Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold88
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: 1260485
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
File 7 of 8
Found at i:891816 original size:23 final size:23
Alignment explanation
Indices: 891772--891816 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
891762 AGTATTAAAT
* * *
891772 TTAAATTTTAAATATATTATATA
1 TTAAATTTTAAAAAAATAATATA
*
891795 TTAATTTTTAAAAAAATAATAT
1 TTAAATTTTAAAAAAATAATAT
891817 CATGAATTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAAATTTTAAAAAAATAATATA
Found at i:900872 original size:30 final size:28
Alignment explanation
Indices: 900833--900890 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
900823 AAATTAATAA
*
900833 AAAAATAAAAATATTTTTATTTTATTAATT
1 AAAAATAAAAATAATTTTA--TTATTAATT
* *
900863 AAAATTAAAATTAATTTTATTATTAATT
1 AAAAATAAAAATAATTTTATTATTAATT
900891 TATAATTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.36
30 16 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
AAAAATAAAAATAATTTTATTATTAATT
Found at i:901877 original size:21 final size:20
Alignment explanation
Indices: 901849--901887 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
901839 TGTTTTAAAA
* *
901849 ATATAATCCAATATATTAAT
1 ATATAATCAAATAAATTAAT
901869 ATATAAATCAAATAAATTA
1 ATAT-AATCAAATAAATTA
901888 GTGGGAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATAATCAAATAAATTAAT
Found at i:904124 original size:21 final size:22
Alignment explanation
Indices: 904095--904139 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
904085 AATTATATTT
904095 ATATATTATA-ATT-ATATTAAA
1 ATATATTATATATTAATA-TAAA
*
904116 ATATTTTATATATTAATATAAA
1 ATATATTATATATTAATATAAA
904138 AT
1 AT
904140 TTAATGTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 9 0.43
23 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATATTATATATTAATATAAA
Found at i:906894 original size:4 final size:4
Alignment explanation
Indices: 906885--906913 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
906875 AAATTATCCC
906885 ATTA ATTA A-TA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
906914 GTGCATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:907951 original size:35 final size:38
Alignment explanation
Indices: 907870--907960 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 38
907860 TTTAATTAGA
*
907870 TAAATTTAATTTATTTTAATTAAAATTTAAATATATATTT
1 TAAATTTAATTTA--TTAATTAAAAATTAAATATATATTT
* *
907910 TTAATTTAATTTATTATTTAAAAATTAAA-A-ATA-TT
1 TAAATTTAATTTATTAATTAAAAATTAAATATATATTT
907945 TAAATTTAA-TTATTAA
1 TAAATTTAATTTATTAA
907961 AATATAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
34 6 0.13
35 10 0.22
36 3 0.07
37 1 0.02
38 14 0.30
40 12 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (38 bp):
TAAATTTAATTTATTAATTAAAAATTAAATATATATTT
Found at i:907955 original size:20 final size:19
Alignment explanation
Indices: 907932--907984 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 19
907922 ATTATTTAAA
907932 AATTAAAAATATTTAAAT-TT
1 AATTAAAAATA--TAAATATT
907952 AATTATTAAAATATAAATATT
1 AATTA--AAAATATAAATATT
907973 AATATAAAAATA
1 AAT-TAAAAATA
907985 AATTTTAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 16 0.55
21 5 0.17
22 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTAAAAATATAAATATT
Found at i:907987 original size:18 final size:20
Alignment explanation
Indices: 907945--907989 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
907935 TAAAAATATT
907945 TAAATTTAATTATTAAAATA
1 TAAATTTAATTATTAAAATA
907965 TAAATATTAA-TA-TAAAA-A
1 TAAAT-TTAATTATTAAAATA
907983 TAAATTT
1 TAAATTT
907990 TAAACTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.08
18 6 0.25
19 5 0.21
20 7 0.29
21 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATTTAATTATTAAAATA
Found at i:907992 original size:18 final size:21
Alignment explanation
Indices: 907945--907992 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
907935 TAAAAATATT
907945 TAAA-TTTAATTATTAAAATA
1 TAAATTTTAATTATTAAAATA
*
907965 TAAATATTAA-TA-TAAAA-A
1 TAAATTTTAATTATTAAAATA
907983 TAAATTTTAA
1 TAAATTTTAA
907993 ACTTTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 10 0.40
19 5 0.20
20 6 0.24
21 4 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATTTTAATTATTAAAATA
Found at i:908037 original size:5 final size:5
Alignment explanation
Indices: 908027--908053 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
908017 ATTTTAAATT
908027 TTAAA TTAAA TTAAA TTAAA TTAAA TT
1 TTAAA TTAAA TTAAA TTAAA TTAAA TT
908054 CTATTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TTAAA
Found at i:909466 original size:2 final size:2
Alignment explanation
Indices: 909459--909524 Score: 109
Period size: 2 Copynumber: 34.0 Consensus size: 2
909449 CATGCATGTG
909459 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
909501 TA TA TA T- TA TA TG TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
909525 ATTATTTGAT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 2 0.03
2 58 0.97
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:909955 original size:2 final size:2
Alignment explanation
Indices: 909948--909978 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
909938 CATGTATAAG
909948 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
909979 ATTCAACACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:910130 original size:24 final size:26
Alignment explanation
Indices: 910062--910131 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
910052 TCACCATTTA
910062 TGTTGTATTTGTCAAAAATGATGATTCT
1 TGTTGTATTTGTC-AAAATGATGA-TCT
* *
910090 T-TTTTATTTGTAAAAAATGATGA-CT
1 TGTTGTATTTGT-CAAAATGATGATCT
910115 TGTTGT-TTTGTCAAAAT
1 TGTTGTATTTGTCAAAAT
910132 TGGTAACTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
24 5 0.14
25 8 0.22
26 3 0.08
27 19 0.53
28 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.16, T:0.49
Consensus pattern (26 bp):
TGTTGTATTTGTCAAAATGATGATCT
Found at i:912673 original size:21 final size:21
Alignment explanation
Indices: 912647--912687 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
912637 AGACAAGTGG
* *
912647 TACTCCATAGCAGGTGGAGTA
1 TACTCCAAAACAGGTGGAGTA
912668 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
912688 TTCAACAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTA
Found at i:914738 original size:13 final size:13
Alignment explanation
Indices: 914720--914764 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
914710 AGGCTCCCTC
