*
37041 TTATTTTTATTATTCTCT
1 TTATTTTGATTATTCTCT
37059 TTATTT
1 TTATTT
37065 CATACGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 2 0.10
18 9 0.43
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (18 bp):
TTATTTTGATTATTCTCT
Found at i:38623 original size:16 final size:17
Alignment explanation
Indices: 38594--38626 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38584 GACCAAACCC
38594 AAAATAATACATTAATT
1 AAAATAATACATTAATT
*
38611 AAAA-AATATATTAATT
1 AAAATAATACATTAATT
38627 TTATTCAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATAATACATTAATT
Found at i:39920 original size:2 final size:2
Alignment explanation
Indices: 39913--39948 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
39903 TAATAAAATG
39913 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
39949 TAATCATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40238 original size:13 final size:12
Alignment explanation
Indices: 40218--40253 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
40208 TATTTTGAAT
40218 TTTTTAAAAATA
1 TTTTTAAAAATA
40230 TTATTTAAAAATA
1 TT-TTTAAAAATA
40243 TTTTTATAAAA
1 TTTTTA-AAAA
40254 AAAAATTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTTTAAAAATA
Found at i:41403 original size:20 final size:20
Alignment explanation
Indices: 41378--41470 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
41368 TTTTCCCAAT
41378 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
41398 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
41418 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
41439 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
41460 TCGCAATGCGA
1 TCGCAATGCGA
41471 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:41420 original size:41 final size:41
Alignment explanation
Indices: 41375--41470 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
41365 CGATTTTCCC
41375 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
41416 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
41457 AAATCGCAATGCGA
1 AATTCGCAATGCGA
41471 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:41424 original size:21 final size:20
Alignment explanation
Indices: 41378--41470 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
41368 TTTTCCCAAT
*
41378 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
41398 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
41418 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
41439 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
41460 TCGCAATGCGA
1 TCGCAATGCGA
41471 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:41483 original size:41 final size:41
Alignment explanation
Indices: 41397--41531 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
41387 GAATAAGTAA
* * *
41397 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
41438 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
41479 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
41520 TTCGCAACGCGA
1 ATCGCAACGCGA
41532 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:41484 original size:20 final size:20
Alignment explanation
Indices: 41459--41553 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
41449 AATTGGGAAA
*
41459 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
41479 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
41500 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
41520 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
41540 TTCGCAACGCGATA
1 ATCGCAACGCGATA
41554 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:41769 original size:22 final size:22
Alignment explanation
Indices: 41741--41784 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
41731 CACTCTCTCA
41741 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
41763 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
41785 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:42073 original size:20 final size:20
Alignment explanation
Indices: 42048--42085 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42038 CGATTCTCTC
42048 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
42068 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
42086 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:43389 original size:18 final size:18
Alignment explanation
Indices: 43368--43412 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
43358 TCCACTTCGG
*
43368 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
43386 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
43404 GAGCCATCA
1 GAGCCATCA
43413 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:43918 original size:20 final size:20
Alignment explanation
Indices: 43893--43937 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
43883 TTTCGCAACA
43893 CGAAAATGACTATCGAAATG
1 CGAAAATGACTATCGAAATG
* *
43913 CGAAAATGGCTATCGCAATG
1 CGAAAATGACTATCGAAATG
43933 CGAAA
1 CGAAA
