Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold91
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: 1327174
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 48727 characters in sequence are not A, C, G, or T
File 5 of 8
Found at i:615803 original size:20 final size:20
Alignment explanation
Indices: 615774--615824 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
615764 TTCTACAATT
615774 TGTATCGATACATGAA-TGAA
1 TGTATCGATACAT-AAGTGAA
*
615794 TGTATTGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
*
615814 TGTATCAATAC
1 TGTATCGATAC
615825 TAGACCTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:615921 original size:48 final size:51
Alignment explanation
Indices: 615862--615976 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 51
615852 TCTGGAAAGA
*
615862 AAATGTATCGATACA-ATTT-ATTATATCGATACATTCTGGG-TTTAATCC-
1 AAATGTATCGATACATATTTCATTATATCAATACATTCTGGGTTTTAA-CCT
* * * *
615910 AAATGTATCGATACATTTTTCATTGTATCAATACATTTTGGGTTTTGACCT
1 AAATGTATCGATACATATTTCATTATATCAATACATTCTGGGTTTTAACCT
*
615961 AAATGTATCGAAACAT
1 AAATGTATCGATACAT
615977 TCTTTAATTG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 15 0.26
49 3 0.05
50 20 0.35
51 19 0.33
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (51 bp):
AAATGTATCGATACATATTTCATTATATCAATACATTCTGGGTTTTAACCT
Found at i:615977 original size:51 final size:49
Alignment explanation
Indices: 615862--615982 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 49
615852 TCTGGAAAGA
* * *
615862 AAATGTATCGATACA-ATTTATTATATCGATACATTCTGGGTTTAATCC
1 AAATGTATCGATACATTTTTATTGTATCAATACATTCTGGGTTTAATCC
* *
615910 AAATGTATCGATACATTTTTCATTGTATCAATACATTTTGGGTTTTGA-CC
1 AAATGTATCGATACATTTTT-ATTGTATCAATACATTCTGGG-TTTAATCC
*
615960 TAAATGTATCGAAACATTCTTTA
1 -AAATGTATCGATACATT-TTTA
615983 ATTGAGACAT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
48 15 0.24
49 3 0.05
50 20 0.32
51 21 0.34
52 3 0.05
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (49 bp):
AAATGTATCGATACATTTTTATTGTATCAATACATTCTGGGTTTAATCC
Found at i:616834 original size:51 final size:50
Alignment explanation
Indices: 616752--616863 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 50
616742 TTAGCTAGAT
* *
616752 TATCGATACATTCTGTTTTTTACCCAAATGTATCGATACA-TTCTTTAATG
1 TATCGATACATTCTATTTTTTACCCAAATGTATCGATACAGTT-TTCAATG
* *
616802 TATCGATACATTTTATCTTTTTACCCATATGTATCGATACAGTTTTCAATG
1 TATCGATACATTCTAT-TTTTTACCCAAATGTATCGATACAGTTTTCAATG
*
616853 CATCGATACAT
1 TATCGATACAT
616864 CTAGTTAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
50 14 0.25
51 39 0.71
52 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (50 bp):
TATCGATACATTCTATTTTTTACCCAAATGTATCGATACAGTTTTCAATG
Found at i:628217 original size:19 final size:19
Alignment explanation
Indices: 628193--628241 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
628183 GTGATACATT
628193 GTATCGATACAACACTTAC
1 GTATCGATACAACACTTAC
*
628212 GTATCGATACAACACTTAT
1 GTATCGATACAACACTTAC
*
628231 GCATCGATACA
1 GTATCGATACA
