Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008511.1 Hibiscus syriacus cultivar Beakdansim tig00111366_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: 2221980
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 4 of 9
Found at i:733589 original size:29 final size:28
Alignment explanation
Indices: 733507--733591 Score: 89
Period size: 29 Copynumber: 3.0 Consensus size: 28
733497 TCTAAATTAA
*
733507 TTTAAATATTATAATTTTATTTTTAAAT
1 TTTAAATATTTTAATTTTATTTTTAAAT
* * * * *
733535 TATAAATTATTTTAAATTGATCTTTAATCT
1 TTTAAA-TATTTTAATTTTATTTTTAA-AT
*
733565 TTTAAATCTTTTAATTTTATTTTTAAA
1 TTTAAATATTTTAATTTTATTTTTAAA
733592 ATATTACTCT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
28 5 0.12
29 32 0.74
30 6 0.14
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (28 bp):
TTTAAATATTTTAATTTTATTTTTAAAT
Found at i:745470 original size:2 final size:2
Alignment explanation
Indices: 745463--745501 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
745453 TCCGAACAAA
745463 AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
745502 TGCATAGTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:748590 original size:18 final size:18
Alignment explanation
Indices: 748549--748595 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
748539 TTTCATCATT
*
748549 TTTTAAACTT-AAAATTTA
1 TTTTAAA-TTAAAAATATA
748567 TATTTAAATTAAAAATATA
1 T-TTTAAATTAAAAATATA
*
748586 TTTTATATTA
1 TTTTAAATTA
748596 TTTGATCTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAATTAAAAATATA
Found at i:749233 original size:18 final size:18
Alignment explanation
Indices: 749207--749241 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
749197 GCAAGGGAGG
* *
749207 TAAGGTTAGGGTTAGGGT
1 TAAGATTAGGATTAGGGT
749225 TAAGATTAGGATTAGGG
1 TAAGATTAGGATTAGGG
749242 ATTTGAGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.40, T:0.31
Consensus pattern (18 bp):
TAAGATTAGGATTAGGGT
Found at i:753411 original size:25 final size:26
Alignment explanation
Indices: 753376--753435 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
753366 ACTTGATGTC
753376 ACATGAAATA-TTTATTATTAGTTTG
1 ACATGAAATATTTTATTATTAGTTTG
* *
753401 GCATGAAATATTTTATTGTTAGTTTG
1 ACATGAAATATTTTATTATTAGTTTG
753427 ACATTGAAA
1 ACA-TGAAA
753436 AAAAATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 9 0.30
26 16 0.53
27 5 0.17
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (26 bp):
ACATGAAATATTTTATTATTAGTTTG
Found at i:757238 original size:21 final size:21
Alignment explanation
Indices: 757196--757238 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
757186 ATGTCTTGCA
* * *
757196 AAAGTATCGAGGCTGTGTGAT
1 AAAGTATAGAGGCTATGAGAT
757217 AAAGTATAGAGGCTATGAGAT
1 AAAGTATAGAGGCTATGAGAT
757238 A
1 A
757239 CTGTAGTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.30, T:0.26
Consensus pattern (21 bp):
AAAGTATAGAGGCTATGAGAT
Found at i:757425 original size:118 final size:118
Alignment explanation
Indices: 757244--757711 Score: 526
Period size: 118 Copynumber: 4.0 Consensus size: 118
757234 AGATACTGTA
* * ** * * * * *
757244 GTTGCAGTGACCAAACTTGGTGTTATTCGATTCACATCATGGGCATTTTCTGTTTCAGGGCATGT
1 GTTGTAGTAACCAAACTTGGTGTTGCTCGATTCACATCTTGGGCATTTGCTGCTTCCGGACATGT
* * * * *
757309 TTAGGTTGGCCAACCCCGGGGATAAAGTATCGA-AGTTGTGTGAGACTGTAGTT
66 GTATGTTGGCCAACCCCGGCGATAAACTATCGAGA-CTGTGTGAGACTGTAGTT
* * *
757362 GTTGTAGTAACCAAACTCGGTGTTGCTCGATTAACATCTTGGTCATTTGCTGCTTCCGTG-CATG
1 GTTGTAGTAACCAAACTTGGTGTTGCTCGATTCACATCTTGGGCATTTGCTGCTTCCG-GACATG
* * * *
757426 TGTATGTTGGCCAATCCC-G-G------TATCAAGGCTGAGTGAGACTGTAGTT
65 TGTATGTTGGCCAACCCCGGCGATAAACTATCGAGACTGTGTGAGACTGTAGTT
* * *
757472 GTTTTAGTAACCGAACTTGGTGTTGCTCGATTCACATCTTGAGCATTTGCTGCTTCCGGACATGT
1 GTTGTAGTAACCAAACTTGGTGTTGCTCGATTCACATCTTGGGCATTTGCTGCTTCCGGACATGT
* * *
757537 GTAAGTTGGGCAGCCCCGGCGATAAACTATCGAGA-TCGTGTGAGACTGTAGTT
66 GTATGTTGGCCAACCCCGGCGATAAACTATCGAGACT-GTGTGAGACTGTAGTT
* *
757590 GTTGTAGTAACCCAACTTGATGTTGCTCGATTCACATCTTGGGCATTTGCTGCTTCCGGACATGT
1 GTTGTAGTAACCAAACTTGGTGTTGCTCGATTCACATCTTGGGCATTTGCTGCTTCCGGACATGT
* * ** *
757655 TTATGTTGGGCAGTCCCGGCGATAAACTATCGAGACTGTGTGAGACTTTAGTT
66 GTATGTTGGCCAACCCCGGCGATAAACTATCGAGACTGTGTGAGACTGTAGTT
757708 GTTG
1 GTTG
757712 ATGTAACTTG
Statistics
Matches: 298, Mismatches: 39, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
109 1 0.00
110 91 0.31
111 1 0.00
112 1 0.00
116 1 0.00
117 2 0.01
118 199 0.67
119 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (118 bp):
GTTGTAGTAACCAAACTTGGTGTTGCTCGATTCACATCTTGGGCATTTGCTGCTTCCGGACATGT
GTATGTTGGCCAACCCCGGCGATAAACTATCGAGACTGTGTGAGACTGTAGTT
Found at i:757662 original size:228 final size:228
Alignment explanation
Indices: 757257--757673 Score: 595
Period size: 228 Copynumber: 1.8 Consensus size: 228
757247 GCAGTGACCA
* * * * * * *
757257 AACTTGGTGTTATTCGATTCACATCATGGGCATTTTCTGTTTCAGGGCATGTTTAGGTTGGCCAA
1 AACTTGGTGTTACTCGATTCACATCATGAGCATTTGCTGCTTCAGGACATGTGTAAGTTGGCCAA
* * * *
757322 CCCCGGGGATAAAGTATCGAAGTTGTGTGAGACTGTAGTTGTTGTAGTAACCAAACTCGGTGTTG
66 CCCCGGCGATAAACTATCGAAGTCGTGTGAGACTGTAGTTGTTGTAGTAACCAAACTCGATGTTG
*
757387 CTCGATTAACATCTTGGTCATTTGCTGCTTCCGTGCATGTGTATGTTGGCCAATCCCGGTATCAA
131 CTCGATTAACATCTTGGGCATTTGCTGCTTCCGTGCATGTGTATGTTGGCCAATCCCGGTATCAA
757452 GGCTGAGTGAGACTGTAGTTGTTTTAGTAACCG
196 GGCTGAGTGAGACTGTAGTTGTTTTAGTAACCG
* * * * *
757485 AACTTGGTGTTGCTCGATTCACATCTTGAGCATTTGCTGCTTCCGGACATGTGTAAGTTGGGCAG
1 AACTTGGTGTTACTCGATTCACATCATGAGCATTTGCTGCTTCAGGACATGTGTAAGTTGGCCAA
* *
757550 CCCCGGCGATAAACTATCG-AGATCGTGTGAGACTGTAGTTGTTGTAGTAACCCAACTTGATGTT
66 CCCCGGCGATAAACTATCGAAG-TCGTGTGAGACTGTAGTTGTTGTAGTAACCAAACTCGATGTT
* * * *
757614 GCTCGATTCACATCTTGGGCATTTGCTGCTTCCG-GACATGTTTATGTTGGGCAGTCCCGG
130 GCTCGATTAACATCTTGGGCATTTGCTGCTTCCGTG-CATGTGTATGTTGGCCAATCCCGG
757674 CGATAAACTA
Statistics
Matches: 164, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
227 3 0.02
228 161 0.98
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (228 bp):
AACTTGGTGTTACTCGATTCACATCATGAGCATTTGCTGCTTCAGGACATGTGTAAGTTGGCCAA
CCCCGGCGATAAACTATCGAAGTCGTGTGAGACTGTAGTTGTTGTAGTAACCAAACTCGATGTTG
CTCGATTAACATCTTGGGCATTTGCTGCTTCCGTGCATGTGTATGTTGGCCAATCCCGGTATCAA
GGCTGAGTGAGACTGTAGTTGTTTTAGTAACCG
Found at i:759814 original size:21 final size:21
Alignment explanation
Indices: 759772--759814 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
759762 TAATATTATA
**
759772 AATTGTCATGTAAGTTTCGTG
1 AATTGTCATGTAAGGGTCGTG
759793 AATTGTCATGTAAGCGGT-GTG
1 AATTGTCATGTAAG-GGTCGTG
759814 A
1 A
759815 CCGTCAACGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (21 bp):
AATTGTCATGTAAGGGTCGTG
Found at i:760287 original size:26 final size:27
Alignment explanation
Indices: 760230--760289 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
760220 AACAATTTTT
* **
760230 TTATTTTCAAAAAATTAAAATTAAAAA
1 TTATTTTCAAAAAACTAAAAACAAAAA
760257 TTATTTTC-AAAAACTAAAAACAGAAAA
1 TTATTTTCAAAAAACTAAAAACA-AAAA
760284 -TATTTT
1 TTATTTT
760290 TTAGAACTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.37
Consensus pattern (27 bp):
TTATTTTCAAAAAACTAAAAACAAAAA
Found at i:765826 original size:52 final size:50
Alignment explanation
Indices: 765765--765912 Score: 233
Period size: 50 Copynumber: 2.9 Consensus size: 50
765755 GGACACATAG
* *
765765 AAATGGGAAACTAGCCTAGAGTTAGTGGATTACAACTAATTACAAGGCACAT
1 AAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG--CAT
765817 AAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGCAT
1 AAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGCAT
* * *
765867 AAATAAGAGACTAGCCTAGAGTTAGGGGATTACAACTAATCACAAG
1 AAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
765913 AATATTATAA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 46 0.51
52 45 0.49
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.22
Consensus pattern (50 bp):
AAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGGCAT
Found at i:773516 original size:29 final size:29
Alignment explanation
Indices: 773484--773539 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
773474 GTTTAATCGG
*
773484 TTTCTAATTTGTATCTTGTATTTATTTGT
1 TTTCTAATTTGCATCTTGTATTTATTTGT
*
773513 TTTCTAATTTGCATGTTGTATTTATTT
1 TTTCTAATTTGCATCTTGTATTTATTT
773540 CAGTCTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.64
Consensus pattern (29 bp):
TTTCTAATTTGCATCTTGTATTTATTTGT
Found at i:774786 original size:20 final size:20
Alignment explanation
Indices: 774761--774798 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
774751 CTATACGAGT
774761 TTGTTTTATTTATCTTTTGA
1 TTGTTTTATTTATCTTTTGA
774781 TTGTTTTATTTATCTTTT
1 TTGTTTTATTTATCTTTT
774799 AAATGTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (20 bp):
TTGTTTTATTTATCTTTTGA
Found at i:778912 original size:65 final size:65
Alignment explanation
Indices: 778808--778946 Score: 269
Period size: 65 Copynumber: 2.1 Consensus size: 65
778798 CAATAATCTG
*
778808 GAGCATTGTGGAACAGTAAAATAGTATTAGTCTTTTCTAAGGCCACCTTCATTTGCCCTAGTTTA
1 GAGCATGGTGGAACAGTAAAATAGTATTAGTCTTTTCTAAGGCCACCTTCATTTGCCCTAGTTTA
778873 GAGCATGGTGGAACAGTAAAATAGTATTAGTCTTTTCTAAGGCCACCTTCATTTGCCCTAGTTTA
1 GAGCATGGTGGAACAGTAAAATAGTATTAGTCTTTTCTAAGGCCACCTTCATTTGCCCTAGTTTA
778938 GAGCATGGT
1 GAGCATGGT
778947 TGACCAATCA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 73 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (65 bp):
GAGCATGGTGGAACAGTAAAATAGTATTAGTCTTTTCTAAGGCCACCTTCATTTGCCCTAGTTTA