43938 TGAAAATCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (20 bp):
CGAAAATGACTATCGAAATG
Found at i:43946 original size:19 final size:18
Alignment explanation
Indices: 43924--44019 Score: 75
Period size: 19 Copynumber: 5.6 Consensus size: 18
43914 GAAAATGGCT
43924 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
43943 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
43957 ATCGCAACGCGAAATG-AA
1 ATCGCAA-GCGAAATGAAA
*
43975 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
43989 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
44008 ATCGCAATGCGA
1 ATCGCAA-GCGA
44020 TTTGTGTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
14 20 0.33
15 1 0.02
16 6 0.10
17 2 0.03
18 11 0.18
19 21 0.34
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:43959 original size:14 final size:14
Alignment explanation
Indices: 43940--43997 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
43930 ATGCGAAATG
43940 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
43954 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
43970 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
43986 AAAATCGCAACG
1 AAAATCGCAACG
43998 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:43982 original size:32 final size:33
Alignment explanation
Indices: 43924--44014 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
43914 GAAAATGGCT
*
43924 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
43957 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
43989 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
44015 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:44050 original size:14 final size:14
Alignment explanation
Indices: 44031--44120 Score: 90
Period size: 14 Copynumber: 5.9 Consensus size: 14
44021 TTGTGTTTCG
44031 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
44045 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
44061 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
*
44077 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
44093 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
44109 CGTTGCGATTTT
1 CGTTGCGATTTT
44121 CCTTTCGCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
14 34 0.53
16 8 0.12
18 22 0.34
ACGTcount: A:0.09, C:0.18, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:44065 original size:32 final size:32
Alignment explanation
Indices: 44026--44136 Score: 195
Period size: 32 Copynumber: 3.4 Consensus size: 32
44016 GCGATTTGTG
44026 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
44058 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
*
44090 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCC
1 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
*
44123 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
44137 AGCCATTTCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 59 0.78
33 17 0.22
ACGTcount: A:0.09, C:0.20, G:0.24, T:0.47
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:44155 original size:20 final size:19
Alignment explanation
Indices: 44123--44175 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
44113 GCGATTTTCC
*
44123 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATAGCCA
*
44142 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGATAGCCA
44162 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
44176 TTTAAGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.36
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGCCA
Found at i:45044 original size:41 final size:41
Alignment explanation
Indices: 44996--45073 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
44986 CGAAAGTCAG
* *
44996 TATCGCATTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
45037 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
45074 CCCAATTCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:45070 original size:20 final size:20
Alignment explanation
Indices: 44977--45070 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
44967 CGCTAAGTAA
* *
44977 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* *
44997 ATCGCATTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
45017 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
45038 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
45058 ATCGCATTGCGAT
1 ATCGCATTGCGAT
45071 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:45088 original size:21 final size:21
Alignment explanation
Indices: 45059--45155 Score: 133
Period size: 21 Copynumber: 4.7 Consensus size: 21
45049 ATAGTCAGTA
*
45059 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
45080 TCGCGTTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
* **
45101 TCGCGTTGCGA-TTTACTTAT
1 TCGCGTTGCGATTTTCCCAAT
* *
45121 TCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
45142 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