628242 GTTACTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (19 bp):
GTATCGATACAACACTTAC
Found at i:634045 original size:1 final size:1
Alignment explanation
Indices: 634039--634082 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
634029 CATTCATACC
* * **
634039 AAAAAAAATAAAAAAAACAAAAAAAAAGCAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
634083 GAAAGGTCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.91, C:0.05, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:634061 original size:18 final size:18
Alignment explanation
Indices: 634038--634082 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
634028 TCATTCATAC
634038 CAAAAAAAATA-AAAAAAA
1 CAAAAAAAA-ACAAAAAAA
634056 CAAAAAAAAAGCAAAAAAA
1 CAAAAAAAAA-CAAAAAAA
634075 -AAAAAAAA
1 CAAAAAAAA
634083 GAAAGGTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.04
18 17 0.68
19 7 0.28
ACGTcount: A:0.89, C:0.07, G:0.02, T:0.02
Consensus pattern (18 bp):
CAAAAAAAAACAAAAAAA
Found at i:634063 original size:19 final size:18
Alignment explanation
Indices: 634039--634086 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
634029 CATTCATACC
*
634039 AAAAAAAATAAAAAAAACA
1 AAAAAAAAGAAAAAAAA-A
*
634058 AAAAAAAAG-CAAAAAAA
1 AAAAAAAAGAAAAAAAAA
634075 AAAAAAAAGAAA
1 AAAAAAAAGAAA
634087 GGTCCAGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 7 0.28
19 8 0.32
ACGTcount: A:0.90, C:0.04, G:0.04, T:0.02
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAAA
Found at i:634087 original size:21 final size:20
Alignment explanation
Indices: 634039--634087 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
634029 CATTCATACC
* *
634039 AAAAAAAA-TAAAAAAAACA
1 AAAAAAAAGCAAAAAAAAAA
634058 AAAAAAAAGCAAAAAAAAAA
1 AAAAAAAAGCAAAAAAAAAA
634078 AAAAAGAAAG
1 AAAAA-AAAG
634088 GTCCAGATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 8 0.31
20 14 0.54
21 4 0.15
ACGTcount: A:0.88, C:0.04, G:0.06, T:0.02
Consensus pattern (20 bp):
AAAAAAAAGCAAAAAAAAAA
Found at i:639462 original size:19 final size:19
Alignment explanation
Indices: 639438--639512 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
639428 ATGTATTGTC
*
639438 CATGTATCGATACGATGAA
1 CATGTATCGATACAATGAA
**
639457 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
639477 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
639496 CATGTATCGATACAATG
1 CATGTATCGATACAATG
639513 TATAGTCGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
19 33 0.66
20 17 0.34
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:639486 original size:39 final size:39
Alignment explanation
Indices: 639432--639511 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
639422 ACTGCTATGT
*
639432 ATTGTCCATGTATCGATACGATGAACATGTATCGATACA
1 ATTGTCCATGTATCGATACAATGAACATGTATCGATACA
639471 ATTGTCCATGTATCGATACAATGAACATGTATCGATACA
1 ATTGTCCATGTATCGATACAATGAACATGTATCGATACA
639510 AT
1 AT
639512 GTATAGTCGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (39 bp):
ATTGTCCATGTATCGATACAATGAACATGTATCGATACA