*
914720 ATCCCTCTCTTAT
1 ATCCCTCTCTTGT
914733 ATCCCTCTCTTGT
1 ATCCCTCTCTTGT
* *
914746 ATCCATCTTTTGT
1 ATCCCTCTCTTGT
914759 ATCCCT
1 ATCCCT
914765 TTTCAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.13, C:0.36, G:0.04, T:0.47
Consensus pattern (13 bp):
ATCCCTCTCTTGT
Found at i:916686 original size:15 final size:15
Alignment explanation
Indices: 916666--916705 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
916656 TGTTTTTAAT
916666 AAAATAAAAAAACAA
1 AAAATAAAAAAACAA
*
916681 AAAATAAAAAAATAA
1 AAAATAAAAAAACAA
*
916696 ATAATAAAAA
1 AAAATAAAAA
916706 GTAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAATAAAAAAACAA
Found at i:916701 original size:7 final size:6
Alignment explanation
Indices: 916666--916723 Score: 50
Period size: 6 Copynumber: 9.3 Consensus size: 6
916656 TGTTTTTAAT
916666 AAAATA AAAA-A ACAAA-A AATAA-A AAAATA AATAATA AAAAGTA AAAATA
1 AAAATA AAAATA A-AAATA AA-AATA AAAATA AA-AATA AAAA-TA AAAATA
916715 AAAACTA AA
1 AAAA-TA AA
916724 TCAAGTAGTG
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.11
6 25 0.54
7 16 0.35
ACGTcount: A:0.81, C:0.03, G:0.02, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:916712 original size:8 final size:7
Alignment explanation
Indices: 916666--916723 Score: 55
Period size: 7 Copynumber: 8.1 Consensus size: 7
916656 TGTTTTTAAT
916666 AAAATAAA
1 AAAAT-AA
*
916674 AAAACAA
1 AAAATAA
916681 AAAATAAA
1 AAAAT-AA
916689 AAAATAA
1 AAAATAA
*
916696 ATAATAA
1 AAAATAA
*
916703 AAAGT-A
1 AAAATAA
916709 AAAATAA
1 AAAATAA
*
916716 AAACTAA
1 AAAATAA
916723 A
1 A
916724 TCAAGTAGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
6 5 0.12
7 25 0.61
8 11 0.27
ACGTcount: A:0.81, C:0.03, G:0.02, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:917471 original size:16 final size:16
Alignment explanation
Indices: 917452--917482 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
917442 TTATAAAAAT
*
917452 TTTATTTTAAATTTAA
1 TTTAATTTAAATTTAA
917468 TTTAATTTAAATTTA
1 TTTAATTTAAATTTA
917483 GTTAAATCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATTTAAATTTAA
Found at i:924324 original size:22 final size:22
Alignment explanation
Indices: 924297--924349 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
924287 TTTGAACATA
*
924297 AAATAATTTTATAATA-AAAAT
1 AAATAATTATATAATATAAAAT
**
924318 ATAATAAAAATATAATATAAAAT
1 A-AATAATTATATAATATAAAAT
924341 AAATAATTA
1 AAATAATTA
924350 AATTTTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATAATTATATAATATAAAAT
Found at i:924339 original size:13 final size:11
Alignment explanation
Indices: 924306--924346 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
924296 AAAATAATTT
924306 TATAATAAAAA
1 TATAATAAAAA
924317 TATAATAAAAA
1 TATAATAAAAA
924328 TATAATATAAAA
1 TATAATA-AAAA
924340 TA-AATAA
1 TATAATAA
924347 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 1 0.03
11 22 0.76
12 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TATAATAAAAA
Found at i:924403 original size:36 final size:34
Alignment explanation
Indices: 924332--924419 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 34
924322 TAAAAATATA
*
924332 ATATAAAATAAATAATTAAATTTTATTAAATTTT
1 ATATAAAATAAATAATTAAATTTTATTAAAATTT
* **
924366 ATATAAAATAAATTATGTATTTATTTATTAAAATTT
1 ATATAAAATAAATAAT-TAAAT-TTTATTAAAATTT
*
924402 ATATAAATATTAATAATT
1 ATATAAA-ATAAATAATT
924420 TGAACATAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
34 15 0.33
35 3 0.07
36 20 0.44
37 7 0.16
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (34 bp):
ATATAAAATAAATAATTAAATTTTATTAAAATTT
Found at i:928498 original size:57 final size:57
Alignment explanation
Indices: 928410--928523 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
928400 TTCAAGATTT
928410 TCACCAACAAGAGAAGCCAGATAAAGCTTCAGTTTTTTAATGTCCTAACAGTTCTAA
1 TCACCAACAAGAGAAGCCAGATAAAGCTTCAGTTTTTTAATGTCCTAACAGTTCTAA
*
928467 TCACCAACAAGAGAAGCTAGATAAAGCTTCAGTTTTTTAATGTCCTAACAGTTCTAA
1 TCACCAACAAGAGAAGCCAGATAAAGCTTCAGTTTTTTAATGTCCTAACAGTTCTAA
928524 AGCTATATAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (57 bp):
TCACCAACAAGAGAAGCCAGATAAAGCTTCAGTTTTTTAATGTCCTAACAGTTCTAA
Found at i:929130 original size:22 final size:22
Alignment explanation
Indices: 929096--929148 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
929086 ACTCAAATTT
*
929096 ATATTTATAAATTAAAAT-TATAA
1 ATATTT-TAAATTAAAATAAAT-A
929119 ATATTTTAAATTAAAATAAATA
1 ATATTTTAAATTAAAATAAATA
929141 ATATTTTA
1 ATATTTTA
929149 TAAATTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATTTTAAATTAAAATAAATA
Found at i:929402 original size:2 final size:2
Alignment explanation
Indices: 929395--929427 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
929385 TTTATAGAGT
929395 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
929428 TTGCATTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:929848 original size:6 final size:6
Alignment explanation
Indices: 929837--929861 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
929827 GTTAGGATTG
929837 TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT T
929862 TACTTGCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:932113 original size:14 final size:15
Alignment explanation
Indices: 932094--932123 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
932084 ATCAAAAGCT
932094 TTATAGATA-ATATA
1 TTATAGATATATATA
932108 TTATAGATATATATA
1 TTATAGATATATATA
932123 T
1 T
932124 AATTTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
TTATAGATATATATA
Found at i:933791 original size:2 final size:2
Alignment explanation
Indices: 933784--933810 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
933774 TTTTGAACAA
933784 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
933811 AAAAGATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:934723 original size:3 final size:3
Alignment explanation
Indices: 934715--934762 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
934705 CAAATAACAA
934715 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
934763 TTTTAAAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:937329 original size:23 final size:22
Alignment explanation
Indices: 937286--937345 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
937276 TTTAAATTTA
*
937286 AATATAAAAAT-TTATAATAATT
1 AATATAAAAATAATATAATAA-T
**
937308 AATATAAAAATAATATTTTAAT
1 AATATAAAAATAATATAATAAT
937330 AATATAATAAATAATA
1 AATATAA-AAATAATA
937346 AAAAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.58