45156 ACTTATTCGC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 16 0.25
21 49 0.75
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCCAAT
Found at i:45112 original size:62 final size:62
Alignment explanation
Indices: 45039--45172 Score: 166
Period size: 62 Copynumber: 2.2 Consensus size: 62
45029 TTTTTTATTA
*
45039 TCGCATTGCGATAGTCA-GTA-TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTTCCCAAT
1 TCGCATTGCGAT--TCACGTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTTCCCAAT
* * * * **
45101 TCGCGTTGCGATTTACTTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTCACGTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTTCCCAAT
45162 TCGCATTGCGA
1 TCGCATTGCGA
45173 ATTGGGAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
60 2 0.03
61 18 0.29
62 42 0.68
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (62 bp):
TCGCATTGCGATTCACGTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTTCCCAAT
Found at i:45123 original size:41 final size:41
Alignment explanation
Indices: 45078--45175 Score: 178
Period size: 41 Copynumber: 2.4 Consensus size: 41
45068 GATTTTCCCA
* *
45078 ATTCGCGTTGCGATTTTCCCAATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTT
45119 ATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTT
45160 ATTCGCATTGCGAATT
1 ATTCGCATTGCGAATT
45176 GGGAAAATCG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (41 bp):
ATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTT
Found at i:45124 original size:20 final size:20
Alignment explanation
Indices: 45059--45172 Score: 111
Period size: 21 Copynumber: 5.5 Consensus size: 20
45049 ATAGTCAGTA
* *
45059 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGA-TTTACCAAT
*
45080 TCGCGTTGCGATTTTCCCAAT
1 TCGCGTTGCGA-TTTACCAAT
**
45101 TCGCGTTGCGATTTACTTAT
1 TCGCGTTGCGATTTACCAAT
* *
45121 TCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCG-ATTTACCAAT
**
45142 TCGCGTTGCGATTTACTTAT
1 TCGCGTTGCGATTTACCAAT
*
45162 TCGCATTGCGA
1 TCGCGTTGCGA
45173 ATTGGGAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
20 32 0.41
21 47 0.59
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTACCAAT
Found at i:45187 original size:62 final size:62
Alignment explanation
Indices: 45039--45187 Score: 147
Period size: 62 Copynumber: 2.4 Consensus size: 62
45029 TTTTTTATTA
* * ** * *
45039 TCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTTCCCAAT
1 TCGCATTGCGATTGACAAAATCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTTACCAAT
* * ** * **
45101 TCGCGTTGCGATTTACTTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTGACAAAATCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTTACCAAT
**
45162 TCGCATTGCGAATTGGGAAAATCGCA
1 TCGCATTGCG-ATTGACAAAATCGCA
45188 ACGATACTGT
Statistics
Matches: 67, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
61 15 0.22
62 52 0.78
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (62 bp):
TCGCATTGCGATTGACAAAATCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTTACCAAT
Found at i:46018 original size:20 final size:20
Alignment explanation
Indices: 45994--46072 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 20
45984 AACAAAATGC
45994 TAATAAATAAAAAATGAATAA
1 TAATAAATAAAAAAT-AATAA
*
46015 -AATATATAAAAAATAATAA
1 TAATAAATAAAAAATAATAA
*
46034 TAAT-AATGAAAGAAA-GA-AA
1 TAATAAAT-AAA-AAATAATAA
46053 TAATAAA-AAAATAATAATAA
1 TAATAAATAAAA-AATAATAA
46073 AAGGTTAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
17 1 0.02
18 5 0.11
19 14 0.30
20 24 0.51
21 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (20 bp):
TAATAAATAAAAAATAATAA
Found at i:46066 original size:11 final size:11
Alignment explanation
Indices: 45994--46074 Score: 51
Period size: 11 Copynumber: 6.9 Consensus size: 11
45984 AACAAAATGC
45994 TAATAAATAAAA
1 TAATAAA-AAAA
*
46006 -AATGAATAAAA
1 TAAT-AAAAAAA
46017 T-ATATAAAAAA
1 TAATA-AAAAAA
*
46028 TAATAATAATAA
1 TAATAA-AAAAA
46040 TGAA-AGAAAGAAA
1 T-AATA-AAA-AAA
46053 TAATAAAAAAA
1 TAATAAAAAAA
46064 TAATAATAAAA
1 TAATAA-AAAA
46075 GGTTAAGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
10 1 0.02
11 25 0.45
12 22 0.40
13 7 0.13
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (11 bp):
TAATAAAAAAA
Found at i:47347 original size:12 final size:12
Alignment explanation
Indices: 47330--47359 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47320 TGACTGGATT
47330 TGGACCCGTTTC
1 TGGACCCGTTTC
*
47342 TGGACCCGTTTT
1 TGGACCCGTTTC
47354 TGGACC
1 TGGACC
47360 TGGAGACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.30, G:0.27, T:0.33
Consensus pattern (12 bp):
TGGACCCGTTTC
Found at i:47426 original size:19 final size:18
Alignment explanation
Indices: 47404--47443 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
47394 ATAAAAGAAA
47404 ATAAAATAAATAATATGAT
1 ATAAAATAAATAATAT-AT
* *
47423 ATAAACTATATAATATAT
1 ATAAAATAAATAATATAT
47441 ATA
1 ATA
47444 TTTCAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAAAATAAATAATATAT
Found at i:47468 original size:39 final size:36
Alignment explanation
Indices: 47425--47828 Score: 219
Period size: 38 Copynumber: 11.2 Consensus size: 36
47415 AATATGATAT
47425 AAACTATATAATATATATATTTCAAAAATACGTTTTAGA
1 AAACTATATAATATATAT-TTTCAAAAATA-GTTTTA-A
* * *
47464 AAACTATATATTACATAGTTTTC-AAAA-CGTTTTAA
1 AAACTATATAATATATA-TTTTCAAAAATAGTTTTAA
*
47499 AAA-TAT-T-ATATA-AGTTTTCAAAAAT-GTTTTTA
1 AAACTATATAATATATA-TTTTCAAAAATAGTTTTAA
* * * *
47531 AAACTATATATTATATAATTTCATAAAAAAATGTTTTTA
1 AAACTATATAATATATATTTTC--AAAAATA-GTTTTAA
*
47570 AAACTATATACTATATATGTTTTC-AAAAT-GTTTTAA
1 AAACTATATA--ATATATATTTTCAAAAATAGTTTTAA
*
47606 AAACTATATAATATATAAACGTTTTC-AAAAT-GTTTTCA
1 AAACTATATAATATAT--A--TTTTCAAAAATAGTTTTAA
47644 AAACTATAT-AT-TATA---T----AAT-GTTTTAA
1 AAACTATATAATATATATTTTCAAAAATAGTTTTAA
* * *
47670 AAACTATATAATATATAAACGTTTCCAAAAT-GTTTTCA
1 AAACTATATAATATAT--A-TTTTCAAAAATAGTTTTAA
47708 AAACTATATATTATATATATTTT-AAAAATA-TTTTCAA
1 AAACTATATA--ATATATATTTTCAAAAATAGTTTT-AA
* * *
47745 AAACTATATAATATATAAATTTTCGAAAATCATTTTCTGA
1 AAACTATATAATATAT--ATTTTCAAAAAT-AGTTT-TAA
* * * * *
47785 AAATTATATATTATAT-TTTGTCAAAAACATTTTTAC
1 AAACTATATAATATATATTT-TCAAAAATAGTTTTAA
47821 AAACTATA
1 AAACTATA
47829 ATAAAAAAAC
Statistics
Matches: 295, Mismatches: 30, Indels: 83
0.72 0.07 0.20
Matches are distributed among these distances:
26 18 0.06
27 2 0.01
28 3 0.01
29 1 0.00
30 1 0.00
31 7 0.02
32 16 0.05
33 4 0.01
34 12 0.04
35 18 0.06
36 43 0.15
37 34 0.12
38 64 0.22
39 37 0.13
40 25 0.08
41 10 0.03
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (36 bp):
AAACTATATAATATATATTTTCAAAAATAGTTTTAA
Found at i:47663 original size:26 final size:26
Alignment explanation
Indices: 47634--47687 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
47624 ACGTTTTCAA
* *
47634 AATGTTTTCAAAACTATATATTATAT
1 AATGTTTTAAAAACTATATAATATAT
47660 AATGTTTTAAAAACTATATAATATAT
1 AATGTTTTAAAAACTATATAATATAT
47686 AA
1 AA
47688 ACGTTTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (26 bp):
AATGTTTTAAAAACTATATAATATAT
Found at i:47665 original size:75 final size:72
Alignment explanation
Indices: 47425--47810 Score: 315
Period size: 75 Copynumber: 5.4 Consensus size: 72
47415 AATATGATAT
* * * *
47425 AAACTATATAATATATATATTTCAAAAATACGTTTTAGAAAACTATAT-AT-TACATAGTTTTCA
1 AAACTATATATTATATATTTTTC-AAAAT--GTTTTA-AAAACTATATAATATATAAAGTTTTCA
*
47488 AAACGTTTT-A
62 AAATGTTTTCA
* * * * *
47498 AAAATAT-TA-TATA-AGTTTTCAAAAATGTTTTTAAAACTATATATTATAT-AA-TTTCATAAA
1 AAACTATATATTATATATTTTTC-AAAATGTTTTAAAAACTATATAATATATAAAGTTT--T--C
*
47558 AAAATGTTTTTA
61 AAAATGTTTTCA
*
47570 AAACTATATACTATATATGTTTTCAAAATGTTTTAAAAACTATATAATATATAAACGTTTTCAAA
1 AAACTATATATTATATAT-TTTTCAAAATGTTTTAAAAACTATATAATATATAAA-GTTTTCAAA
47635 ATGTTTTCA
64 ATGTTTTCA
*
47644 AAACTATATA-T-TATA----T---AATGTTTTAAAAACTATATAATATATAAACGTTTCCAAAA
1 AAACTATATATTATATATTTTTCAAAATGTTTTAAAAACTATATAATATATAAA-GTTTTCAAAA
47700 TGTTTTCA
65 TGTTTTCA
* *
47708 AAACTATATATTATATATATTTTAAAAATATTTTCAAAAACTATATAATATATAAA-TTTTCGAA
1 AAACTATATATTATATAT-TTTTCAAAATGTTTT-AAAAACTATATAATATATAAAGTTTTC-AA
*
47772 AATCATTTTCTGA
63 AAT-GTTTTC--A
* *
47785 AAATTATATATTATAT-TTTGTCAAAA
1 AAACTATATATTATATATTTTTCAAAA
47811 ACATTTTTAC
Statistics
Matches: 262, Mismatches: 22, Indels: 56
0.77 0.06 0.16
Matches are distributed among these distances:
64 57 0.22
65 1 0.00
66 4 0.02
67 14 0.05
68 7 0.03
69 3 0.01
70 11 0.04
71 14 0.05
72 13 0.05
73 13 0.05
74 37 0.14
75 60 0.23
76 9 0.03
77 16 0.06
78 3 0.01
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (72 bp):
AAACTATATATTATATATTTTTCAAAATGTTTTAAAAACTATATAATATATAAAGTTTTCAAAAT
GTTTTCA
Found at i:47673 original size:64 final size:64
Alignment explanation
Indices: 47596--47735 Score: 255
Period size: 64 Copynumber: 2.2 Consensus size: 64
47586 ATGTTTTCAA
*
47596 AATGTTTTAAAAACTATATAATATATAAACGTTTTCAAAATGTTTTCAAAACTATATATTATAT
1 AATGTTTTAAAAACTATATAATATATAAACGTTTCCAAAATGTTTTCAAAACTATATATTATAT
47660 AATGTTTTAAAAACTATATAATATATAAACGTTTCCAAAATGTTTTCAAAACTATATATTATAT
1 AATGTTTTAAAAACTATATAATATATAAACGTTTCCAAAATGTTTTCAAAACTATATATTATAT
*
47724 -ATATTTTAAAAA
1 AATGTTTTAAAAA
47736 TATTTTCAAA
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
63 11 0.15
64 63 0.85
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.41
Consensus pattern (64 bp):
AATGTTTTAAAAACTATATAATATATAAACGTTTCCAAAATGTTTTCAAAACTATATATTATAT
Found at i:47699 original size:28 final size:26
Alignment explanation
Indices: 47639--47699 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
47629 TTCAAAATGT
* *
47639 TTTC-AAAACTATATATTATATAATG
1 TTTCAAAAACTATATAATATATAACG
*
47664 TTTTAAAAACTATATAATATATAAACG
1 TTTCAAAAACTATATAATATAT-AACG
*
47691 TTTCCAAAA
1 TTTCAAAAA
47700 TGTTTTCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 3 0.10
26 16 0.55
27 10 0.34
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (26 bp):