Found at i:639669 original size:19 final size:20
Alignment explanation
Indices: 639625--639671 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
639615 CTGCCAGTTT
**
639625 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
639645 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
639664 CATGTATC
1 CATGTATC
639672 CATATAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:640931 original size:154 final size:154
Alignment explanation
Indices: 640641--640920 Score: 370
Period size: 153 Copynumber: 1.8 Consensus size: 154
640631 TGCCTGATAT
* * *
640641 CCCTAAAGGACTTAAAAAAGATTATAGTTAGGGTAAACCTATCCTATATACCCGCCTTCGACATA
1 CCCTAAAGGACTTAAAAAAGATTATAGATAGGGTAAACCTATCCTAAATACCCACCTTCGACATA
* * * * *
640706 AAAGCAGACCAGTGATAGCCTAGGACTTAGTTCTAAAAAATTATGAAAATGTCCCTAAGGGGTAC
66 AAAACAGACCAGTGACAACCTAAGACTTAGTTCTAAAAAATTATAAAAATGTCCCTAAGGGGTAC
640771 CTTTGACGTTGAGGTGCCCAATAC
131 CTTTGACGTTGAGGTGCCCAATAC
* *
640795 CCCTAAAGGACTT-AAAAAGATTATAGAT-GGGATGAACCTATCCTAAATACCTACCTTCGACAT
1 CCCTAAAGGACTTAAAAAAGATTATAGATAGGG-TAAACCTATCCTAAATACCCACCTTCGACAT
* ** * *
640858 AAAAACGGACTTGGTGACAACTTAAGACTT-GATTCTAAAAAATTATAAAAATG-CCCTTAGGGG
65 AAAAACAGAC-CAGTGACAACCTAAGACTTAG-TTCTAAAAAATTATAAAAATGTCCCTAAGGGG
640921 ATGCTTTTGA
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
152 3 0.03
153 59 0.55
154 46 0.43
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (154 bp):
CCCTAAAGGACTTAAAAAAGATTATAGATAGGGTAAACCTATCCTAAATACCCACCTTCGACATA
AAAACAGACCAGTGACAACCTAAGACTTAGTTCTAAAAAATTATAAAAATGTCCCTAAGGGGTAC
CTTTGACGTTGAGGTGCCCAATAC
Found at i:640954 original size:154 final size:153
Alignment explanation
Indices: 640641--640966 Score: 334
Period size: 154 Copynumber: 2.1 Consensus size: 153
640631 TGCCTGATAT
* * *
640641 CCCTAAAGGACTTAAAAAAGATTATAGTTAGGGTAAACCTATCCTATATACCCGCCTTCGACATA
1 CCCTAAAGGACTT-AAAAAGATTATAGATAGGGTAAACCTATCCTAAATACCCACCTTCGACATA
* * * * *
640706 AAAGCAGACCAGTGATAGCCTAGGACTTAGTTCTAAAAAATTATGAAAATGTCCCTAAGGGGTAC
65 AAAACAGACCAGTGACAACCTAAGACTTAGTTCTAAAAAATTATAAAAATGTCCCTAAGGGGTAC
* * * *** *
640771 CTTTGACGTTGAGGTGCCCAATAC
130 CTTTGACATAGAAGAAACCAACAC
* *
640795 CCCTAAAGGACTTAAAAAGATTATAGAT-GGGATGAACCTATCCTAAATACCTACCTTCGACATA
1 CCCTAAAGGACTTAAAAAGATTATAGATAGGG-TAAACCTATCCTAAATACCCACCTTCGACATA
* ** * *
640859 AAAACGGACTTGGTGACAACTTAAGACTT-GATTCTAAAAAATTATAAAAATG-CCCTTAGGGGA
65 AAAACAGAC-CAGTGACAACCTAAGACTTAG-TTCTAAAAAATTATAAAAATGTCCCTAAGGGG-
* * *
640922 TGCTTTTGACATAGAAGAAACCGACAC
127 TACCTTTGACATAGAAGAAACCAACAC
* * *
640949 TCCTAAAGGGCTCAAAAA
1 CCCTAAAGGACTTAAAAA
640967 AAAATGAAGG
Statistics
Matches: 140, Mismatches: 28, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
152 3 0.02
153 59 0.42
154 78 0.56
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (153 bp):
CCCTAAAGGACTTAAAAAGATTATAGATAGGGTAAACCTATCCTAAATACCCACCTTCGACATAA
AAACAGACCAGTGACAACCTAAGACTTAGTTCTAAAAAATTATAAAAATGTCCCTAAGGGGTACC
TTTGACATAGAAGAAACCAACAC
Found at i:641968 original size:15 final size:15
Alignment explanation