23 14 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AATATAAAAATAATATAATAAT
Found at i:937343 original size:29 final size:26
Alignment explanation
Indices: 937286--937360 Score: 71
Period size: 29 Copynumber: 2.7 Consensus size: 26
937276 TTTAAATTTA
*
937286 AATATAAAAATTTATAATAATTAATAT
1 AATAAAAAAATTT-TAATAATTAATAT
*
937313 AA-AAATAATATTTTAATAATATAATAAAT
1 AATAAA-AAAATTTTAATAAT-TAAT--AT
*
937342 AATAAAAAAATTTAAATAA
1 AATAAAAAAATTTTAATAA
937361 ATTTAAACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 9 0.23
27 12 0.31
29 15 0.38
30 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AATAAAAAAATTTTAATAATTAATAT
Found at i:937345 original size:26 final size:27
Alignment explanation
Indices: 937295--937346 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
937285 AAATATAAAA
937295 ATTTATAATAATTAATATAAAAATAAT
1 ATTTATAATAATTAATATAAAAATAAT
*
937322 ATTT-TAATAATATAATA-AATAATAA
1 ATTTATAATAAT-TAATATAAAAATAA
937347 AAAAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
ATTTATAATAATTAATATAAAAATAAT
Found at i:938598 original size:2 final size:2
Alignment explanation
Indices: 938591--938623 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
938581 GATTCATGTG
938591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
938624 TTATTTATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:944437 original size:11 final size:11
Alignment explanation
Indices: 944423--944471 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
944413 ATTATTACTC
944423 TTATATTTATA
1 TTATATTTATA
*
944434 TTATATTCATA
1 TTATATTTATA
944445 TTATATTT-TAA
1 TTATATTTAT-A
*
944456 TT-TTTTTATA
1 TTATATTTATA
944466 TTATAT
1 TTATAT
944472 AATCATATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
10 8 0.26
11 23 0.74
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATATTTATA
Found at i:944596 original size:2 final size:2
Alignment explanation
Indices: 944589--944619 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
944579 TATTTAAAGA
944589 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
944620 AAATAAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:945058 original size:17 final size:17
Alignment explanation
Indices: 945038--945077 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
945028 TGTATAAAAA
945038 TAAATATA-ATAAATTAT
1 TAAATATATATAAATT-T
*
945055 TAAATATATTTAAATTT
1 TAAATATATATAAATTT
945072 TAAATA
1 TAAATA
945078 AAAAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATATATATAAATTT
Found at i:945500 original size:20 final size:20
Alignment explanation
Indices: 945483--945519 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
945473 AAATTAAATT
945483 AATTTTATATA-TATTAAAA
1 AATTTTATATACTATTAAAA
945502 AATTTTATATACTATTAA
1 AATTTTATATACTATTAA
945520 TATATTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTTTATATACTATTAAAA
Found at i:945536 original size:16 final size:18
Alignment explanation
Indices: 945515--945555 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
945505 TTTATATACT
945515 ATTAATATATT-AA-TAA
1 ATTAATATATTAAATTAA
945531 ATTAAT-TATTAAATTAA
1 ATTAATATATTAAATTAA
945548 A-TAATATA
1 ATTAATATA
945556 ATTATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.18
16 12 0.55
17 6 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAATATATTAAATTAA
Found at i:945828 original size:14 final size:14
Alignment explanation
Indices: 945809--945836 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
945799 TTTTTTTAAT
945809 TTAAAATATAATAA
1 TTAAAATATAATAA
945823 TTAAAATATAATAA
1 TTAAAATATAATAA
945837 AACATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TTAAAATATAATAA
Found at i:945879 original size:17 final size:17
Alignment explanation
Indices: 945826--945880 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
945816 ATAATAATTA
*
945826 AAAT-ATAATAAAACAT
1 AAATAATAATAATACAT
*
945842 AAATAATAATAATACAA
1 AAATAATAATAATACAT
*
945859 AAATAAT-ATAAATATAT
1 AAATAATAAT-AATACAT
945876 AAATA
1 AAATA
945881 TATTAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 6 0.18
17 27 0.82
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAATAATAATACAT
Found at i:946135 original size:2 final size:2
Alignment explanation
Indices: 946128--946162 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
946118 ATGTACGTAA
946128 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
946163 ATTTACCAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:950077 original size:2 final size:2
Alignment explanation
Indices: 950070--950112 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
950060 TAATGTATGT
950070 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
950112 G
1 G
950113 GGGAACAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:953415 original size:16 final size:17
Alignment explanation
Indices: 953383--953451 Score: 56
Period size: 17 Copynumber: 4.0 Consensus size: 17
953373 GCATACCGTT
*
953383 AAATTTATTTAAATTAA
1 AAATTAATTTAAATTAA
953400 AAATTAATTT-AATTAA
1 AAATTAATTTAAATTAA
953416 TTAATATTAATTTTAAAATT-A
1 --AA-ATTAA-TTT-AAATTAA
953437 AAA-TAA-TTAAATTAA
1 AAATTAATTTAAATTAA
953452 TATTAATATC
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
14 5 0.11
15 3 0.07
16 6 0.14
17 12 0.27
18 3 0.07
19 7 0.16
20 3 0.07
21 1 0.02
22 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTAATTTAAATTAA
Found at i:953507 original size:14 final size:15
Alignment explanation
Indices: 953488--953518 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
953478 TTTTTTAGTT
953488 TTAAATATATTT-TA
1 TTAAATATATTTATA
953502 TTAAATATATTTATA
1 TTAAATATATTTATA
953517 TT
1 TT
953519 TTAATTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAAATATATTTATA
Found at i:953581 original size:5 final size:5
Alignment explanation
Indices: 953566--953656 Score: 50
Period size: 5 Copynumber: 18.4 Consensus size: 5
953556 TAATGATCAA
* *
953566 AAATT -AATT AAATT -AATT -AATT AAATT GATATTTT AAA-T CAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT -A-A-ATT AAATT AAATT
* * *
953610 AAAATTT AAATT AAATT -AATT AAATT -GATT AAATT ACATT TAATT AA
1 -AAA-TT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AA
953657 TTTTTTTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
4 22 0.33
5 31 0.47
6 7 0.11
7 4 0.06
8 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (5 bp):
AAATT
Found at i:953658 original size:14 final size:13
Alignment explanation
Indices: 953567--953658 Score: 71
Period size: 13 Copynumber: 6.6 Consensus size: 13
953557 AATGATCAAA