TTTCAAAAACTATATAATATATAACG
Found at i:49277 original size:10 final size:10
Alignment explanation
Indices: 49262--49296 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
49252 TTCATCACAC
49262 CAAATTCTCT
1 CAAATTCTCT
49272 CAAATTCTCT
1 CAAATTCTCT
* *
49282 TAATTTCTCT
1 CAAATTCTCT
49292 CAAAT
1 CAAAT
49297 GCTTTTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:66491 original size:2 final size:2
Alignment explanation
Indices: 66484--66586 Score: 206
Period size: 2 Copynumber: 51.5 Consensus size: 2
66474 GAATCCGAAA
66484 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
66526 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
66568 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
66587 ATCGGGGCAG
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 101 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67414 original size:20 final size:20
Alignment explanation
Indices: 67389--67426 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
67379 ACACGTTAAC
*
67389 AATGTATATTCTAGAATGCA
1 AATGTATATTCCAGAATGCA
67409 AATGTATATTCCAGAATG
1 AATGTATATTCCAGAATG
67427 TATATTCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (20 bp):
AATGTATATTCCAGAATGCA
Found at i:67428 original size:14 final size:14
Alignment explanation
Indices: 67409--67463 Score: 101
Period size: 14 Copynumber: 3.9 Consensus size: 14
67399 CTAGAATGCA
67409 AATGTATATTCCAG
1 AATGTATATTCCAG
67423 AATGTATATTCCAG
1 AATGTATATTCCAG
67437 AATGTATATTCCAG
1 AATGTATATTCCAG
*
67451 AATGCATATTCCA
1 AATGTATATTCCA
67464 ATATTCTCCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (14 bp):
AATGTATATTCCAG
Found at i:69275 original size:20 final size:20
Alignment explanation
Indices: 69247--69286 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
69237 ACACGTTAAC
*
69247 AATGCATATTCTAGAATGCA
1 AATGCATATTCCAGAATGCA
*
69267 AATGTATATTCCAGAATGCA
1 AATGCATATTCCAGAATGCA
69287 TATTCCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
AATGCATATTCCAGAATGCA
Found at i:69672 original size:26 final size:27
Alignment explanation
Indices: 69643--69694 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
69633 ATTTTATCTC
* *
69643 GAATTAATAA-AATTTTAATATAAAAT
1 GAATTAATAATAATTTAAAAATAAAAT
*
69669 GAATTTATAATAATTTAAAAATAAAA
1 GAATTAATAATAATTTAAAAATAAAA
69695 AAAATCAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
GAATTAATAATAATTTAAAAATAAAAT
Found at i:73445 original size:14 final size:14
Alignment explanation
Indices: 73391--73449 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
73381 GATTATGTTA
* **
73391 AACATAAATGAATA
1 AACATAAACGAACG
* *
73405 AACATAACCAAACG
1 AACATAAACGAACG
73419 AACATAAACGAACG
1 AACATAAACGAACG
*
73433 AACATAAATGAACG
1 AACATAAACGAACG
73447 AAC
1 AAC
73450 GAGACTTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.59, C:0.19, G:0.10, T:0.12
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:76633 original size:23 final size:23
Alignment explanation
Indices: 76603--76660 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
76593 CGAAGGACTG
76603 CGTAGAATTGCATCTAAGTGCCA
1 CGTAGAATTGCATCTAAGTGCCA
76626 CGTAGAATTGCATCTAAGTGCCA
1 CGTAGAATTGCATCTAAGTGCCA
76649 CGTAGAATTGCA
1 CGTAGAATTGCA
76661 CCGTAGTGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (23 bp):
CGTAGAATTGCATCTAAGTGCCA
Found at i:76668 original size:23 final size:23
Alignment explanation
Indices: 76563--76668 Score: 85
Period size: 23 Copynumber: 4.6 Consensus size: 23
76553 TCGCATAAAT
*
76563 TTGCACCGAAGTGCCACGTAGAA
1 TTGCACCGTAGTGCCACGTAGAA
* **
76586 TTTGTC-CCGAAG-GACTGCGTAGAA
1 -TTG-CACCGTAGTG-CCACGTAGAA
*
76610 TTGCATC-TAAGTGCCACGTAGAA
1 TTGCACCGT-AGTGCCACGTAGAA
*
76633 TTGCATC-TAAGTGCCACGTAGAA
1 TTGCACCGT-AGTGCCACGTAGAA
76656 TTGCACCGTAGTG
1 TTGCACCGTAGTG
76669 TCATATAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
22 1 0.01
23 48 0.70
24 19 0.28
25 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (23 bp):
TTGCACCGTAGTGCCACGTAGAA
Found at i:76937 original size:30 final size:30
Alignment explanation
Indices: 76901--76963 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
76891 TCATATCGCG
*
76901 TAGACATATTATTTCCATACCTTTATCACA
1 TAGACATATCATTTCCATACCTTTATCACA
76931 TAGACATATCATTTCCATACCTTTATCACA
1 TAGACATATCATTTCCATACCTTTATCACA
76961 TAG
1 TAG
76964 CTCATATAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (30 bp):
TAGACATATCATTTCCATACCTTTATCACA
Found at i:84603 original size:16 final size:18
Alignment explanation
Indices: 84582--84616 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
84572 TCCTCTTTTT
84582 TTATTTTT-TTAT-TATA
1 TTATTTTTATTATATATA
84598 TTATTTTTATTATATATA
1 TTATTTTTATTATATATA
84616 T
1 T
84617 CTTATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTTTTATTATATATA
Found at i:84604 original size:14 final size:13
Alignment explanation