Found at i:780531 original size:2 final size:2
Alignment explanation
Indices: 780524--780561 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
780514 ATGCATGCAG
780524 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
780562 GCACTTACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:793283 original size:5 final size:5
Alignment explanation
Indices: 793273--793300 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
793263 CATGCATGAA
793273 CATAT CATAT CATAT CATAT CATAT CAT
1 CATAT CATAT CATAT CATAT CATAT CAT
793301 GATATCACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
CATAT
Found at i:793704 original size:18 final size:18
Alignment explanation
Indices: 793678--793759 Score: 74
Period size: 18 Copynumber: 4.3 Consensus size: 18
793668 TTTGTCTCGT
793678 AGGACCACTATATCCCGA
1 AGGACCACTATATCCCGA
*
793696 AGAACCACTGTATATGTCCCGA
1 AGGACCAC--TATA--TCCCGA
* **
793718 AGGACCACAACGTCCCGA
1 AGGACCACTATATCCCGA
* *
793736 AGGACCACTGTGTCCCGA
1 AGGACCACTATATCCCGA
793754 AGGACC
1 AGGACC
793760 GCGTAGACCC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
18 34 0.65
20 5 0.10
22 13 0.25
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (18 bp):
AGGACCACTATATCCCGA
Found at i:793952 original size:14 final size:15
Alignment explanation
Indices: 793933--793965 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
793923 ACTTTCTCTT
*
793933 TCATATATCTCATG-
1 TCATATATCACATGA
793947 TCATATATCACATGA
1 TCATATATCACATGA
793962 TCAT
1 TCAT
793966 GTAGTTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.39
Consensus pattern (15 bp):
TCATATATCACATGA
Found at i:797815 original size:18 final size:18
Alignment explanation
Indices: 797786--797893 Score: 117
Period size: 18 Copynumber: 5.8 Consensus size: 18
797776 GCGTAGAATT
*
797786 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
797804 TATCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCAC----TA
*
797826 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
**
797844 TGTCCAAAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
797862 TGTCCCAAAGGACCACTG
1 TGTCCCGAAGGACCACTA
797880 TGTCCCGAAGGACC
1 TGTCCCGAAGGACC
797894 GCGTAGACCC
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
18 60 0.79
22 16 0.21
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:798095 original size:14 final size:15
Alignment explanation
Indices: 798076--798108 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
798066 ACTTTCTATT
*
798076 TCATATATCTCATG-
1 TCATATATCACATGA
798090 TCATATATCACATGA
1 TCATATATCACATGA
798105 TCAT
1 TCAT
798109 GTAGTTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.39
Consensus pattern (15 bp):
TCATATATCACATGA
Found at i:799228 original size:21 final size:21
Alignment explanation
Indices: 799202--799257 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
799192 TCTTACTGTT
* *
799202 TTAAGCTTATATAAGTTTTCC
1 TTAAGCTTATATAAGCTTCCC
799223 TTAAGCTTATATAAGCTTCCC
1 TTAAGCTTATATAAGCTTCCC
799244 TTAAGCTTATATAA
1 TTAAGCTTATATAA
799258 CACTCAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (21 bp):
TTAAGCTTATATAAGCTTCCC
Found at i:802013 original size:22 final size:22
Alignment explanation
Indices: 801985--802027 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
801975 GTAGGACTAC
*
801985 TATGTCCCGAATGACCACTGTA
1 TATGTCCCGAAGGACCACTGTA
802007 TATGTCCCGAAGGACCACTGT
1 TATGTCCCGAAGGACCACTGT
802028 GTCCCGAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (22 bp):
TATGTCCCGAAGGACCACTGTA
Found at i:802032 original size:18 final size:18
Alignment explanation
Indices: 801977--802040 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 18
801967 TTTGTGCCGT
* *
801977 AGGACTACTATGTCCCGA
1 AGGACCACTGTGTCCCGA
*
801995 ATGACCACTGTATATGTCCCGA
1 AGGACCACTG----TGTCCCGA
802017 AGGACCACTGTGTCCCGA
1 AGGACCACTGTGTCCCGA
802035 AGGACC
1 AGGACC
802041 GCATAGACCC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 21 0.55
22 17 0.45
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (18 bp):
AGGACCACTGTGTCCCGA
Found at i:804663 original size:13 final size:13
Alignment explanation
Indices: 804616--804665 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
804606 TTTATTTATC
*
804616 ATATATTA-AAAA
1 ATATATTATAAAT
*
804628 ATTATATTATTAAT
1 A-TATATTATAAAT
804642 ATATA-TATAAAT
1 ATATATTATAAAT
804654 ATATATTATAAA
1 ATATATTATAAA
804666 AAATATTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 12 0.38
13 17 0.53
14 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATTATAAAT
Found at i:807612 original size:33 final size:33
Alignment explanation
Indices: 807575--807640 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
807565 CATCTTAATA
*
807575 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
807608 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
807641 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:807699 original size:21 final size:21
Alignment explanation
Indices: 807674--807738 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
807664 CCCCTTATGC
* *
807674 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
807695 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
807716 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
807737 CT
1 CT
807739 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:810010 original size:20 final size:19
Alignment explanation
Indices: 809955--810001 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
809945 TCTGGTATCA
809955 TTTTACCAGTTTTATCATT
1 TTTTACCAGTTTTATCATT
* *
809974 TTGATACCGGTTTTATCATAT
1 TT-TTACCAGTTTTATCAT-T
809995 TTTTACC
1 TTTTACC
810002 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCAGTTTTATCATT
Found at i:810162 original size:20 final size:20
Alignment explanation
Indices: 810135--810181 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
810125 TCCGGTAACG
810135 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
810154 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
810175 TTTTACC
1 TTTTACC
810182 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:810372 original size:181 final size:180
Alignment explanation
Indices: 809922--810392 Score: 649
Period size: 180 Copynumber: 2.6 Consensus size: 180
809912 CATACTTATG
* * * ** *
809922 AAAGTATCGACACTTTCAATATATCTGGTATCATTTTACCAGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGCTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
809987 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTAAAGTATCGATACATTATA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCAACACATTATA
* *
810052 GGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 GGAGCTAAAACTGCTACTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* * *
810102 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGCTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
810167 TATCATATTTTTACCTGGTATATCGTTTTGGATCAATACATTTTTTAAAAGTATCAACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCAACACATTAT
** *
810232 AGGATTTAAAACTGCTACTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGAGCTAAAACTGCTACTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * **
810284 AAAGTA-CTGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTT
1 AAAGTATC-GACACTTTAAATATATCCGGTAACGCTTTACCGGTTTTATCATTTTGATACCGGTT
* * *
810348 TT-TCATAGTTTTACATGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
810393 AATTTGGATC
Statistics
Matches: 259, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
180 102 0.39
181 99 0.38
182 58 0.22
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGCTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCAACACATTATA
GGAGCTAAAACTGCTACTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:813189 original size:168 final size:168
Alignment explanation
Indices: 812898--813203 Score: 551
Period size: 168 Copynumber: 1.8 Consensus size: 168
812888 TATAAACGAC
812898 AATGATATGTTAGAAGTGTCATATTTTATGACATTTCTTTCTTCATTTTCCATTCTATATATAAT
1 AATGATATGTTAGAAGTGTCATATTTTATGACATTTCTTTCTTCATTTTCCATTCTATATATAAT
*
812963 GCTTAAAAATCGGATATTAGGGTGAGAATCTTATTCATTTCTGCCATTACTTAGCTTATATCTAC
66 GCTTAAAAATCGGATATTAGGGTGAGAATCTTATTCATTTATGCCATTACTTAGCTTATATCTAC
813028 ACCCTTTTACTTAGCTTATTCATTTCCATTCTATATAT
131 ACCCTTTTACTTAGCTTATTCATTTCCATTCTATATAT
*
813066 AATGATTTGTT-GAAAGTGTCATATTTTATGACATTTCTTTCTTCATTTTCCATTCTATATATAA
1 AATGATATGTTAG-AAGTGTCATATTTTATGACATTTCTTTCTTCATTTTCCATTCTATATATAA
* *
813130 TGCTTAAAAATCGGATATTAGGGTGAGTATCTTATTCATTTATGCCGTTACTTAGCTTATATCTA
65 TGCTTAAAAATCGGATATTAGGGTGAGAATCTTATTCATTTATGCCATTACTTAGCTTATATCTA
*
813195 CGCCCTTTT
130 CACCCTTTT
813204 GGTTTACGTC
Statistics
Matches: 132, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
167 1 0.01
168 131 0.99
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.45
Consensus pattern (168 bp):
AATGATATGTTAGAAGTGTCATATTTTATGACATTTCTTTCTTCATTTTCCATTCTATATATAAT
GCTTAAAAATCGGATATTAGGGTGAGAATCTTATTCATTTATGCCATTACTTAGCTTATATCTAC
ACCCTTTTACTTAGCTTATTCATTTCCATTCTATATAT
Found at i:815419 original size:15 final size:15
Alignment explanation
Indices: 815399--815428 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
815389 AACCTTCAAA
815399 TATGTGTTATTGTAG
1 TATGTGTTATTGTAG
815414 TATGTGTTATTGTAG
1 TATGTGTTATTGTAG
815429 AGTGTTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (15 bp):
TATGTGTTATTGTAG
Found at i:815781 original size:27 final size:27
Alignment explanation
Indices: 815751--815804 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