953567 AATTAATTAAATT
1 AATTAATTAAATT
953580 AATTAATTAAATT
1 AATTAATTAAATT
*
953593 GATATT--TTAAATC
1 -A-ATTAATTAAATT
953606 AATTAAAATTTAAATT
1 AATT--AA-TTAAATT
953622 AAATTAATTAAATT
1 -AATTAATTAAATT
* *
953636 GATTAAATTACATTT
1 AATT-AATTA-AATT
953651 AATTAATT
1 AATTAATT
953659 TTTTTAATTA
Statistics
Matches: 64, Mismatches: 5, Indels: 19
0.73 0.06 0.22
Matches are distributed among these distances:
11 3 0.05
12 1 0.02
13 22 0.34
14 17 0.27
15 11 0.17
16 6 0.09
17 4 0.06
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
AATTAATTAAATT
Found at i:953659 original size:9 final size:9
Alignment explanation
Indices: 953566--953658 Score: 75
Period size: 9 Copynumber: 10.0 Consensus size: 9
953556 TAATGATCAA
953566 AAATTAATT
1 AAATTAATT
953575 AAATTAATT
1 AAATTAATT
953584 -AATTAAATT
1 AAATT-AATT
*
953593 GATATT--TT
1 -AAATTAATT
*
953601 AAATCAATT
1 AAATTAATT
953610 AAAATTTAAATT
1 -AAA-TT-AATT
953622 AAATTAATT
1 AAATTAATT
*
953631 AAATTGATT
1 AAATTAATT
953640 AAATTACATT
1 AAATTA-ATT
*
953650 TAATTAATT
1 AAATTAATT
953659 TTTTTAATTA
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
7 3 0.04
8 6 0.09
9 35 0.51
10 13 0.19
11 7 0.10
12 4 0.06
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (9 bp):
AAATTAATT
Found at i:954880 original size:3 final size:3
Alignment explanation
Indices: 954872--954908 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
954862 AATCGCGAGG
954872 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
954909 CTTCGTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:956374 original size:2 final size:2
Alignment explanation
Indices: 956369--956395 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
956359 TCTCTCTCTA
956369 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
956396 ATCTTGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:957703 original size:12 final size:12
Alignment explanation
Indices: 957688--957719 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
957678 TGTGTTTTTT
957688 TCTCTCTTTCTC
1 TCTCTCTTTCTC
*
957700 TCTCTCTGTCTC
1 TCTCTCTTTCTC
957712 TCTCTCTT
1 TCTCTCTT
957720 CCACTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.41, G:0.03, T:0.56
Consensus pattern (12 bp):
TCTCTCTTTCTC
Found at i:961328 original size:2 final size:2
Alignment explanation
Indices: 961321--961347 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
961311 ATTAAATAAT
961321 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
961348 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:962417 original size:2 final size:2
Alignment explanation
Indices: 962377--962401 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
962367 GCACACATAC
962377 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
962402 CACACACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:962918 original size:15 final size:15
Alignment explanation
Indices: 962893--962931 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
962883 ATAATATAAA
962893 TATTAAAATTTAAATT
1 TATT-AAATTTAAATT
*
962909 TATTAAATTTAATTT
1 TATTAAATTTAAATT
*
962924 TTTTAAAT
1 TATTAAAT
962932 AATGATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTAAATTTAAATT
Found at i:964835 original size:19 final size:20
Alignment explanation
Indices: 964811--964848 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
964801 TAAAATTTTA
*
964811 TTAAATTTT-TTTATTTAAT
1 TTAAATTTTATTAATTTAAT
964830 TTAAATTTTATTAATTTAA
1 TTAAATTTTATTAATTTAA
964849 ATATCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTAAATTTTATTAATTTAAT
Found at i:965962 original size:21 final size:21
Alignment explanation
Indices: 965915--965963 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
965905 TCTAAGGAAG
*
965915 CTGCCATTGAACCAGACAAGA
1 CTGCCTTTGAACCAGACAAGA
** * *
965936 GAGCCTTTGAACCAGGCAAGC
1 CTGCCTTTGAACCAGACAAGA
965957 CTGCCTT
1 CTGCCTT
965964 CCTCCCTAGC
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (21 bp):
CTGCCTTTGAACCAGACAAGA
Found at i:967263 original size:19 final size:18
Alignment explanation
Indices: 967237--967273 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
967227 TTAAATTAAA
*
967237 TTTAATATTTTATAAATT
1 TTTAATATTTTAAAAATT
967255 TTTATATATTTTAAAAATT
1 TTTA-ATATTTTAAAAATT
967274 ATTTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAATATTTTAAAAATT
Found at i:974810 original size:1 final size:1
Alignment explanation
Indices: 974799--974829 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
974789 CATCAGGAGG
*
974799 TTTTTTCTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
974830 GAGTTATGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:978178 original size:2 final size:2
Alignment explanation
Indices: 978173--978207 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
978163 ACTCTCTGTC
*
978173 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
978208 GTTAGGGTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:980465 original size:30 final size:30
Alignment explanation
Indices: 980430--980531 Score: 91
Period size: 30 Copynumber: 3.3 Consensus size: 30
980420 TATATCAAAA
980430 ATAAATTTATTTATTTTTAAAATTTTTTAAT
1 ATAAATTTATTTATTTTTAAAA-TTTTTAAT
* * * * *
980461 -TAAA-TGATATTATTATTAATATATTAAAT
1 ATAAATTTAT-TTATTTTTAAAATTTTTAAT
*
980490 ATAAATTTTATTTATATTTTAAAAATTTTAAT
1 ATAAA-TTTATTTAT-TTTTAAAATTTTTAAT
*
980522 AAAAATTTAT
1 ATAAATTTAT
980532 ATAAATATAT
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
29 9 0.17
30 18 0.33
31 9 0.17
32 18 0.33
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
ATAAATTTATTTATTTTTAAAATTTTTAAT
Found at i:981074 original size:22 final size:24
Alignment explanation
Indices: 981048--981109 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
981038 TATATAAATA
981048 TAAATATAATATATTA-AAATT-T
1 TAAATATAATATATTACAAATTAT
* *
981070 TAAATATAATTATAATACATATTAT
1 TAAATATAA-TATATTACAAATTAT
981095 TAAATAT-ATATATTA
1 TAAATATAATATATTA
981110 TTTATATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 9 0.26
23 12 0.35
24 5 0.15
25 8 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
TAAATATAATATATTACAAATTAT
Found at i:983116 original size:21 final size:20
Alignment explanation
Indices: 983054--983118 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 20
983044 AGTGATAATA
983054 AAATATTAAATTT-TTAATTT
1 AAAT-TTAAATTTATTAATTT
* *
983074 TAATTATCAAATTCATTAAATTT
1 AAATT-T-AAATTTATT-AATTT
983097 AAATTTAAATTTAATTAATTT
1 AAATTTAAATTT-ATTAATTT
983118 A
1 A
983119 TATAATAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 16 0.44