Indices: 84583--84612 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
84573 CCTCTTTTTT
84583 TATTTTTTTATTA
1 TATTTTTTTATTA
84596 TATTATTTTTATTA
1 TATT-TTTTTATTA
84610 TAT
1 TAT
84613 ATATCTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TATTTTTTTATTA
Found at i:85020 original size:25 final size:25
Alignment explanation
Indices: 84992--85057 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
84982 TTATTCATTT
84992 TGTTTTTTTTATTATTATTTTTACG
1 TGTTTTTTTTATTATTATTTTTACG
* * * *
85017 TG-TTTTGTTATTTTCTATTTTTTCT
1 TGTTTTTTTTATTAT-TATTTTTACG
*
85042 TGTTTTATTTATTATT
1 TGTTTTTTTTATTATT
85058 CTCACGTTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
24 10 0.31
25 13 0.41
26 9 0.28
ACGTcount: A:0.14, C:0.05, G:0.08, T:0.74
Consensus pattern (25 bp):
TGTTTTTTTTATTATTATTTTTACG
Found at i:88047 original size:14 final size:14
Alignment explanation
Indices: 88023--88063 Score: 66
Period size: 13 Copynumber: 2.9 Consensus size: 14
88013 AAAATGAGAA
88023 AAAAGAGAAAAAAAT
1 AAAA-AGAAAAAAAT
88038 AAAAAG-AAAAAAT
1 AAAAAGAAAAAAAT
88051 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
88064 CAAAGGAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.52
14 8 0.32
15 4 0.16
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (14 bp):
AAAAAGAAAAAAAT
Found at i:89789 original size:37 final size:38
Alignment explanation
Indices: 89734--89808 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
89724 GAAGATTTTA
* * *
89734 TCTCGCTTGAGATAGTTTCCCTTGAAACA-AAATATTG
1 TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
*
89771 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTG
1 TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
89809 AAAACATTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
37 26 0.79
38 7 0.21
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (38 bp):
TCTCCCTTGAGACAGTTTCCCTTGAAACATAAACATTG
Found at i:89873 original size:37 final size:37
Alignment explanation
Indices: 89815--89901 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
89805 ATTGAAAACA
* * *
89815 TTTCCCTTTAAAC-GAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
89851 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
*
89888 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
89902 TAAACATTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 12 0.26
37 34 0.74
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
Found at i:89904 original size:102 final size:102
Alignment explanation
Indices: 89728--90104 Score: 481
Period size: 102 Copynumber: 3.7 Consensus size: 102
89718 TAAAAAGAAG
* * *
89728 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTATCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
*
89793 TGAAACATAAACATTGAAAACATTTCCCTTTAAACGA
66 TGAAACATAAACATTGAAAACATTTCCCTTTAAACAA
*
89830 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
1 ATTTTATCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
* * *
89895 TGAAACATAAACATTGAAATCATTTCCCTTGAAATAA
66 TGAAACATAAACATTGAAAACATTTCCCTTTAAACAA
* * *
89932 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTGCCCT
1 ATTTTATCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
** * ** **
89996 TGAAACA-AATTATTTGAATATGTTT-TATTTGAAACAA
66 TGAAACATAAACA-TTGAAAACATTTCCCTTT-AAACAA
* * * ** * * *
90033 ATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCT
1 ATTTTATCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
90098 TGAAACA
66 TGAAACA
90105 AATTTCGTCT
Statistics
Matches: 242, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
100 5 0.02
101 75 0.31
102 162 0.67
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (102 bp):
ATTTTATCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTTAAACAA
Found at i:89946 original size:21 final size:21
Alignment explanation
Indices: 89922--89983 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
89912 AATCATTTCC
89922 CTTGAAATAAATTTTGTCTCT
1 CTTGAAATAAATTTTGTCTCT
* *
89943 CTTGAGAT--A-GTT-TC-C-
1 CTTGAAATAAATTTTGTCTCT
*
89958 CTTGAAACAAATTTTGTCTCT
1 CTTGAAATAAATTTTGTCTCT
89979 CTTGA
1 CTTGA
89984 GACAGTTGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
15 6 0.20
16 1 0.03
17 3 0.10
18 4 0.13
19 3 0.10
20 1 0.03
21 12 0.40
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (21 bp):
CTTGAAATAAATTTTGTCTCT
Found at i:89964 original size:36 final size:36
Alignment explanation
Indices: 89917--90149 Score: 221
Period size: 36 Copynumber: 6.6 Consensus size: 36
89907 ATTGAAATCA
* *
89917 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
89953 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
89989 TTGCCCTTGAAACAAA-----T-TAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA-G
*** ** *
90018 TTTTATTTGAAACAAATTTCATCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
** * *
90054 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* *
90091 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