815741 AAAATTGAAT
*
815751 ACTTTAGGTATCTATTTTGACAAAAAA
1 ACTTTAGGTACCTATTTTGACAAAAAA
* *
815778 ACTTTATGTACCTATTTTGACCAAAAA
1 ACTTTAGGTACCTATTTTGACAAAAAA
815805 GATAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (27 bp):
ACTTTAGGTACCTATTTTGACAAAAAA
Found at i:817342 original size:11 final size:11
Alignment explanation
Indices: 817326--817354 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
817316 ATCTAGGCTT
817326 AAACAAAAACC
1 AAACAAAAACC
817337 AAACAAAAACC
1 AAACAAAAACC
817348 AAACAAA
1 AAACAAA
817355 GAGAACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (11 bp):
AAACAAAAACC
Found at i:821879 original size:42 final size:42
Alignment explanation
Indices: 821832--821957 Score: 243
Period size: 42 Copynumber: 3.0 Consensus size: 42
821822 TAAGCAGGAT
821832 CTTATAAGAACCAAATTTCTGGAAAATGATTGCACAAAGCTC
1 CTTATAAGAACCAAATTTCTGGAAAATGATTGCACAAAGCTC
821874 CTTATAAGAACCAAATTTCTGGAAAATGATTGCACAAAGCTC
1 CTTATAAGAACCAAATTTCTGGAAAATGATTGCACAAAGCTC
*
821916 CTCATAAGAACCAAATTTCTGGAAAATGATTGCACAAAGCTC
1 CTTATAAGAACCAAATTTCTGGAAAATGATTGCACAAAGCTC
821958 AAGCTTACTC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.25
Consensus pattern (42 bp):
CTTATAAGAACCAAATTTCTGGAAAATGATTGCACAAAGCTC
Found at i:829419 original size:60 final size:60
Alignment explanation
Indices: 829330--829448 Score: 238
Period size: 60 Copynumber: 2.0 Consensus size: 60
829320 AGTTTCTTGT
829330 TTGCCACGACATTTACAATTTTACTCCCGCATTGTTTTCTTTTCCTTTTTGCTTTTTTTC
1 TTGCCACGACATTTACAATTTTACTCCCGCATTGTTTTCTTTTCCTTTTTGCTTTTTTTC
829390 TTGCCACGACATTTACAATTTTACTCCCGCATTGTTTTCTTTTCCTTTTTGCTTTTTTT
1 TTGCCACGACATTTACAATTTTACTCCCGCATTGTTTTCTTTTCCTTTTTGCTTTTTTT
829449 TTTTTTTTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.13, C:0.24, G:0.08, T:0.54
Consensus pattern (60 bp):
TTGCCACGACATTTACAATTTTACTCCCGCATTGTTTTCTTTTCCTTTTTGCTTTTTTTC
Found at i:834556 original size:21 final size:21
Alignment explanation
Indices: 834514--834556 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
834504 TTTCTGGGCT
* *
834514 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
834535 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
834556 A
1 A
834557 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:834608 original size:20 final size:20
Alignment explanation
Indices: 834583--834620 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
834573 GAATGCTAGA
*
834583 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
834603 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
834621 TATAAAAAAA
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:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:836286 original size:29 final size:31
Alignment explanation
Indices: 836252--836311 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
836242 AAATTTTGAA
*
836252 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
836281 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
836312 CCTTAAATTT
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:846110 original size:2 final size:2
Alignment explanation
Indices: 846103--846194 Score: 134
Period size: 2 Copynumber: 46.5 Consensus size: 2
846093 AAATAAGTAA
*
846103 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AGT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* *
846145 GT AA AT A- 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
846186 AT AT AT AT A
1 AT AT AT AT A
846195 GCAATGGATA
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
1 2 0.02
2 79 0.96
3 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:855331 original size:13 final size:13
Alignment explanation
Indices: 855313--855341 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
855303 AAAACATGGA
855313 AAACATGAAATAT
1 AAACATGAAATAT
855326 AAACATGAAATAT
1 AAACATGAAATAT
855339 AAA
1 AAA
855342 ATGCAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AAACATGAAATAT
Found at i:857635 original size:21 final size:20
Alignment explanation
Indices: 857591--857635 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
857581 AAAAGTTAGT
*
857591 AAAATAAAAAATGATAAAAT
1 AAAATAAAAAATGATAAAAG
*
857611 AAAATAAATAAATGATGAAAG
1 AAAATAAA-AAATGATAAAAG
857632 AAAA
1 AAAA
857636 AAACGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (20 bp):
AAAATAAAAAATGATAAAAG
Found at i:857638 original size:24 final size:20
Alignment explanation
Indices: 857591--857637 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
857581 AAAAGTTAGT
*
857591 AAAATAAAAAATGATAAAAT
1 AAAATAAAAAATGATAAAAA
857611 AAAATAAATAAATGATGAAAGAA
1 AAAATAAA-AAATGAT-AAA-AA
857634 AAAA
1 AAAA
857638 ACGAAAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 7 0.30
22 3 0.13
23 5 0.22
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (20 bp):
AAAATAAAAAATGATAAAAA
Found at i:858653 original size:13 final size:14
Alignment explanation
Indices: 858637--858670 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
858627 TAAATAGGAT
858637 AAATAAAGG-AAAA
1 AAATAAAGGAAAAA
858650 AAATAAAGGAAAAA
1 AAATAAAGGAAAAA
858664 AAATAAA
1 AAATAAA
858671 AAAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (14 bp):
AAATAAAGGAAAAA
Found at i:858784 original size:25 final size:24
Alignment explanation
Indices: 858751--858798 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
858741 AAAAACAAAC
*
858751 ATAAGAACAAAGAAATGAAAATTAT
1 ATAAAAACAAAGAAAT-AAAATTAT
858776 ATAAAAACAAAGAAATAAAATTA
1 ATAAAAACAAAGAAATAAAATTA
858799 AAACATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.19
Consensus pattern (24 bp):
ATAAAAACAAAGAAATAAAATTAT
Found at i:860124 original size:2 final size:2
Alignment explanation
Indices: 860117--860184 Score: 54
Period size: 2 Copynumber: 35.5 Consensus size: 2
860107 AAATAAGTAA
* * * *
860117 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AGT TT GT AA AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
860159 A- AA AT A- AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
860185 ATAACAATGG
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
1 4 0.08
2 48 0.91
3 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:864091 original size:16 final size:16
Alignment explanation
Indices: 864070--864102 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
864060 ACAATTTCAG
864070 AATGAACATAAAATAA
1 AATGAACATAAAATAA
864086 AATGAACATAAAATAA
1 AATGAACATAAAATAA
864102 A
1 A
864103 TCATTAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (16 bp):
AATGAACATAAAATAA
Found at i:864707 original size:3 final size:3
Alignment explanation
Indices: 864699--864727 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
864689 ATATATGTAT
864699 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
864728 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:866049 original size:13 final size:13
Alignment explanation
Indices: 866031--866060 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
866021 TGAATCGATG
866031 TTTTAAATTTTAA
1 TTTTAAATTTTAA
*
866044 TTTTAATTTTTAA
1 TTTTAAATTTTAA
866057 TTTT
1 TTTT
866061 CGCAATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:869937 original size:106 final size:106
Alignment explanation
Indices: 869742--869937 Score: 347
Period size: 106 Copynumber: 1.8 Consensus size: 106
869732 TCGAGAGTAG
*
869742 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
869807 ACCGCTGGTTGTCATTAAACAACTTCCCAATTTCAGAGCCA
66 ACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
* *
869848 ATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
869913 ACCGCTGGTTGTCAATAAATAACTT
66 ACCGCTGGTTGTCAATAAACAACTT
869938 TCAACTTCAC
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 85 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
Found at i:869995 original size:87 final size:87
Alignment explanation
Indices: 869849--870014 Score: 280
Period size: 87 Copynumber: 1.9 Consensus size: 87
869839 TCAGAGCCAA
* *
869849 TTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGA
1 TTTCAACTTCACAGCGAAAGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
869914 CCGCTGGTTGTCAATAAATAAC
66 CCGCTGGTTGTCAATAAATAAC
* *
869936 TTTCAACTTCAC-GACGGAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 TTTCAACTTCACAG-CGAAAGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
870000 ACCGCTGGTTGTCAA
65 ACCGCTGGTTGTCAA
870015 CAACAACTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
86 1 0.01
87 73 0.99
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (87 bp):
TTTCAACTTCACAGCGAAAGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
CCGCTGGTTGTCAATAAATAAC
Found at i:870089 original size:192 final size:192
Alignment explanation
Indices: 869743--870540 Score: 999
Period size: 210 Copynumber: 4.0 Consensus size: 192
869733 CGAGAGTAGA
*
869743 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
1 TTTCAACTTCACAACGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
869808 CCGCTGGTTGTCATTAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATAT
66 CCGCTGGTTGTCA-TAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATAT
* * *
869873 TGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAAC
130 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTAGTTGTCAATAAATAAC
* *
869936 TTTCAACTTCACGACGGAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
1 TTTCAACTTCACAACGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
*