22 6 0.17
23 9 0.25
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATTTAAATTTATTAATTT
Found at i:983675 original size:3 final size:3
Alignment explanation
Indices: 983667--983693 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
983657 ATAAAGGCAA
983667 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
983694 CAGATGAGAT
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):
ATT
Found at i:983948 original size:3 final size:3
Alignment explanation
Indices: 983940--983968 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
983930 TTATCATTCT
983940 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
983969 GAAAATAGAA
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:985416 original size:21 final size:20
Alignment explanation
Indices: 985385--985441 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
985375 TTCCTATGTT
*
985385 AAATTTATTTATTAATTATA
1 AAATTTATTTATTAATAATA
*
985405 AAATTATATTTATAAATAATA
1 AAATT-TATTTATTAATAATA
*
985426 ATTATTTATTTATTAA
1 A-AATTTATTTATTAA
985442 AAAATAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 5 0.16
21 23 0.74
22 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTTATTTATTAATAATA
Found at i:985458 original size:14 final size:14
Alignment explanation
Indices: 985439--985466 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
985429 ATTTATTTAT
985439 TAAAAAATAATAGA
1 TAAAAAATAATAGA
985453 TAAAAAATAATAGA
1 TAAAAAATAATAGA
985467 CCGAAAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (14 bp):
TAAAAAATAATAGA
Found at i:986988 original size:85 final size:85
Alignment explanation
Indices: 986807--987076 Score: 431
Period size: 85 Copynumber: 3.2 Consensus size: 85
986797 GCAAAAGCTA
* * * * *
986807 AAGGCCGAATA-GGGCAAAACCCAAGCCCAA-TACAAAGGCTCAAGGCCGAAGAGGGGC-AAGCC
1 AAGGCCGAAGAGGGGC-AAGCCGAAGCCCAATTACAAAGTCTCAAGGCCGAAGAGGGGCAAAACC
*
986869 GAAACCCAATTACAAAGTCTC
65 CAAACCCAATTACAAAGTCTC
986890 AAGGCCGAAGAGGGGCAAGCCGAAGCCCAATTACAAAGTCTCAAGGCCGAAGAGGGGCAAAACCC
1 AAGGCCGAAGAGGGGCAAGCCGAAGCCCAATTACAAAGTCTCAAGGCCGAAGAGGGGCAAAACCC
986955 AAACCCAATTACAAAGTCTC
66 AAACCCAATTACAAAGTCTC
*
986975 AAGGCCGAAGAGGGGCAAGCCGAAACCCAATTACAAAGTCTCAAGGCCGAAGAGGGGCAAAACCC
1 AAGGCCGAAGAGGGGCAAGCCGAAGCCCAATTACAAAGTCTCAAGGCCGAAGAGGGGCAAAACCC
*
987040 AAACCCAATTACAAAGGCTC
66 AAACCCAATTACAAAGTCTC
987060 AAGGCCGAAG-GGGGCAA
1 AAGGCCGAAGAGGGGCAA
987077 AACCCAAGCC
Statistics
Matches: 176, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
83 22 0.12
84 37 0.21
85 117 0.66
ACGTcount: A:0.39, C:0.27, G:0.26, T:0.08
Consensus pattern (85 bp):
AAGGCCGAAGAGGGGCAAGCCGAAGCCCAATTACAAAGTCTCAAGGCCGAAGAGGGGCAAAACCC
AAACCCAATTACAAAGTCTC
Found at i:987097 original size:42 final size:43
Alignment explanation
Indices: 986807--987089 Score: 416
Period size: 42 Copynumber: 6.7 Consensus size: 43
986797 GCAAAAGCTA
* * *
986807 AAGGCCGAATA-GGGCAAAACCCAAGCCCAA-TACAAAGGCTC
1 AAGGCCGAAGAGGGGCAAAACCCAAACCCAATTACAAAGTCTC
* *
986848 AAGGCCGAAGAGGGGC-AAGCCGAAACCCAATTACAAAGTCTC
1 AAGGCCGAAGAGGGGCAAAACCCAAACCCAATTACAAAGTCTC
* * *
986890 AAGGCCGAAGAGGGGC-AAGCCGAAGCCCAATTACAAAGTCTC
1 AAGGCCGAAGAGGGGCAAAACCCAAACCCAATTACAAAGTCTC
986932 AAGGCCGAAGAGGGGCAAAACCCAAACCCAATTACAAAGTCTC
1 AAGGCCGAAGAGGGGCAAAACCCAAACCCAATTACAAAGTCTC
* *
986975 AAGGCCGAAGAGGGGC-AAGCCGAAACCCAATTACAAAGTCTC
1 AAGGCCGAAGAGGGGCAAAACCCAAACCCAATTACAAAGTCTC
*
987017 AAGGCCGAAGAGGGGCAAAACCCAAACCCAATTACAAAGGCTC
1 AAGGCCGAAGAGGGGCAAAACCCAAACCCAATTACAAAGTCTC
*
987060 AAGGCCGAAG-GGGGCAAAACCCAAGCCCAA
1 AAGGCCGAAGAGGGGCAAAACCCAAACCCAA
987090 GTGCAAAGCT
Statistics
Matches: 223, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
41 21 0.09
42 130 0.58
43 72 0.32
ACGTcount: A:0.40, C:0.28, G:0.25, T:0.08
Consensus pattern (43 bp):
AAGGCCGAAGAGGGGCAAAACCCAAACCCAATTACAAAGTCTC
Found at i:987097 original size:127 final size:125
Alignment explanation
Indices: 986798--987089 Score: 467
Period size: 127 Copynumber: 2.3 Consensus size: 125
986788 GGTCCAAGTG
* * **
986798 CAAAAGCTAAAGGCCGAATAGGGCAAAACCCAAGCCCAATACAAAGGCTCAAGGCCGAAGAGGGG
1 CAAAGGCTCAAGGCCGAAGGGGGCAAAACCCAAGCCCAATACAAAGGCTCAAGGCCGAAGAGGGG
* * *
986863 CAAGCCGAAACCCAATTACAAAGTCTCAAGGCCGAAGAGGGGCAAGCCGAAGCCCAATTA
66 CAAGCCGAAACCCAATTACAAAGTCTCAAGGCCGAAGAGGGGCAAACCCAAACCCAATTA
* * *
986923 CAAAGTCTCAAGGCCGAAGAGGGGCAAAACCCAAACCCAATTACAAAGTCTCAAGGCCGAAGAGG
1 CAAAGGCTCAAGGCCGAAG-GGGGCAAAACCCAAGCCCAA-TACAAAGGCTCAAGGCCGAAGAGG
986988 GGCAAGCCGAAACCCAATTACAAAGTCTCAAGGCCGAAGAGGGGCAAAACCCAAACCCAATTA
64 GGCAAGCCGAAACCCAATTACAAAGTCTCAAGGCCGAAGAGGGGC-AAACCCAAACCCAATTA
987051 CAAAGGCTCAAGGCCGAAGGGGGCAAAACCCAAGCCCAA
1 CAAAGGCTCAAGGCCGAAGGGGGCAAAACCCAAGCCCAA
987090 GTGCAAAGCT
Statistics
Matches: 152, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
125 15 0.10
126 18 0.12
127 87 0.57
128 32 0.21
ACGTcount: A:0.40, C:0.27, G:0.25, T:0.08
Consensus pattern (125 bp):
CAAAGGCTCAAGGCCGAAGGGGGCAAAACCCAAGCCCAATACAAAGGCTCAAGGCCGAAGAGGGG
CAAGCCGAAACCCAATTACAAAGTCTCAAGGCCGAAGAGGGGCAAACCCAAACCCAATTA
Found at i:988443 original size:2 final size:2
Alignment explanation
Indices: 988438--988465 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
988428 ATATAGCGAT
988438 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
988466 GGTAAAACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:991060 original size:25 final size:23
Alignment explanation
Indices: 991020--991066 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
991010 TTAATAATAT
991020 ATTTATTTAAAAATTTAAATTTA
1 ATTTATTTAAAAATTTAAATTTA
*
991043 ATTTATATTAAATTATTTAAATTT
1 ATTTAT-TTAAA-AATTTAAATTT
991067 TATCAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 5 0.24
25 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTATTTAAAAATTTAAATTTA
Found at i:991376 original size:22 final size:22
Alignment explanation
Indices: 991332--991375 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
991322 TGTAATAATT
991332 ACATAATTTTTTTCATTTTAAA
1 ACATAATTTTTTTCATTTTAAA
*
991354 ACATTATTTTTTT-ATTTTAAA
1 ACATAATTTTTTTCATTTTAAA
991375 A
1 A
991376 ATCTTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (22 bp):
ACATAATTTTTTTCATTTTAAA
Found at i:992226 original size:15 final size:16
Alignment explanation
Indices: 992206--992247 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
992196 ACATATAAAT
992206 AATTTATAT-TATATA
1 AATTTATATATATATA
992221 AATTTATATATATATA
1 AATTTATATATATATA
* *
992237 TATATATATAT
1 AATTTATATAT