90127 TTTCCCTTGAAACCAAATCTTTG
1 TTTCCCTTGAAA-CAAAT-TTTG
90150 AATTTATTTC
Statistics
Matches: 160, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
28 2 0.01
29 17 0.11
30 2 0.01
31 1 0.01
34 1 0.01
35 1 0.01
36 96 0.60
37 37 0.23
38 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:90000 original size:203 final size:204
Alignment explanation
Indices: 89728--90104 Score: 508
Period size: 203 Copynumber: 1.9 Consensus size: 204
89718 TAAAAAGAAG
* *
89728 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTGCCCT
* * ** * *
89793 TGAAACATAAACA-TTGAAAACATTTCCCTTT-AAACGAATTTTGTCTCTCTTGAGATAGTTTCC
66 TGAAACA-AAACATTTGAAAACATTT-CATTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCC
89856 CTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAATCATTTC
129 CTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAATCATTTC
89921 CCTTGAAATAA
194 CCTTGAAATAA
* * * *
89932 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTGCCCT
1 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTGCCCT
** * ** * **
89996 TGAAACAAATTATTTGAATATGTTTTATTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTTT
66 TGAAACAAAACATTTGAAAACATTTCATTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCCCT
* * *
90061 TGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
131 TGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
90105 AATTTCGTCT
Statistics
Matches: 148, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
202 6 0.04
203 110 0.74
204 32 0.22
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (204 bp):
ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTGCCCT
TGAAACAAAACATTTGAAAACATTTCATTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCCCT
TGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAATCATTTCCC
TTGAAATAA
Found at i:90075 original size:138 final size:138
Alignment explanation
Indices: 89933--90194 Score: 382
Period size: 138 Copynumber: 1.9 Consensus size: 138
89923 TTGAAATAAA
* *
89933 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTGCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTGCCCTTG
* * ** *
89998 AAA-CAAATTATTTGAATATGTTTTATTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTT
66 AAACCAAA-TATTTGAATATATTTCACCTAAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTT
90062 GGAACTAAG
130 GGAACTAAG
* *
90071 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTGCCCTTG
* * * **
90136 AAACCAAATCTTTGAATTTATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTT
66 AAACCAAATATTTGAATATATTTCACCTAAAACAAATTTCATCTCCCTTGAGACAGTTT
90195 ATCTTGAAAC
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
138 105 0.96
139 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (138 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTGCCCTTG
AAACCAAATATTTGAATATATTTCACCTAAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTG
GAACTAAG
Found at i:91124 original size:110 final size:107
Alignment explanation
Indices: 90926--91183 Score: 315
Period size: 110 Copynumber: 2.4 Consensus size: 107
90916 GCTTCCTAGT
* * *
90926 TTCAGAGCCAATTTCAACTTCACAGC-AAGGGATATTGGACTCAAGACAACACAAGTTCAACTTC
1 TTCAGAGCCAATTTCAACTTCACAACGAA-GGATATTGGACTCGAGACAACACAAGCTCAACTTC
* * *
90990 ACAACGAAGGGGAGACTGATTGTCAACAAACAACTTTTCAGTTTC
65 ACAACGAAGGGGAGACTGACTGTCAACAAACAA-TTTCCA-ATTC
* * *
91035 ATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCGAGACAACACGAGCTCAACTTC
1 -TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTC
** * * *
91100 ACAGTGAAGGGGCGGCTGGCTGTCAACAAACAATTTCCAATTC
65 ACAACGAAGGGGAGACTGACTGTCAACAAACAATTTCCAATTC
* *
91143 --CAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACTCG
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCG
91184 GAACAATACT
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
105 37 0.29
108 3 0.02
109 5 0.04
110 82 0.64
111 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (107 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCA
CAACGAAGGGGAGACTGACTGTCAACAAACAATTTCCAATTC
Found at i:92538 original size:23 final size:23
Alignment explanation
Indices: 92484--92570 Score: 61
Period size: 23 Copynumber: 3.7 Consensus size: 23
92474 TAATTTTACT
* *
92484 TTTATATTAATTTTATCTCCTATATA
1 TTTAT-TTAATTATAT-T-CTATTTA
*
92510 TATATTTAATTATATT-TAATTTA
1 TTTATTTAATTATATTCT-ATTTA
* *
92533 TTTATTT-ACTATATTCCTCTTTA
1 TTTATTTAATTATATT-CTATTTA
*
92556 TTTATTTATTTATAT
1 TTTATTTAATTATAT
92571 ATATTTTTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 8 0.16
23 21 0.43
24 7 0.14
25 9 0.18
26 4 0.08
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTATTTAATTATATTCTATTTA
Found at i:92573 original size:2 final size:2
Alignment explanation
Indices: 92566--92611 Score: 58
Period size: 2 Copynumber: 23.0 Consensus size: 2
92556 TTTATTTATT
* *
92566 TA TA TA TA T- TT TT TA TA TA TA TA TA TA TCA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