870001 CCGCTGGTTGTCA-ACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATAT
66 CCGCTGGTTGTCATA-AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATAT
870065 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTAGTTGTCAACAACAACTTC
130 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTAGTTGT------CAA--T-
*
870130 CCAATTTCAGAGCC
186 --AA-AT-A-A--C
* *
870144 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 --TTTCAACTTCACAACGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
870209 GACCGCTGGTTGTCA-ACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG-AAGAA
64 GACCGCTGGTTGTCATA-AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAG-A
* *
870272 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAAC
127 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTAGTTGT------CAA-
*
870337 TTCCCAATTTCAGAGC
185 -T---AA-AT-A-A-C
* * *
870353 TAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 ---TTTCAACTTCACAACGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * *
870418 GGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGA
63 GGACCGCTGGTTGTC-ATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGA
* * *
870483 TATTGGACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
127 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTAGTTGTCAA
870541 CAACAATTTC
Statistics
Matches: 558, Mismatches: 23, Indels: 36
0.90 0.04 0.06
Matches are distributed among these distances:
191 1 0.00
192 97 0.17
193 75 0.13
198 3 0.01
200 1 0.00
203 2 0.00
204 1 0.00
205 4 0.01
206 1 0.00
208 1 0.00
209 3 0.01
210 272 0.49
211 94 0.17
212 3 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (192 bp):
TTTCAACTTCACAACGAAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
CCGCTGGTTGTCATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTAGTTGTCAATAAATAAC
Found at i:870118 original size:105 final size:105
Alignment explanation
Indices: 869936--870702 Score: 1257
Period size: 105 Copynumber: 7.3 Consensus size: 105
869926 AATAAATAAC
* *
869936 TTTCAACTTCAC-GACGGAGGATATTGAACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 TTTCAACTTCACAG-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
870000 ACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
65 ACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
870041 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
1 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
* *
870106 CCACTAGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
66 CCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
870146 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
1 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
870211 CCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
66 CCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
* *
870251 TTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
1 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
*
870316 CCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCTAA
66 CCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
*
870356 TTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
1 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
* * *
870421 CCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGTCAA
66 CCGCTGGTTGTCAA-CAACAACTTCCCAATTTCAGAGCCAA
*
870462 TTTCAACTTCACAGCGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGA
1 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
* *
870527 CCGCTGGTTGTCAACAACAATTTCCCAATCTCAGAGCCAA
66 CCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
* * * * *
870567 TTTCAACTTCACAGCGAAGGATATTGGACTCGAGGCAACACAAGTTCAACTTCACAACGAAGGGG
1 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
* * * * *
870632 CGGCTGGTTGTCAACAAACAATTTCCCAGTTCCAGAGACAA
66 CCGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCCAA
* * *
870673 TTTCAACTTCACGGTGGAGGATATTGGACT
1 TTTCAACTTCACAGCGAAGGATATTGGACT
870703 TGGAACAATA
Statistics
Matches: 624, Mismatches: 35, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
105 476 0.76
106 148 0.24
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (105 bp):
TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
CCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAA
Found at i:871331 original size:86 final size:85
Alignment explanation
Indices: 871176--871341 Score: 226
Period size: 86 Copynumber: 1.9 Consensus size: 85
871166 TCACCAAAAG
* * * * * *
871176 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACCATCATTTGCAGCATAGCTTAAGTCGAGAA
1 ACCTTCGAGTTCGATTACACTCAACTCAAAGGCACAATCATTTACAGCATAACTCAAGGCGAGAA
871241 GGGCTATCTGCCAACCAAAT
66 GGGCTATCTGCCAACCAAAT
* *
871261 ACCTTCGAGTTCGATTACATTCAACTCAGAGGCA-AATCGAATTTACAGCATAACTCAAGGCGAG
1 ACCTTCGAGTTCGATTACACTCAACTCAAAGGCACAATC--ATTTACAGCATAACTCAAGGCGAG
*
871325 AAGGGCTATCTGTCAAC
64 AAGGGCTATCTGCCAAC
871342 AAAAACTGAC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 3 0.04
85 31 0.44
86 36 0.51
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (85 bp):
ACCTTCGAGTTCGATTACACTCAACTCAAAGGCACAATCATTTACAGCATAACTCAAGGCGAGAA
GGGCTATCTGCCAACCAAAT
Found at i:871355 original size:85 final size:85
Alignment explanation
Indices: 871181--871368 Score: 211
Period size: 85 Copynumber: 2.2 Consensus size: 85
871171 AAAAGACCTT
* * * * * * *
871181 CGAGTTCGATTACACTCAGCTCAAAGGCACCATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
1 CGAGTTCGATTACATTCAACTCAAAGGCACAATCATTTACAGCATAACTCAAGGCGAGAAGGGCT
* *
871246 ATCTGCCAACCAAATACCTT
66 ATCTGCCAACCAAATAACTA
*
871266 CGAGTTCGATTACATTCAACTCAGAGGCA-AATCGAATTTACAGCATAACTCAAGGCGAGAAGGG
1 CGAGTTCGATTACATTCAACTCAAAGGCACAATC--ATTTACAGCATAACTCAAGGCGAGAAGGG
*
871330 CTATCTGTCAA-CAAA-AACTGA
64 CTATCTGCCAACCAAATAACT-A
* *
871351 CGAGTTTGATTTCATTCA
1 CGAGTTCGATTACATTCA
871369 GCTCGATAAC
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
84 6 0.07
85 46 0.53
86 35 0.40
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (85 bp):
CGAGTTCGATTACATTCAACTCAAAGGCACAATCATTTACAGCATAACTCAAGGCGAGAAGGGCT
ATCTGCCAACCAAATAACTA
Found at i:872944 original size:13 final size:13
Alignment explanation
Indices: 872926--872955 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
872916 TGAATCGATG
872926 TTTTAAATTTTAA
1 TTTTAAATTTTAA
*
872939 TTTTAATTTTTAA
1 TTTTAAATTTTAA
872952 TTTT
1 TTTT
872956 CGCAATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:875216 original size:20 final size:21
Alignment explanation
Indices: 875191--875234 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
875181 TCAGAAATAT
* *
875191 TAAAAA-ATTAATGTTTTAGA
1 TAAAAATAATAATATTTTAGA
875211 TAAAAATAATAATATTTTAGA
1 TAAAAATAATAATATTTTAGA
875232 TAA
1 TAA
875235 TTTTTTTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAGA
Found at i:875932 original size:22 final size:22
Alignment explanation
Indices: 875892--875933 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
875882 TACAAAATTA
* **
875892 AAAATATAAAAAAGGTTTAATG
1 AAAAGATAAAAAAAATTTAATG
875914 AAAAGATAAAAAAAATTTAA
1 AAAAGATAAAAAAAATTTAA
875934 CCCCTGAACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (22 bp):
AAAAGATAAAAAAAATTTAATG
Found at i:879771 original size:25 final size:25
Alignment explanation
Indices: 879730--879801 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
879720 CATTAGGGGA
* *
879730 TTAGGG-TTAAAACCCTAATTTGTT
1 TTAGGGTTTGAAACCCTAATCTGTT
879754 TTAGGGTTTGAAACCCTAATCTGTT
1 TTAGGGTTTGAAACCCTAATCTGTT
879779 TTAGGGTTTGAAACCCTAATCTG
1 TTAGGGTTTGAAACCCTAATCTG
879802 ATGGGTTAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
24 6 0.13
25 39 0.87
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.39
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGTT
Found at i:879911 original size:3 final size:3
Alignment explanation
Indices: 879899--879937 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
879889 AATATGTAAT
879899 TAA T-A TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
879938 AAAAAATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:879922 original size:16 final size:16
Alignment explanation
Indices: 879903--879934 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
879893 TGTAATTAAT
879903 ATAATAATAATAATAA
1 ATAATAATAATAATAA
879919 ATAATAATAATAATAA
1 ATAATAATAATAATAA
879935 TAAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATAATAATAATAA
Found at i:880228 original size:40 final size:42
Alignment explanation
Indices: 880115--880228 Score: 106
Period size: 43 Copynumber: 2.7 Consensus size: 42
880105 TGTTGGGGAC
* *
880115 GACACTGCTCATACATGATGAAGAGTTCTGGTCGTCTAAAAGT
1 GACACGGCTCATACATGATGAAGAGTTCTGGTCG-CGAAAAGT
* * * * ** **
880158 GACAAGGTTCCTACATGATGAGGACATCTGGTCG-GGGAA-T
1 GACACGGCTCATACATGATGAAGAGTTCTGGTCGCGAAAAGT
*
880198 GACACGGCTCATACGTGATGAAGAGTTCTGG
1 GACACGGCTCATACATGATGAAGAGTTCTGG
880229 CCATCTAAAG
Statistics
Matches: 54, Mismatches: 17, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
40 25 0.46
41 2 0.04
43 27 0.50
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (42 bp):
GACACGGCTCATACATGATGAAGAGTTCTGGTCGCGAAAAGT
Found at i:880742 original size:35 final size:36
Alignment explanation
Indices: 880701--880775 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
880691 ACGAAATTCA
* **
880701 TTTCAAGGTAAAC-GATCTCAAAGAT-GTTTATTTTG
1 TTTCAAGGGAAACAGAT-TCAAAGATGGTAAATTTTG
880736 TTTCAAGGGAAACAGATTCAAAGATGGTAAATTTTG
1 TTTCAAGGGAAACAGATTCAAAGATGGTAAATTTTG
880772 TTTC
1 TTTC