992248 TTTTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTATATATATATA
Found at i:992230 original size:2 final size:2
Alignment explanation
Indices: 992210--992247 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
992200 ATAAATAATT
* *
992210 TA TA T- TA TA TA AA TT TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
992248 TTTTTAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:992749 original size:24 final size:24
Alignment explanation
Indices: 992722--992774 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
992712 CATTTTTTTA
*
992722 AAAAATAATTATATATTTTTAAA-T
1 AAAAATAATT-TATATCTTTAAATT
*
992746 AAAATTAATTTATATCTTTAAATT
1 AAAAATAATTTATATCTTTAAATT
992770 AAAAA
1 AAAAA
992775 AAAATCTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAAATAATTTATATCTTTAAATT
Found at i:992774 original size:25 final size:26
Alignment explanation
Indices: 992719--992775 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 26
992709 AAACATTTTT
*
992719 TTAAAAAATAATTATATATTTTTAAA
1 TTAAAAAATAATTATATATCTTTAAA
*
992745 -T-AAAATTAATT-TATATCTTTAAA
1 TTAAAAAATAATTATATATCTTTAAA
992768 TTAAAAAA
1 TTAAAAAA
992776 AAATCTGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 11 0.42
24 10 0.38
25 5 0.19
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TTAAAAAATAATTATATATCTTTAAA
Found at i:995690 original size:18 final size:18
Alignment explanation
Indices: 995667--995704 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
995657 CATATGATTG
995667 ACAATTAAGCTCAAACCA
1 ACAATTAAGCTCAAACCA
*
995685 ACAATTAAGTTCAAACCA
1 ACAATTAAGCTCAAACCA
995703 AC
1 AC
995705 CAAATACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.26, G:0.05, T:0.18
Consensus pattern (18 bp):
ACAATTAAGCTCAAACCA
Found at i:996014 original size:28 final size:28
Alignment explanation
Indices: 995951--996015 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
995941 TATTTAATAA
* * * *
995951 AAATATAAATTTAAACTTAAACTCATTT
1 AAATATAAACTTAAACTAAAACCCAATT
995979 AAATATAAACTTAAACTAAAAGCCCAATT
1 AAATATAAACTTAAACTAAAA-CCCAATT
996008 AAA-ATAAA
1 AAATATAAA
996016 AAAAATGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (28 bp):
AAATATAAACTTAAACTAAAACCCAATT
Found at i:996705 original size:29 final size:28
Alignment explanation
Indices: 996672--996744 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
996662 TGAATAGGGT
996672 TTAATTAAATAAAAAGTATACTTTAA-AGC
1 TTAATTAAATAAAAA--ATACTTTAAGAGC
** *
996701 TTAATTGGAT-AAAAATACTTTAAGAGT
1 TTAATTAAATAAAAAATACTTTAAGAGC
996728 TTAATTAAATACAAAAA
1 TTAATTAAATA-AAAAA
996745 AAAAAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
26 9 0.25
27 10 0.28
28 4 0.11
29 13 0.36
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.34
Consensus pattern (28 bp):
TTAATTAAATAAAAAATACTTTAAGAGC
Found at i:998453 original size:22 final size:21
Alignment explanation
Indices: 998415--998458 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
998405 AAATTTTATT
998415 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
998436 TAAATATTAA-TATAAAAATATA
1 TAAAT-TTAATTAT-AAAATATA
998458 T
1 T
998459 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:999125 original size:2 final size:2
Alignment explanation
Indices: 999120--999154 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
999110 TTTTGTTCCT
*
999120 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
999155 TTTGGTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1009648 original size:2 final size:2
Alignment explanation
Indices: 1009641--1009675 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1009631 AGACAATCGG
1009641 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1009676 GAAACAAGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1009965 original size:21 final size:22
Alignment explanation
Indices: 1009940--1009980 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1009930 ATATGAATTA
1009940 ATTAAAAATTATTTA-ATTATT
1 ATTAAAAATTATTTATATTATT
* *
1009961 ATTAATAATTTTTTATATTA
1 ATTAAAAATTATTTATATTA
1009981 ATATATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTAAAAATTATTTATATTATT
Found at i:1011841 original size:3 final size:3
Alignment explanation
Indices: 1011833--1011867 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1011823 TATTGAAATA
1011833 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1011868 GTAACAAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1013542 original size:17 final size:17
Alignment explanation
Indices: 1013510--1013541 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1013500 TTTTTCTCCC
1013510 ATTTTTTTTTATTTTTG
1 ATTTTTTTTTATTTTTG
1013527 ATTTTTTTTT-TTTTT
1 ATTTTTTTTTATTTTT
1013542 TTTGTGGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (17 bp):
ATTTTTTTTTATTTTTG
Found at i:1013722 original size:13 final size:15
Alignment explanation
Indices: 1013697--1013744 Score: 66
Period size: 13 Copynumber: 3.3 Consensus size: 15
1013687 CTAAAGTAAT
1013697 TTATAATTTTAGTTA
1 TTATAATTTTAGTTA
1013712 TTA-AA-TTTAG-TA
1 TTATAATTTTAGTTA
1013724 TTATAATTTTAGTTA
1 TTATAATTTTAGTTA
1013739 TATATA
1 T-TATA
1013745 TTATAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.17
13 7 0.24
14 7 0.24
15 6 0.21
16 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (15 bp):
TTATAATTTTAGTTA
Found at i:1013742 original size:14 final size:14
Alignment explanation
Indices: 1013698--1013742 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
1013688 TAAAGTAATT
1013698 TATAATTTTAGTTA
1 TATAATTTTAGTTA
*
1013712 T-TAAATTTAG-TA
1 TATAATTTTAGTTA
1013724 TTATAATTTTAGTTA
1 -TATAATTTTAGTTA
1013739 TATA
1 TATA
1013743 TATTATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 2 0.08
13 9 0.35
14 13 0.50
15 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (14 bp):
TATAATTTTAGTTA
Found at i:1015563 original size:38 final size:37
Alignment explanation
Indices: 1015511--1015585 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 37
1015501 AATTAGGCTG
*
1015511 CAGGGTGATGTTGCGCTAGGAACCTTTGGAAGGCATT
1 CAGGGTGATGTTGCGCTAGGAACCTTAGGAAGGCATT
* *
1015548 CAGGGATGTTGTTGCGCTTGGAACCTTAGGAAGGCATT
1 CAGGG-TGATGTTGCGCTAGGAACCTTAGGAAGGCATT
1015586 GATTTGATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 5 0.15
38 29 0.85
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.28
Consensus pattern (37 bp):
CAGGGTGATGTTGCGCTAGGAACCTTAGGAAGGCATT
Found at i:1017459 original size:16 final size:17
Alignment explanation
Indices: 1017423--1017459 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