Indices: 641948--641979 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
641938 TCATTCCAAA
641948 CAGATTTGAAAATTT
1 CAGATTTGAAAATTT
641963 CAGATTTGAAAATTT
1 CAGATTTGAAAATTT
641978 CA
1 CA
641980 ACAAAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (15 bp):
CAGATTTGAAAATTT
Found at i:643720 original size:13 final size:13
Alignment explanation
Indices: 643702--643727 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
643692 ATTTTTCTAA
643702 TGTATCGATACAT
1 TGTATCGATACAT
643715 TGTATCGATACAT
1 TGTATCGATACAT
643728 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:646300 original size:13 final size:13
Alignment explanation
Indices: 646282--646320 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
646272 ATAATCCCCC
*
646282 TGTATCGATACAG
1 TGTATCGATACAA
*
646295 TGTATCGATGCAA
1 TGTATCGATACAA
646308 TGTATCGATACAA
1 TGTATCGATACAA
646321 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:652231 original size:13 final size:13
Alignment explanation
Indices: 652213--652272 Score: 76
Period size: 13 Copynumber: 5.0 Consensus size: 13
652203 ATTTTTCTAA
652213 TGTATCGATACAT
1 TGTATCGATACAT
652226 TGTATCGATACAT
1 TGTATCGATACAT
*
652239 T-TTTC--TA-A-
1 TGTATCGATACAT
652247 TGTATCGATACAT
1 TGTATCGATACAT
652260 TGTATCGATACAT
1 TGTATCGATACAT
652273 ACTTGATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 1 0.03
9 4 0.10
10 2 0.05
11 2 0.05
12 4 0.10
13 27 0.68
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:652243 original size:34 final size:34
Alignment explanation
Indices: 652200--652272 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
652190 AAAGCCAATG
652200 TACATTTTTCTAATGTATCGATACATTGTATCGA
1 TACATTTTTCTAATGTATCGATACATTGTATCGA
652234 TACATTTTTCTAATGTATCGATACATTGTATCGA
1 TACATTTTTCTAATGTATCGATACATTGTATCGA
652268 TACAT
1 TACAT
652273 ACTTGATGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (34 bp):
TACATTTTTCTAATGTATCGATACATTGTATCGA
Found at i:656228 original size:20 final size:20
Alignment explanation
Indices: 656193--656242 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
656183 TAATCTATAT
*
656193 CGATACAATAAGTGAATGTAA
1 CGATAC-ATGAGTGAATGTAA
*
656214 CGATACATGAGTGAATGTAT
1 CGATACATGAGTGAATGTAA
*
656234 TGATACATG
1 CGATACATG
656243 TCTAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (20 bp):
CGATACATGAGTGAATGTAA
Found at i:656353 original size:51 final size:51
Alignment explanation
Indices: 656298--656416 Score: 136
Period size: 51 Copynumber: 2.3 Consensus size: 51
656288 TCTGCAAGGA
* *
656298 AAATGTATTGATACA-T-TTCTATTATATCGATAAATTTTTG-GTTTTTGACTC
1 AAATGTATTGATACATTATTC-ATTATATCGATAAA-TTATGAG-TTTTGACCC
* *
656349 AAATGTATTGATACATTATTCATTGTATCGATATATTATGAGTTTTGACCC
1 AAATGTATTGATACATTATTCATTATATCGATAAATTATGAGTTTTGACCC
* *
656400 AAGTGTATCGATACATT
1 AAATGTATTGATACATT
656417 CTTTAATGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
51 42 0.71
52 14 0.24
53 3 0.05
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (51 bp):
AAATGTATTGATACATTATTCATTATATCGATAAATTATGAGTTTTGACCC