880776 CAAAGAAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 20 0.57
36 15 0.43
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (36 bp):
TTTCAAGGGAAACAGATTCAAAGATGGTAAATTTTG
Found at i:881231 original size:63 final size:64
Alignment explanation
Indices: 880925--881284 Score: 222
Period size: 64 Copynumber: 5.6 Consensus size: 64
880915 GTATCTTAGT
* * *
880925 GAGACAAAATTTTGTTTCCAAA-GAAACAGACTC--AGATTTTTCTTCAAAAGAAACTGT-TTTA
1 GAGACAAAATTTTGTTT-CAAAGGAAACAAACTCAAAGATTTTT-TTCAAAAGAAATTGTCTTCA
880986 A
64 A
* * ** * * * *
880987 GGGATAAAACCTTGTTTC-CAGAGAAACAAACTCAAAGATGATCTTATTTTAAGAGAAAATGT-T
1 GAGACAAAATTTTGTTTCAAAG-GAAACAAACTCAAAGAT--T-TT-TTTCAAAAGAAATTGTCT
881050 TCAA
61 TCAA
* * * * * ** * * *
881054 GAGACAAAA-TTCGTTTGAAGGGAAAC-GACTCAAAGATGTCATTGAAAGGAAACTGTC-TCATG
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTTCA--
*
881116 C
64 A
* * * * * *
881117 GAGACAAAA-TTGGTTTTAATA-GAAACAATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTC-T
1 GAGACAAAATTTTGTTTCAA-AGGAAACAAACTCAAAGAT---TTTTTTCAAAAGAAATTGTCTT
*
881179 CGA
62 CAA
*
881182 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTTTAA
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTTCAA
* * *
881246 GAGATAAAATTTTGTTTCAAATGAAACAGACTCAAAGAT
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGAT
881285 GGATCTCATC
Statistics
Matches: 225, Mismatches: 53, Indels: 38
0.71 0.17 0.12
Matches are distributed among these distances:
60 1 0.00
61 15 0.07
62 24 0.11
63 40 0.18
64 50 0.22
65 20 0.09
66 34 0.15
67 40 0.18
68 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (64 bp):
GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTTCAA
Found at i:881255 original size:129 final size:128
Alignment explanation
Indices: 880925--881285 Score: 315
Period size: 129 Copynumber: 2.8 Consensus size: 128
880915 GTATCTTAGT
880925 GAGACAAAATTTTGTTTCCAAA-GAAACAGACTC--AGATTTTTCTTCAAAAGAAACTGT-TTTA
1 GAGACAAAATTTTGTTT-CAAAGGAAACAGACTCAAAGATTTTT-TTCAAAAGAAACTGTCTTTA
* * * * *
880986 AGGGATAAAACCTTGTTTCCAGAGAAACAAACTCAAAGATGATCTTATTTTAAGAGAAAATGTTT
64 AGAGATAAAA--TTGTTTCAAGAGAAACAAACTCAAAGATGA-CGTATTTTAAAAGAAAATGTCT
881051 CAA
126 CAA
* * * * ** * * * **
881054 GAGACAAAA-TTCGTTTGAAGGGAAAC-GACTCAAAGATGTCATTGAAAGGAAACTGTCTCATGC
1 GAGACAAAATTTTGTTTCAAAGGAAACAGACTCAAAGATTTTTTTCAAAAGAAACTGTCT-TTAA
* * * * * * ** *
881117 GAGACAAAATTGGTTTTAATAGAAACAATCTCAAAGGTG-GGTATTTTCAAAAGAAGTTGTCTCG
65 GAGATAAAATT-GTTTCAAGAGAAACAAACTCAAAGATGACGTATTTT-AAAAGAAAATGTCTCA
881181 A
128 A
* *
881182 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTTTTCAAAAGAAATTGTCTTTAAG
1 GAGACAAAATTTTGTTTCAAAGGAAACAGACTCAAAGATTTTTTTCAAAAGAAACTGTCTTTAAG
*
881247 AGATAAAATTTTGTTTCAA-ATGAAACAGACTCAAAGATG
66 AGATAAAA--TTGTTTCAAGA-GAAACAAACTCAAAGATG
881286 GATCTCATCT
Statistics
Matches: 177, Mismatches: 43, Indels: 23
0.73 0.18 0.09
Matches are distributed among these distances:
127 13 0.07
128 47 0.27
129 61 0.34
130 54 0.31
131 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (128 bp):
GAGACAAAATTTTGTTTCAAAGGAAACAGACTCAAAGATTTTTTTCAAAAGAAACTGTCTTTAAG
AGATAAAATTGTTTCAAGAGAAACAAACTCAAAGATGACGTATTTTAAAAGAAAATGTCTCAA
Found at i:881553 original size:66 final size:66
Alignment explanation
Indices: 881465--881679 Score: 276
Period size: 67 Copynumber: 3.3 Consensus size: 66
881455 AAAGATTTAC
** * * * * *
881465 TTCAAAAGAAACGGTCTCAAGAGATACAAAATTCAT-TTT-AAGAGAAACAGATTCAAAGATTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATT-TTGTTTCAA-AGAAACAAACTCAAAGATTTT
881528 TGT
64 TGT
*
881531 TTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTC-AAAGAAACAAACTCAAAGATTTTT
881596 GT
65 GT
*
881598 TTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCCAAAGAAACAAACTCAAAGA-TTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTT-CAAAGAAACAAACTCAAAGATTTTT
881662 -T
65 GT
*
881663 TTCAAAAGAAACAATCT
1 TTCAAAAGAAACTATCT
881680 CAAAGATTTT
Statistics
Matches: 134, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
65 18 0.13
66 35 0.26
67 78 0.58
68 3 0.02
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (66 bp):
TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCAAAGAAACAAACTCAAAGATTTTTG
T
Found at i:881574 original size:37 final size:36
Alignment explanation
Indices: 881525--881646 Score: 130
Period size: 37 Copynumber: 3.5 Consensus size: 36
881515 ATTCAAAGAT
*
881525 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGA-AAAA
* * * *
881562 TTTTGTTTCAAAAGAAACAAAC-TCA-A-AG---AT
1 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAA
881592 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAA
1 TTTTGTTTCAAAAGAAACTATCTTAAGAGAG-AAAAA
*
881629 TTTTGTTTCCAAAGAAAC
1 TTTTGTTTCAAAAGAAAC
881647 AAACTCAAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
30 21 0.31
31 2 0.03
32 1 0.01
33 2 0.03
34 2 0.03
35 1 0.01
36 2 0.03
37 37 0.54
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (36 bp):
TTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAA
Found at i:881601 original size:67 final size:67
Alignment explanation
Indices: 881507--881679 Score: 278
Period size: 67 Copynumber: 2.6 Consensus size: 67
881497 TCATTTTAAG
* * * *
881507 AGAAACAGATTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCA
1 AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCA
881572 AA
66 AA
*
881574 AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCC
1 AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCA
881639 AA
66 AA
*
881641 AGAAACAAACTCAAAGA-TTTT-TTTCAAAAGAAACAATCT
1 AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCT
881680 CAAAGATTTT
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
65 17 0.17
66 4 0.04
67 79 0.79
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (67 bp):
AGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCA
AA
Found at i:881619 original size:29 final size:30
Alignment explanation
Indices: 881562--881690 Score: 127
Period size: 28 Copynumber: 4.1 Consensus size: 30
881552 AGAGACAAAA
881562 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* * * *
881592 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAA
1 TTTTGTTTCAAAAGAAACAAAC-TCA-A-AG----AT
*
881629 TTTTGTTTCCAAAGAAACAAACTCAAAGA-
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*
881658 TTTT-TTTCAAAAGAAACAATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
881687 TTTT
1 TTTT
881691 TTCACAAAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
28 22 0.27
29 8 0.10
30 21 0.26
31 2 0.02
32 1 0.01
33 2 0.02
34 2 0.02
35 1 0.01
36 2 0.02
37 20 0.25
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAAACTCAAAGAT
Found at i:881758 original size:52 final size:53
Alignment explanation
Indices: 881678--881781 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 53
881668 AAGAAACAAT
*
881678 CTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACCAAACTTTGTTTCAGA
1 CTCAAAGA-TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
*
881732 CTCAAAGA-TTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
881782 AAATAAATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 40 0.83
54 8 0.17
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:881860 original size:29 final size:29
Alignment explanation
Indices: 881778--882036 Score: 196
Period size: 29 Copynumber: 9.0 Consensus size: 29
881768 AAAACTTTGT
* * *
881778 TTCAAAATAAATAGACTCAAAGA--TTT-
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
*
881804 TTCAAAAGAAAC-AACTCAAAGATATTTA
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
* *
881832 TTCAAAAGGAACAAACTCCAAGATTTTTA
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
*
881861 TTCAAAAGGAACAAACTCAAAGA-TTTT-
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
* ***
881888 TTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTTT-
1 TTCAAAAGAAACAAACTC-A-A-AG-----A-TTTTTA
* * * *
881925 TTTAAAATAAATAGACTCAAAGA-TTTT-
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
*
881952 TTCAAAAGAAAC-AACTCAAAGATATTTA
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
* *
881980 TTCAAAAGGAACAAACTCCAAGATTTTTA
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
*
882009 TTCAAAAGGAACAAACTCAAAGATTTTT
1 TTCAAAAGAAACAAACTCAAAGATTTTT
882037 TCAAGAGAAA
Statistics
Matches: 189, Mismatches: 27, Indels: 31
0.77 0.11 0.13
Matches are distributed among these distances:
25 9 0.05
26 19 0.10
27 32 0.17
28 27 0.14
29 79 0.42
30 2 0.01
34 2 0.01
35 2 0.01
36 1 0.01
37 16 0.08
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.28
Consensus pattern (29 bp):
TTCAAAAGAAACAAACTCAAAGATTTTTA
Found at i:881921 original size:147 final size:148
Alignment explanation
Indices: 881731--882059 Score: 585
Period size: 148 Copynumber: 2.2 Consensus size: 148
881721 TTTGTTTCAG
* *
881731 ACTCAAAGA-TTTTTC-A-CGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGA
1 ACTCAAAGATTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGA
881793 CTCAAAGA-TTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAAACTCCAAGATT
66 CTCAAAGATTTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAAACTCCAAGATT
881857 TTTATTCAAAAGGAACAA
131 TTTATTCAAAAGGAACAA
* *
881875 ACTCAAAGATTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTTTTTTAAAATAAATAGA
1 ACTCAAAGATTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGA
881940 CTCAAAGATTTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAAACTCCAAGATT
66 CTCAAAGATTTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAAACTCCAAGATT
882005 TTTATTCAAAAGGAACAA
131 TTTATTCAAAAGGAACAA
*
882023 ACTCAAAGATTTTTTCAAGAGAAACTATCTCAAGAGA
1 ACTCAAAGATTTTTTCAAGAGAAACTGTCTCAAGAGA
882060 CAAAAATCGT
Statistics
Matches: 176, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
144 9 0.05
145 6 0.03
146 1 0.01
147 50 0.28
148 110 0.62
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (148 bp):
ACTCAAAGATTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGA
CTCAAAGATTTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAAACTCCAAGATT
TTTATTCAAAAGGAACAA
Found at i:882395 original size:36 final size:36
Alignment explanation
Indices: 882284--882402 Score: 102
Period size: 36 Copynumber: 3.4 Consensus size: 36
882274 AGAAAATGAT
** * *
882284 GTCTCAAGCGAGATGAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGA-AAAC
** **
882318 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
*
882354 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
*
882389 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
882403 TCAACTTTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
34 18 0.26
35 12 0.18
36 38 0.56
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:882414 original size:36 final size:36
Alignment explanation
Indices: 882318--882402 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
882308 TTAAGATATA
* **
882318 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
882354 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
882389 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
882403 TCAACTTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:882534 original size:105 final size:101
Alignment explanation
Indices: 882354--882586 Score: 290
Period size: 105 Copynumber: 2.3 Consensus size: 101
882344 TAGAGAAATT
* *
882354 GTCTCAAGCGAGACAAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAATG
1 GTCTCAAGCGAGACAAAATTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATG
* *
882419 TGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
65 TGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
882456 GTCTCAAGCGAGACAAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACAAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
882520 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
60 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
**
882561 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACAAAATTTGTTTT
882587 AAAATTCTCA
Statistics
Matches: 114, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
101 5 0.04
102 21 0.18
103 2 0.02
104 4 0.04
105 77 0.68
106 5 0.04
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.30
Consensus pattern (101 bp):
GTCTCAAGCGAGACAAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:883059 original size:4 final size:4
Alignment explanation
Indices: 883050--883089 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
883040 TGTATCATGG
*
883050 ATGT ATGT ATGT ATGT ATGT ATG- -TGT GTGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
883090 ATACTTTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
2 2 0.06
4 31 0.94
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:884294 original size:12 final size:11
Alignment explanation
Indices: 884266--884301 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
884256 TCCTCTTTTG
*
884266 TTCTTTGCTTT
1 TTCTTTGATTT
884277 TTCTTTGATTT
1 TTCTTTGATTT
884288 TTGCTTTGATTT
1 TT-CTTTGATTT
884300 TT
1 TT
884302 TTCTTTGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.72
Consensus pattern (11 bp):
TTCTTTGATTT
Found at i:884982 original size:46 final size:45
Alignment explanation
Indices: 884890--884983 Score: 116
Period size: 46 Copynumber: 2.1 Consensus size: 45
884880 ATAAATGCAG
* * * * *
884890 TGTTTCAAGGTGGAAAGAATGTTTCAAGGCCTTAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATCTCAAGGCCTCAAAGAGAGAGAA
* *
884935 TGTTTCAAGGTCGAAAAGAATATCTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATCTCAAGGCCTCAAAGAGAGAGAA
884981 TGT
1 TGT
884984 CAAAAATTGG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 11 0.27
46 30 0.73
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.26
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATCTCAAGGCCTCAAAGAGAGAGAA
Found at i:889983 original size:25 final size:25
Alignment explanation
Indices: 889942--890012 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
889932 CATTAGGGGA
* * *
889942 TTAGGG-TTAAAACCCTAATTTGTT
1 TTAGGGTTTGAAACCCTAATCTATT
889966 TTAGGGTTTGAAACCCTAATCTATT
1 TTAGGGTTTGAAACCCTAATCTATT
889991 TTAGGGTTTGAAACCCTAATCT
1 TTAGGGTTTGAAACCCTAATCT
890013 GATGGGTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
24 6 0.14
25 37 0.86
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTATT
Found at i:890123 original size:3 final size:3
Alignment explanation
Indices: 890111--890159 Score: 73
Period size: 3 Copynumber: 16.0 Consensus size: 3
890101 AATATGTAAT
890111 TAA T-A TAA TAA TAA TAA TAAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA
890157 TAA
1 TAA
890160 AAAATTAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.80
4 7 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:890139 original size:29 final size:28
Alignment explanation
Indices: 890111--890164 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
890101 AATATGTAAT
890111 TAAT-ATAATAATAATAATAAATAAATAA
1 TAATAATAATAATAATAATAAA-AAATAA
890139 TAATAATAATAATAATAATAAAAAAT
1 TAATAATAATAATAATAATAAAAAAT
890165 TAAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (28 bp):
TAATAATAATAATAATAATAAAAAATAA
Found at i:892733 original size:15 final size:15
Alignment explanation
Indices: 892713--892770 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
892703 TATTATTAAA
892713 TTAATTAATAAAATT
1 TTAATTAATAAAATT
* *
892728 TTAATTTATAAAATA
1 TTAATTAATAAAATT
* *
892743 TTAAAT-ATATAATT
1 TTAATTAATAAAATT
*
892757 ATAAATTAATAAAA
1 -TTAATTAATAAAA
892771 GATTAAATGT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
14 6 0.18
15 22 0.67
16 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATTAATAAAATT
Found at i:892769 original size:22 final size:23
Alignment explanation
Indices: 892715--892770 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
892705 TTATTAAATT
*
892715 AATTAATAAAATTTTAATTTATA
1 AATTAATAAAATTATAATTTATA
* *
892738 AAAT-ATTAAATATATAA-TTATA
1 AATTAATAAAAT-TATAATTTATA
892760 AATTAATAAAA
1 AATTAATAAAA
892771 GATTAAATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTAATAAAATTATAATTTATA
Found at i:894542 original size:23 final size:24
Alignment explanation
Indices: 894490--894542 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
894480 ATAATAGTTT
*
894490 TGTC-TTTATGACATATTTTCCTC
1 TGTCTTTTATGACATATATTCCTC
*
894513 TGT-TTTTATGACATA-ATTCTTC
1 TGTCTTTTATGACATATATTCCTC
894535 TGTCTTTT
1 TGTCTTTT
894543 GGCATGTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.17, C:0.17, G:0.09, T:0.57
Consensus pattern (24 bp):
TGTCTTTTATGACATATATTCCTC
Found at i:897469 original size:2 final size:2
Alignment explanation
Indices: 897462--897487 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
897452 CATATCATTC
897462 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
897488 GATGTGCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:900493 original size:17 final size:17
Alignment explanation
Indices: 900471--900504 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
900461 AGAGAAGCTT
900471 GGTTGCTAATGCTATCC
1 GGTTGCTAATGCTATCC
900488 GGTTGCTAATGCTATCC
1 GGTTGCTAATGCTATCC
900505 AGCAGCCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (17 bp):
GGTTGCTAATGCTATCC
Found at i:903320 original size:30 final size:29
Alignment explanation
Indices: 903280--903339 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
903270 CTTTATATTA
903280 TTTTTGTATTGAA-TTTTATTCACTTTTAAT
1 TTTTTGTATTGAATTTTTA-T-ACTTTTAAT
* *
903310 TTTTTTTATTGCATTTTTATACTTTTAAT
1 TTTTTGTATTGAATTTTTATACTTTTAAT
903339 T
1 T
903340 ACAATTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 10 0.37
30 12 0.44
31 5 0.19
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.67
Consensus pattern (29 bp):
TTTTTGTATTGAATTTTTATACTTTTAAT
Found at i:905457 original size:24 final size:25
Alignment explanation
Indices: 905415--905470 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
905405 AAAAATCGGG
905415 TTTTG-AAAATATAT--TATATAGT
1 TTTTGAAAAATATATAATATATAGT
905437 TTTTGAAAACATATATAATATATAGT
1 TTTTGAAAA-ATATATAATATATAGT
905463 TTTTGAAA
1 TTTTGAAA
905471 CCATTTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.17
23 3 0.10
24 6 0.20
26 16 0.53
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (25 bp):
TTTTGAAAAATATATAATATATAGT
Found at i:905478 original size:37 final size:37
Alignment explanation
Indices: 905437--905657 Score: 229
Period size: 37 Copynumber: 6.2 Consensus size: 37
905427 ATTATATAGT
* *
905437 TTTTGAAAACATATATAATATATAGTTTTTGAAACCA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
905474 TTTTG-ATATATATATATATAATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATA-AT-ATATAGTTTTTGAAAACA
* *
905512 TTTTGAAAATATACATGATATATAGTTTTTG---A-A
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
905545 ---T----ATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
905575 TTTTTTGAAAA-ATATATAATATATAG-TTTTGAAATCA
1 --TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
905612 TTTTTGAAAATATATATATTATATAG-TTTTGAAAACA