1017413 TATTTTTTAA
1017423 AAATAATTATATAAATT
1 AAATAATTATATAAATT
1017440 AAATAATT-TA-AAATTT
1 AAATAATTATATAAA-TT
1017456 AAAT
1 AAAT
1017460 TTAATATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 8 0.42
17 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATAATTATATAAATT
Found at i:1017549 original size:29 final size:30
Alignment explanation
Indices: 1017515--1017571 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
1017505 GCTAAAATAT
1017515 AAATAAAGTATCAAAATATTA-TATTTTTC
1 AAATAAAGTATCAAAATATTACTATTTTTC
** *
1017544 AAATAATTTATCAAACTATTACTATTTT
1 AAATAAAGTATCAAAATATTACTATTTT
1017572 AATTTTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.44
Consensus pattern (30 bp):
AAATAAAGTATCAAAATATTACTATTTTTC
Found at i:1018502 original size:28 final size:29
Alignment explanation
Indices: 1018465--1018521 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
1018455 TTACAAAATT
*
1018465 AAAATAATAATAATTTGATAAATTATTTA
1 AAAATAATAATAATTTAATAAATTATTTA
* *
1018494 AAAAT-ATAATATTTTAATAATTTATTTA
1 AAAATAATAATAATTTAATAAATTATTTA
1018522 TATTTACTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
AAAATAATAATAATTTAATAAATTATTTA
Found at i:1018821 original size:15 final size:15
Alignment explanation
Indices: 1018800--1018845 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
1018790 TTTGATTGTT
1018800 ATAAAATTTAATATA
1 ATAAAATTTAATATA
*
1018815 TTAAAATTTAAATAATA
1 ATAAAATTT-AAT-ATA
*
1018832 AAAAAATTTAATAT
1 ATAAAATTTAATAT
1018846 TTATTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 10 0.38
16 6 0.23
17 10 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAAAATTTAATATA
Found at i:1018844 original size:16 final size:16
Alignment explanation
Indices: 1018802--1018844 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
1018792 TGATTGTTAT
**
1018802 AAAATTTAAT-ATATT
1 AAAATTTAATAATAAA
1018817 AAAATTTAAATAATAAA
1 AAAATTT-AATAATAAA
1018834 AAAATTTAATA
1 AAAATTTAATA
1018845 TTTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 7 0.29
17 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATTTAATAATAAA
Found at i:1018881 original size:27 final size:27
Alignment explanation
Indices: 1018834--1018885 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1018824 AAATAATAAA
* *
1018834 AAAATTTAATATTTATTTTTTATTTAT
1 AAAATTTAATAATTATATTTTATTTAT
1018861 AAAATTT-ATAATTAGTATTTTATTT
1 AAAATTTAATAATTA-TATTTTATTT
1018886 TAATTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
AAAATTTAATAATTATATTTTATTTAT
Found at i:1030502 original size:2 final size:2
Alignment explanation
Indices: 1030495--1030519 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1030485 CTTATAACAA
1030495 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
1030520 TGGGGGGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1031173 original size:22 final size:21
Alignment explanation
Indices: 1031144--1031185 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1031134 AATTAAAATT
*
1031144 ATTTAATTTTAAACTTTAATA
1 ATTTAATTTAAAACTTTAATA
*
1031165 ATTTAAATTTAAAATTTTAAT
1 ATTT-AATTTAAAACTTTAAT
1031186 TCAAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTAATTTAAAACTTTAATA
Found at i:1031254 original size:20 final size:21
Alignment explanation
Indices: 1031229--1031267 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1031219 AAATTTAAAA
1031229 TAATTTAAAT-ATAAATAATT
1 TAATTTAAATAATAAATAATT
1031249 TAATTTAAATAATAAATAA
1 TAATTTAAATAATAAATAA
1031268 GTAAACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATTTAAATAATAAATAATT
Found at i:1031259 original size:14 final size:15
Alignment explanation
Indices: 1031151--1031261 Score: 68
Period size: 15 Copynumber: 7.1 Consensus size: 15
1031141 ATTATTTAAT
1031151 TTTAAACTTT-AATAA
1 TTTAAA-TTTAAATAA
1031166 TTTAAATTT-AA-AA
1 TTTAAATTTAAATAA
* *
1031179 TTTTAATTCAAATAA
1 TTTAAATTTAAATAA
*
1031194 TTTAAATATAATACTTAAAAAA
1 -TT---TA-AAT--TTAAATAA
*
1031216 TTAAAATTTAAAATAA
1 TTTAAATTT-AAATAA
*
1031232 TTTAAATATAAATAA
1 TTTAAATTTAAATAA
1031247 TTT-AATTTAAATAA
1 TTTAAATTTAAATAA
1031261 T
1 T
1031262 AAATAAGTAA
Statistics
Matches: 76, Mismatches: 10, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
13 9 0.12
14 18 0.24
15 19 0.25
16 14 0.18
17 3 0.04
18 1 0.01
19 1 0.01
20 3 0.04
21 2 0.03
22 6 0.08
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTAAATTTAAATAA
Found at i:1034340 original size:2 final size:2
Alignment explanation
Indices: 1034333--1034383 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1034323 GCTTGACTAC
1034333 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
1034375 AT AT AT AT A
1 AT AT AT AT A
1034384 AGGAAATTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1034832 original size:3 final size:3
Alignment explanation
Indices: 1034824--1034856 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1034814 TCAAAAATTC
*
1034824 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1034857 GGAAAGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1040281 original size:2 final size:2
Alignment explanation
Indices: 1040274--1040304 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1040264 AAGGAAAAAT
1040274 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1040305 GCACTCACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1053471 original size:19 final size:21
Alignment explanation
Indices: 1053425--1053480 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
1053415 AAAATTTTAT
1053425 TTAAAT-TTAATTATAAAATA
1 TTAAATATTAATTATAAAATA
1053445 TATAAATATTAA-TATAAAA-A
1 T-TAAATATTAATTATAAAATA
1053465 TTAAATATTAAGTTAT
1 TTAAATATTAA-TTAT
1053481 TTTATGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
19 10 0.31
20 3 0.09
21 15 0.47
22 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TTAAATATTAATTATAAAATA
Found at i:1054398 original size:11 final size:11
Alignment explanation
Indices: 1054374--1054408 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1054364 TATATGATTA
1054374 ATTTTTTAAA-
1 ATTTTTTAAAG
1054384 ATTTTTTAAAG
1 ATTTTTTAAAG
*
1054395 ATTTTTAAAAG
1 ATTTTTTAAAG
1054406 ATT
1 ATT
1054409 ATATTATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (11 bp):
ATTTTTTAAAG
Found at i:1054452 original size:13 final size:12
Alignment explanation
Indices: 1054426--1054464 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
1054416 GTATTTATAT
1054426 TTAAATAT-ATA
1 TTAAATATAATA
1054437 TTAAATATAAATA
1 TTAAATAT-AATA