92608 TA TA
1 TA TA
92612 GATGTATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
1 1 0.02
2 38 0.93
3 2 0.05
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:92582 original size:13 final size:14
Alignment explanation
Indices: 92506--92602 Score: 65
Period size: 15 Copynumber: 6.6 Consensus size: 14
92496 TTATCTCCTA
*
92506 TATATATATTTAAT
1 TATATATATTTATT
*
92520 TATATTTAATTTATT
1 TATATAT-ATTTATT
*
92535 TATTTACTATATTCCTCTT
1 TA--TA-TATATT--TATT
92554 TAT-T-TATTTATT
1 TATATATATTTATT
92566 TATATATATTT-TT
1 TATATATATTTATT
*
92579 TATATATATATATAT
1 TATATATATTTAT-T
*
92594 CATATATAT
1 TATATATAT
92603 ATATATATAG
Statistics
Matches: 66, Mismatches: 7, Indels: 19
0.72 0.08 0.21
Matches are distributed among these distances:
12 6 0.09
13 13 0.20
14 16 0.24
15 18 0.27
17 6 0.09
18 2 0.03
19 5 0.08
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATATATTTATT
Found at i:92586 original size:15 final size:15
Alignment explanation
Indices: 92566--92608 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
92556 TTTATTTATT
* * *
92566 TATATATATTTTTTA
1 TATATATATATATCA
92581 TATATATATATATCA
1 TATATATATATATCA
92596 TATATATATATAT
1 TATATATATATAT
92609 ATAGATGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATATATATATCA
Found at i:92586 original size:17 final size:17
Alignment explanation
Indices: 92554--92608 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
92544 TATTCCTCTT
*
92554 TATTTATTTATTTATATA
1 TATTT-TTTATATATATA
92572 TATTTTTTATATATATA
1 TATTTTTTATATATATA
* **
92589 TATATCATATATATATA
1 TATTTTTTATATATATA
92606 TAT
1 TAT
92609 ATAGATGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
17 28 0.85
18 5 0.15
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTTTATATATATA
Found at i:92707 original size:21 final size:24
Alignment explanation
Indices: 92683--92733 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 24
92673 TTTTTATATA
92683 TATTTTCTTA-ATAT-TATA-TTT
1 TATTTTCTTATATATATATATTTT
* *
92704 TATTTTTTTATTTATATATATTTT
1 TATTTTCTTATATATATATATTTT
92728 TATTTT
1 TATTTT
92734 ATTTTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.36
22 3 0.12
23 4 0.16
24 9 0.36
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (24 bp):
TATTTTCTTATATATATATATTTT
Found at i:92714 original size:8 final size:8
Alignment explanation
Indices: 92701--92751 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
92691 TAATATTATA
92701 TTTTATTT
1 TTTTATTT
92709 TTTTATTT
1 TTTTATTT
* * *
92717 ATATATAT
1 TTTTATTT
92725 TTTTATTT
1 TTTTATTT
92733 TATTT-TTT
1 T-TTTATTT
*
92741 TTCTATTT
1 TTTTATTT
92749 TTT
1 TTT
92752 AATATCATGT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
7 2 0.06
8 28 0.85
9 3 0.09
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTATTT
Found at i:92722 original size:37 final size:35
Alignment explanation
Indices: 92641--92720 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
92631 ATTTGCTATG
*
92641 TATATATTTTTTTCTTAATATTATTTTATATGTTTT
1 TATATA-TATTTTCTTAATATTATTTTATATGTTTT
*
92677 TATATATATTTTCTTAATATTATATTT-TATTTTTT
1 TATATATATTTTCTTAATATTAT-TTTATATGTTTT
*
92712 TATTTATAT
1 TATATATAT
92721 ATATTTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 31 0.77
36 9 0.22
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.69
Consensus pattern (35 bp):
TATATATATTTTCTTAATATTATTTTATATGTTTT
Found at i:92747 original size:16 final size:15
Alignment explanation
Indices: 92704--92749 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
92694 TATTATATTT
92704 TATTTTTTTATTTATA
1 TATTTTTTTATTT-TA
*
92720 TATATTTTTATTTTA
1 TATTTTTTTATTTTA
*
92735 TTTTTTTTCTATTTT
1 TATTTTTT-TATTTT
92750 TTAATATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (15 bp):
TATTTTTTTATTTTA
Found at i:92963 original size:17 final size:19
Alignment explanation
Indices: 92927--92963 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
92917 TTTTTTAACA
*
92927 TTTTATTCATTTTGTTTAT
1 TTTTATTCATTATGTTTAT
92946 TTTTATT-ATTAT-TTTAT
1 TTTTATTCATTATGTTTAT
92963 T
1 T
92964 ATTTTTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 4 0.24
19 7 0.41
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTATTCATTATGTTTAT
Found at i:95149 original size:7 final size:7
Alignment explanation
Indices: 95137--95162 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
95127 ACTAATTTTC
95137 ATTTCCT
1 ATTTCCT
95144 ATTTCCT
1 ATTTCCT
95151 ATTTCCT
1 ATTTCCT
95158 ATTTC
1 ATTTC
95163 GTCTCTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTCCT
Found at i:97020 original size:20 final size:18
Alignment explanation
Indices: 96982--97020 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
96972 TTTTAATTAA
*
96982 TTAAAAAAATACTATATT
1 TTAAAAAAATACAATATT
97000 TTAAAATAAATATCAATATT
1 TTAAAA-AAATA-CAATATT
97020 T
1 T
97021 GAAATTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAAAAAAATACAATATT
Done.