1 -TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
905649 TTTTGAAAA
1 TTTTGAAAA
905658 CACACACACA
Statistics
Matches: 156, Mismatches: 11, Indels: 35
0.77 0.05 0.17
Matches are distributed among these distances:
26 21 0.13
29 1 0.01
30 2 0.01
33 1 0.01
34 1 0.01
35 1 0.01
36 28 0.18
37 53 0.34
38 39 0.25
39 9 0.06
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:905482 original size:25 final size:26
Alignment explanation
Indices: 905423--905575 Score: 91
Period size: 26 Copynumber: 6.0 Consensus size: 26
905413 GGTTTTGAAA
*
905423 ATATATTATATAGTTTTTGAAAACAT
1 ATATAATATATAGTTTTTGAAAACAT
*
905449 ATATAATATATAGTTTTTGAAACCAT
1 ATATAATATATAGTTTTTGAAAACAT
* * * * * *
905475 -TTTGATATATA-TATAT-ATAATAT
1 ATATAATATATAGTTTTTGAAAACAT
** * ** *
905498 AGT-TTTTGA-AAACATTTTGAAAATAT
1 A-TATAAT-ATATAGTTTTTGAAAACAT
* * * *
905524 ACATGATATATAGTTTTTGAATATAT
1 ATATAATATATAGTTTTTGAAAACAT
905550 ATATAATATATAGTTTTTGAAAACAT
1 ATATAATATATAGTTTTTGAAAACAT
905576 TTTTTGAAAA
Statistics
Matches: 93, Mismatches: 27, Indels: 14
0.69 0.20 0.10
Matches are distributed among these distances:
23 4 0.04
24 7 0.08
25 14 0.15
26 68 0.73
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.45
Consensus pattern (26 bp):
ATATAATATATAGTTTTTGAAAACAT
Found at i:905553 original size:101 final size:98
Alignment explanation
Indices: 905415--905649 Score: 309
Period size: 101 Copynumber: 2.4 Consensus size: 98
905405 AAAAATCGGG
*
905415 TTTTGAAAATAT-AT-TATATAGTTTTTGAAAACATATATAATATATAGTTTTTGAAACCA-TTT
1 TTTTGAAAATATAATATATATAGTTTTTGAAAACATATATAATATATAGTTTTTGAAAACATTTT
* *
905477 TGATATATATATATATAATATAGTTTTTGAAAACA-
66 TGAAAAATATATA-AT-ATATAG-TTTTGAAAACAT
* *
905512 TTTTGAAAATATACATGATATATAGTTTTTGAATATATATATAATATATAGTTTTTGAAAACATT
1 TTTTGAAAATATA-AT-ATATATAGTTTTTGAAAACATATATAATATATAGTTTTTGAAAACA-T
*
905577 TTTTGAAAAATATATAATATATAGTTTTGAAATCAT
63 TTTTGAAAAATATATAATATATAGTTTTGAAAACAT
905613 TTTTGAAAATATATATATTATATAG-TTTTGAAAACAT
1 TTTTGAAAATATA-ATA-TATATAGTTTTTGAAAACAT
905650 TTTGAAAACA
Statistics
Matches: 121, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
97 12 0.10
99 2 0.02
100 21 0.17
101 70 0.58
102 2 0.02
103 14 0.12
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (98 bp):
TTTTGAAAATATAATATATATAGTTTTTGAAAACATATATAATATATAGTTTTTGAAAACATTTT
TGAAAAATATATAATATATAGTTTTGAAAACAT
Found at i:905575 original size:63 final size:64
Alignment explanation
Indices: 905474--905604 Score: 196
Period size: 63 Copynumber: 2.0 Consensus size: 64
905464 TTTGAAACCA
*
905474 TTTTGATATATATATATATAATATAGTTTTTGAAAACA-TTTTGAAAATATACATGATATATAGT
1 TTTTGATATATATATATATAATATAGTTTTTGAAAACATTTTTGAAAA-ATACATAATATATAGT
*
905538 TTTTGA-ATATATATATA-ATATATAGTTTTTGAAAACATTTTTTGAAAAATATATAATATATAG
1 TTTTGATATATATATATATA-ATATAGTTTTTGAAAACA-TTTTTGAAAAATACATAATATATAG
905601 T
64 T
905602 TTT
1 TTT
905605 GAAATCATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
62 1 0.02
63 29 0.47
64 23 0.37
65 9 0.15
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.47
Consensus pattern (64 bp):
TTTTGATATATATATATATAATATAGTTTTTGAAAACATTTTTGAAAAATACATAATATATAGT
Found at i:905607 original size:63 final size:65
Alignment explanation
Indices: 905474--905604 Score: 198
Period size: 64 Copynumber: 2.0 Consensus size: 65
905464 TTTGAAACCA
*
905474 TTTTG-ATATATATATATATAATATAGTTTTTGAAAACATTTTGAAAATATACATGATATATAGT
1 TTTTGAATATATATATATATAATATAGTTTTTGAAAACATTTTGAAAATATACATAATATATAGT
*
905538 TTTTGAATATATATATA-AT-ATATAGTTTTTGAAAACATTTTTTGAAAA-ATATATAATATATA
1 TTTTGAATATATATATATATAATATAGTTTTTGAAAACA--TTTTGAAAATATACATAATATATA
905600 GT
64 GT
905602 TTT
1 TTT
905605 GAAATCATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
63 18 0.29
64 24 0.39
65 20 0.32
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.47
Consensus pattern (65 bp):
TTTTGAATATATATATATATAATATAGTTTTTGAAAACATTTTGAAAATATACATAATATATAGT
Found at i:905735 original size:27 final size:27
Alignment explanation
Indices: 905682--905733 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
905672 CACATATATA
*
905682 TATATATATATATATAGTTTTTGAAAT
1 TATATATATATATATAGTTTTTAAAAT
905709 TATATATA-ATATATAGTTTTTAAAA
1 TATATATATATATATAGTTTTTAAAA
905734 ATATTTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (27 bp):
TATATATATATATATAGTTTTTAAAAT
Found at i:905741 original size:37 final size:36
Alignment explanation
Indices: 905700--905805 Score: 110
Period size: 38 Copynumber: 2.9 Consensus size: 36
905690 TATATATAGT
*
905700 TTTTGAAATTATATATAATATATAGTTTTTAAAAAT-A
1 TTTTGAAA--ATATATAATATATAGATTTTAAAAATGA
* *
905737 TTTTGAAAATATATATTATAT-GCTTTTAAAAATGA
1 TTTTGAAAATATATAATATATAGATTTTAAAAATGA
*
905772 TTTTTAGAAGCATATATAATATATA-ATTTTAAAA
1 -TTTT-GAA-AATATATAATATATAGATTTTAAAA
905806 TTAATTTTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
34 11 0.19
35 13 0.22
36 4 0.07
37 11 0.19
38 20 0.34
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTGAAAATATATAATATATAGATTTTAAAAATGA
Found at i:907532 original size:23 final size:21
Alignment explanation
Indices: 907504--907562 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
907494 TCCTTGAAAT
907504 TTTTAGTTATTCATTATTTTTAA
1 TTTTAGTTATTCATT-TTTTT-A
907527 TTTTAG-----CATTTTTTTA
1 TTTTAGTTATTCATTTTTTTA
907543 TTTTAGTTATTCATTTTTTT
1 TTTTAGTTATTCATTTTTTT
907563 CCTTTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
16 7 0.23
17 5 0.16
18 4 0.13
21 9 0.29
23 6 0.19
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTAGTTATTCATTTTTTTA
Found at i:907536 original size:18 final size:16
Alignment explanation
Indices: 907515--907548 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
907505 TTTAGTTATT
907515 CATTATTTTTAATTTTAG
1 CATT-TTTTT-ATTTTAG
907533 CATTTTTTTATTTTAG
1 CATTTTTTTATTTTAG
907549 TTATTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (16 bp):
CATTTTTTTATTTTAG
Found at i:907614 original size:28 final size:28
Alignment explanation
Indices: 907583--907679 Score: 70
Period size: 28 Copynumber: 3.3 Consensus size: 28
907573 CTAGTATGTT
907583 TTTTATTTTATTTTTTTGATTTATTCAA
1 TTTTATTTTATTTTTTTGATTTATTCAA
* ** * *
907611 TTTTTTTTTCATCTTTTGTTCCTTTGATTTATT
1 TTTTATTTT-AT-TTTT-TTGATTT-ATTCA-A
**
907644 TTTTATTTT-TTCCTTTGATTTATTCAA
1 TTTTATTTTATTTTTTTGATTTATTCAA
907671 TATTTATTT
1 T-TTTATTT
907680 ATTATTTCTA
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
27 1 0.02
28 19 0.37
29 7 0.14
30 6 0.12
31 6 0.12
32 4 0.08
33 8 0.16
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.71
Consensus pattern (28 bp):
TTTTATTTTATTTTTTTGATTTATTCAA
Found at i:907674 original size:24 final size:25
Alignment explanation
Indices: 907624--907675 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
907614 TTTTTTCATC
***
907624 TTTTGTTCCTTTGATTTATTTTTTA
1 TTTTGTTCCTTTGATTTATTCAATA
907649 TTTT-TTCCTTTGATTTATTCAATA
1 TTTTGTTCCTTTGATTTATTCAATA
907673 TTT
1 TTT
907676 ATTTATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.15, C:0.10, G:0.06, T:0.69
Consensus pattern (25 bp):
TTTTGTTCCTTTGATTTATTCAATA
Found at i:922746 original size:19 final size:20
Alignment explanation
Indices: 922708--922745 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
922698 TCACCTAATT
922708 ATCACTATAATTTTATTTTA
1 ATCACTATAATTTTATTTTA
922728 ATCACT-TAATTATTATTT
1 ATCACTATAATT-TTATTT
922746 ACTTTATGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (20 bp):
ATCACTATAATTTTATTTTA
Found at i:923839 original size:87 final size:87
Alignment explanation
Indices: 923693--923919 Score: 373
Period size: 87 Copynumber: 2.6 Consensus size: 87
923683 TATGTTATAT
* * * *
923693 CATTTAACCGAAAATATTATCAAGTACAATAACACATTAGGTAGCACTTATATATTGTAATAGAT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGAT
*
923758 AGCGCTTTTATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* *
923780 CATTTAACCGGAAATATTATCAAATACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGAT
* *
923845 AGCGCTTATATAATAAAGTAGT
66 AGCGCTTATATAATAAAATAGG
923867 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATAT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATAT
923920 TGACATTTTC
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 130 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:924335 original size:200 final size:197
Alignment explanation
Indices: 923935--924436 Score: 584
Period size: 200 Copynumber: 2.5 Consensus size: 197
923925 TTTTCTAACT
* * *
923935 AAACCGGTATATTTATACCGGTAACATTGTAAATTTACCTATTACATTCTAATTATCGGTTTCGA
1 AAACCGGTATATTTTTACGGGT-ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
924000 TGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCATGCATCTCGTTTGGCAT
65 TGTTTTT-GGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCATGCATCTCGTTTGACAT
* * *
924063 TCATTCTAGACAAAATGTATCGACACAAACTTAAAACGTGTCTATACATTATGTATACCTATTTT
128 TCATTCTAGACAAAATATATCGACACAAACTTAAAACGTGTCGATACATTATGTATA-CTATTCT
*
924128 CTCATA
192 ATCATA
* * * **
924134 AAATCGGTATATTTTTACTGGGTACATTGTAAATTTACTTATTACATTGTAATTATTAGTTTCGA
1 AAACCGGTATATTTTTAC-GGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * **
924199 TGCTTTTGAGATCGATACTTTTAATAAATGTATAGACACTTTATGTGTGCA-CATCGTTTGACAT
65 TGTTTTTG-GATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCATC-TCGTTTGACAT
* *** **
924263 TCATTCTAGACAAAATATATTGACAC-TTTTTAAATTTGTGTCGATACATTATGTTGATA-TATT
128 TCATTCTAGACAAAATATATCGACACAAACTTAAA-ACGTGTCGATACATTATG-T-ATACTATT
924326 CTATCATA
190 CTATCATA