1054450 TTAAATATGAATA
1 TTAAATAT-AATA
1054463 TT
1 TT
1054465 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.32
13 17 0.68
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (12 bp):
TTAAATATAATA
Found at i:1055974 original size:21 final size:18
Alignment explanation
Indices: 1055940--1055987 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 18
1055930 TGTTTAAAAA
1055940 ATATTAAAATATTATTTTT
1 ATATTAAAATATTA-TTTT
1055959 ATATTAATATATATTATTTT
1 ATATTAA-A-ATATTATTTT
1055979 ATAATTAAA
1 AT-ATTAAA
1055988 TTTAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.27
20 8 0.31
21 11 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTAAAATATTATTTT
Found at i:1056491 original size:2 final size:2
Alignment explanation
Indices: 1056484--1056514 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1056474 CATGTCCCTT
1056484 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1056515 GTCACCCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1057415 original size:2 final size:2
Alignment explanation
Indices: 1057408--1057434 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1057398 TCAATCTTGT
1057408 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1057435 GCGCTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1058737 original size:2 final size:2
Alignment explanation
Indices: 1058732--1058763 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1058722 GCACACAAAC
1058732 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
1058764 CTTTTAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1061979 original size:14 final size:14
Alignment explanation
Indices: 1061960--1061989 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1061950 TGCTATACAG
1061960 TTTTCCACTATTTT
1 TTTTCCACTATTTT
*
1061974 TTTTCCATTATTTT
1 TTTTCCACTATTTT
1061988 TT
1 TT
1061990 CCTTTAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTCCACTATTTT
Found at i:1071283 original size:3 final size:3
Alignment explanation
Indices: 1071275--1071310 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1071265 ATGATTAATC
1071275 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1071311 CTCTCCAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1072395 original size:2 final size:2
Alignment explanation
Indices: 1072388--1072425 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1072378 GCTACCACTT
1072388 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1072426 AAATTATAAA
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):
TA
Found at i:1072659 original size:19 final size:16
Alignment explanation
Indices: 1072617--1072654 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1072607 AAAAAAGTTG
1072617 TTTTTAAATGAGTAAT
1 TTTTTAAATGAGTAAT
*
1072633 TTTTTAAATGGGTAAT
1 TTTTTAAATGAGTAAT
*
1072649 TATTTA
1 TTTTTA
1072655 TTAAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (16 bp):
TTTTTAAATGAGTAAT
Found at i:1072847 original size:2 final size:2
Alignment explanation
Indices: 1072842--1072870 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1072832 TATATATATA
1072842 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1072871 TTTGAGTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1072903 original size:23 final size:24
Alignment explanation
Indices: 1072873--1072919 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1072863 GTGTGTGTTT
1072873 TGAGTGGGAAGT-T-AAAAAAAAAA
1 TGAGTGGG-AGTGTCAAAAAAAAAA
1072896 TGAGTGGGAGTGTCAAAAAAAAAA
1 TGAGTGGGAGTGTCAAAAAAAAAA
1072920 AAAAACTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 9 0.41
24 10 0.45
ACGTcount: A:0.53, C:0.02, G:0.28, T:0.17
Consensus pattern (24 bp):
TGAGTGGGAGTGTCAAAAAAAAAA
Found at i:1073035 original size:12 final size:12
Alignment explanation
Indices: 1072999--1073036 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1072989 TAACTTTATA
1072999 TTTATAATAAAT
1 TTTATAATAAAT
*
1073011 TTAATAGAT-AAT
1 TTTATA-ATAAAT
1073023 TTTATAATAAAT
1 TTTATAATAAAT
1073035 TT
1 TT
1073037 ATTAATTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.09
12 18 0.82
13 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
TTTATAATAAAT
Found at i:1073042 original size:12 final size:11
Alignment explanation
Indices: 1072998--1073038 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
1072988 TTAACTTTAT
1072998 ATTTATAATAA
1 ATTTATAATAA
1073009 ATTTAATAGATAA
1 ATTT-ATA-ATAA
*
1073022 TTTTATAATAA
1 ATTTATAATAA
1073033 ATTTAT
1 ATTTAT
1073039 TAATTGAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 13 0.50
12 6 0.23
13 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (11 bp):
ATTTATAATAA
Found at i:1073121 original size:2 final size:2
Alignment explanation
Indices: 1073089--1073132 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
1073079 CTACTTCCAT
* * * *
1073089 TA TA TA TG TA TA GA TA TA AA TA TA GA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1073131 TA
1 TA
1073133 GAGAGAGAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (2 bp):
TA
Found at i:1073131 original size:12 final size:12
Alignment explanation
Indices: 1073090--1073132 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
1073080 TACTTCCATT
*
1073090 ATATATGTATAG
1 ATATATATATAG
*
1073102 ATATAAATATAG
1 ATATATATATAG
*
1073114 ATATATATATAT
1 ATATATATATAG
1073126 ATATATA
1 ATATATA
1073133 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (12 bp):
ATATATATATAG
Found at i:1076551 original size:13 final size:14
Alignment explanation
Indices: 1076532--1076563 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
1076522 TGTTCCAATT
1076532 GAAAAAAAAAAACA
1 GAAAAAAAAAAACA
1076546 -AAAAAAAAAAACA
1 GAAAAAAAAAAACA
1076559 GAAAA
1 GAAAA
1076564 TCATACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAAACA
Found at i:1078387 original size:2 final size:2
Alignment explanation
Indices: 1078380--1078415 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1078370 TAATTATAGC
1078380 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
1078416 GTAGCTGGCG
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:1091718 original size:2 final size:2
Alignment explanation
Indices: 1091713--1091764 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
1091703 CACAACACTG
* * * * *
1091713 AT AT AT AT AT AT AT AT AT TT AT GT TT AT AA AT AT TT 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
1091755 AT AT AT AT AT
1 AT AT AT AT AT
1091765 CCACTAGCTG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
AT
Done.