* * * *
924334 AAACCGATATATTTATAACGGTTACATTGTAAATTTACCTATTACATTATGATTATCGGTTTCGA
1 AAACCGGTATATTT-TTACGGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
924399 TGTTTTTGGGTTGATACTTTTAGA-AAATGTATCGACAC
65 TGTTTTTGGATCGATACTTTTA-ATAAATGTATCGACAC
924437 ATATGTTTAC
Statistics
Matches: 257, Mismatches: 36, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
198 4 0.02
199 100 0.39
200 146 0.57
201 4 0.02
202 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (197 bp):
AAACCGGTATATTTTTACGGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
GTTTTTGGATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCATCTCGTTTGACATTCA
TTCTAGACAAAATATATCGACACAAACTTAAAACGTGTCGATACATTATGTATACTATTCTATCA
TA
Found at i:925335 original size:2 final size:2
Alignment explanation
Indices: 925312--925355 Score: 61
Period size: 2 Copynumber: 21.0 Consensus size: 2
925302 TAATTATAAA
*
925312 AT AT GAT AT TT AT AT CAT 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
925356 TCAAATTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 34 0.89
3 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:925375 original size:24 final size:23
Alignment explanation
Indices: 925343--925387 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
925333 TATATATATA
925343 TATATATATATATTCAAATTAAG
1 TATATATATATATTCAAATTAAG
* *
925366 TATATCATATATTTTTAAATTA
1 TATAT-ATATATATTCAAATTA
925388 TAAAACCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (23 bp):
TATATATATATATTCAAATTAAG
Found at i:925753 original size:29 final size:29
Alignment explanation
Indices: 925705--925762 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
925695 ATATTATTAC
* *
925705 TTTCAAACACTAACTTGACGACATAATGT
1 TTTCAAACACCAACTAGACGACATAATGT
*
925734 TTTCAAACACCGACTAGACGACATAATGT
1 TTTCAAACACCAACTAGACGACATAATGT
925763 AAATAGAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (29 bp):
TTTCAAACACCAACTAGACGACATAATGT
Found at i:926735 original size:3 final size:3
Alignment explanation
Indices: 926693--926719 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
926683 ACATCATCCA
926693 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
926720 AACTTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:932364 original size:13 final size:13
Alignment explanation
Indices: 932346--932373 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
932336 TATAGATAAA
932346 ACCATTAGTTATC
1 ACCATTAGTTATC
932359 ACCATTAGTTATC
1 ACCATTAGTTATC
932372 AC
1 AC
932374 ATGATTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (13 bp):
ACCATTAGTTATC
Found at i:937029 original size:21 final size:21
Alignment explanation
Indices: 936978--937030 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
936968 ATTATGACTA
936978 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
936999 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
937020 TCGCAATGCGA
1 TCGCAATGCGA
937031 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:937045 original size:20 final size:21
Alignment explanation
Indices: 937020--937071 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
937010 TTTTCCCAAT
*
937020 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
937040 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
937061 TCGCAATGCGA
1 TCGCAATGCGA
937072 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:937085 original size:20 final size:20
Alignment explanation
Indices: 937060--937214 Score: 141
Period size: 20 Copynumber: 7.7 Consensus size: 20
937050 AATTTGGAAA
*
937060 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
937080 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
937101 ATCGCAACGGGATACTGACT
1 ATCGCAACGCGATACTGACT
*
937121 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * *
937141 TTCGCAATGCGATTCGGACT
1 ATCGCAACGCGATACTGACT
* *
937161 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * * *
937181 TTCACAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
937201 ATCGCAACGAGATA
1 ATCGCAACGCGATA
937215 ATACAGAATC
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
19 2 0.02
20 96 0.84
21 14 0.12
22 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:937133 original size:41 final size:41
Alignment explanation
Indices: 937057--937234 Score: 130
Period size: 40 Copynumber: 4.4 Consensus size: 41
937047 GCGAATTTGG
*
937057 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
937098 AAAATCGCAACGGGATACTGACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAAT-AC
** * * * * **
937140 --TTTCGCAATGCGATTCGGACTTTCGCAACGCGATTCTGAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAAT-AC
** * * * *
937180 --TTTCACAACGAGATTCTGACTATCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
937219 AGAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
937235 TTTCAAAGTT
Statistics
Matches: 110, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
39 2 0.02
40 62 0.56
41 44 0.40
42 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:937387 original size:12 final size:12
Alignment explanation
Indices: 937368--937401 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
937358 CTCTCCGGTG
937368 ACATCCGTTCCT
1 ACATCCGTTCCT
*
937380 ATATCCGTTCCT
1 ACATCCGTTCCT
937392 ACATCC-TTCC
1 ACATCCGTTCC
937402 CCATCTGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:937978 original size:23 final size:24
Alignment explanation
Indices: 937952--938004 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
937942 AGTATTCAAA
*
937952 TTTGATCTTGGTCAATAC-CGGAC
1 TTTGATATTGGTCAATACTCGGAC
*
937975 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACTCGGAC
937999 TTTGAT
1 TTTGAT
938005 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.42
Consensus pattern (24 bp):
TTTGATATTGGTCAATACTCGGAC
Found at i:940509 original size:20 final size:19
Alignment explanation
Indices: 940481--940535 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
940471 CAATCATCTT
*
940481 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
940501 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
940520 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
940536 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:940550 original size:33 final size:33
Alignment explanation
Indices: 940508--940596 Score: 160
Period size: 33 Copynumber: 2.7 Consensus size: 33
940498 GGAAATGACT
940508 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
940541 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
940574 ATCGCAAAGCGAAATGAAAATCG
1 ATCGCAATGCGAAATGAAAATCG
940597 TAATGCGAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:940564 original size:19 final size:19
Alignment explanation
Indices: 940488--940605 Score: 85
Period size: 19 Copynumber: 6.7 Consensus size: 19
940478 CTTAATGTCT
* **
940488 ATCGCAACGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
940508 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
940527 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
940541 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
940560 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
940574 ATCGCAAAGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
940593 ATCGTAATGCGAA
1 ATCGCAATGCGAA
940606 TTTAGTTTCG
Statistics
Matches: 77, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 37 0.48
20 9 0.12
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:940654 original size:19 final size:19
Alignment explanation
Indices: 940630--940668 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
940620 GCGATTTTGT
940630 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
940649 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
940668 C
1 C
940669 ATTACGATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:940676 original size:19 final size:19
Alignment explanation
Indices: 940635--940676 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
940625 TTTGTCGTTG
* *
940635 CGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGCATTA
940654 CGATTTTCATTTCGCATTA
1 CGATTTTCATTTCGCATTA
940673 CGAT
1 CGAT
940677 AGTCATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTA
Found at i:940682 original size:19 final size:19
Alignment explanation
Indices: 940641--940684 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
940631 GTTGCGATTT
* * **
940641 TCATTTCGCGTTGCGATTT
1 TCATTTCGCATTACGATAG
940660 TCATTTCGCATTACGATAG
1 TCATTTCGCATTACGATAG
940679 TCATTT
1 TCATTT
940685 TTGCCTTCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTACGATAG
Found at i:940802 original size:14 final size:14
Alignment explanation
Indices: 940783--940819 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
940773 CATCAATTAA
940783 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
940797 ACAAATCATCTTTT
1 ACAAATCAACTTTT
940811 ACAAATCAA
1 ACAAATCAA
940820 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:942223 original size:21 final size:21
Alignment explanation
Indices: 942155--942223 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
942145 CATGTGAATC
*
942155 GACTCTTGAATGGTGGGA-GG
1 GACTCTTGAACGGTGGGAGGG
* * ** *
942175 GACCTCTTCAACGATGACAGTG
1 GA-CTCTTGAACGGTGGGAGGG
*
942197 GCCTCTTGAACGGTGGGAGGG
1 GACTCTTGAACGGTGGGAGGG
942218 GACTCT
1 GACTCT
942224 CGAGGAATGA
Statistics
Matches: 34, Mismatches: 13, Indels: 3
0.68 0.26 0.06
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.23
Consensus pattern (21 bp):
GACTCTTGAACGGTGGGAGGG
Done.