Found at i:659098 original size:17 final size:18
Alignment explanation
Indices: 659076--659134 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
659066 ATTGATACAT
659076 CATGCT-TTGTATCGATA
1 CATGCTATTGTATCGATA
659093 CATGCTCATTGTATCGATA
1 CATGCT-ATTGTATCGATA
*
659112 CATAGACAATTGTAT-GATA
1 CAT-G-CTATTGTATCGATA
659131 CATG
1 CATG
659135 AGATTGGCAG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 6 0.16
18 1 0.03
19 21 0.57
20 8 0.22
21 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (18 bp):
CATGCTATTGTATCGATA
Found at i:660787 original size:3 final size:3
Alignment explanation
Indices: 660779--660803 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
660769 TGAAGAGGAA
660779 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
660804 GTGACTCGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:664611 original size:33 final size:33
Alignment explanation
Indices: 664574--664684 Score: 117
Period size: 33 Copynumber: 3.5 Consensus size: 33
664564 TTTTTTGACA
664574 AAGGGGGAGAATTTTTGGAGAAATGCTTTGATT
1 AAGGGGGAGAATTTTTGGAGAAATGCTTTGATT
*** *
664607 AAGGGGGAGAAATTTTT---TTTAT--TTTGA-C
1 AAGGGGGAG-AATTTTTGGAGAAATGCTTTGATT
*
664635 AACAGGGGAGAATTTTTGGAGAAATGCTTTGATT
1 AA-GGGGGAGAATTTTTGGAGAAATGCTTTGATT
664669 AAGGGGGAGAATTTTT
1 AAGGGGGAGAATTTTT
664685 TTTAGTTTCT
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
28 9 0.15
29 11 0.18
31 4 0.07
33 27 0.45
34 9 0.15
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.35
Consensus pattern (33 bp):
AAGGGGGAGAATTTTTGGAGAAATGCTTTGATT
Found at i:664633 original size:62 final size:61
Alignment explanation
Indices: 664557--664688 Score: 230
Period size: 62 Copynumber: 2.1 Consensus size: 61
664547 ACAAATAAAT
*
664557 TTTTTTTTTTTTTGACAA-AGGGGGAGAATTTTTGGAGAAATGCTTTGATTAAGGGGGAGAAA
1 TTTTTTTTATTTTGACAACA-GGGGAGAATTTTTGGAGAAATGCTTTGATTAAGGGGGAG-AA
664619 TTTTTTTTATTTTGACAACAGGGGAGAATTTTTGGAGAAATGCTTTGATTAAGGGGGAGAA
1 TTTTTTTTATTTTGACAACAGGGGAGAATTTTTGGAGAAATGCTTTGATTAAGGGGGAGAA
664680 TTTTTTTTA
1 TTTTTTTTA
664689 GTTTCTTAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
61 11 0.16
62 56 0.82
63 1 0.01
ACGTcount: A:0.28, C:0.04, G:0.27, T:0.42
Consensus pattern (61 bp):
TTTTTTTTATTTTGACAACAGGGGAGAATTTTTGGAGAAATGCTTTGATTAAGGGGGAGAA
Found at i:666305 original size:80 final size:78
Alignment explanation
Indices: 666190--666440 Score: 301
Period size: 80 Copynumber: 3.1 Consensus size: 78
666180 ATCATTTCCA
*
666190 AAGGGATACTCCAATCCT-ATCTTTATTTCCAAAAACATCAAATTTTCCATCTTCAGGGATATTC
1 AAGGGATACTCCAA-CCTCTTCTTTATTTCC-AAAACATCAAATTTTCCATCTTCAGGGATATTC
666254 CAACCCTACCATTTTT
64 CAACCC-ACCATTTTT
* * *
666270 TAGGGATACTCCAACCTCTTCTGTATTTCCTAAAACATCAAATTTTCCATCTTCAAGGATACTT-
1 AAGGGATACTCCAACCTCTTCTTTATTTCC-AAAACATCAAATTTTCCATCTTCAGGGATA-TTC
* *
666334 CAACCGACCATTTTC
64 CAACCCACCATTTTT
* * * * *
666349 AATGGAATACTCCAACC-CTATCTTTATTTCCAAAACATTAAATTTTACATCTTGAGGGATACTC
1 AA-GGGATACTCCAACCTCT-TCTTTATTTCCAAAACATCAAATTTTCCATCTTCAGGGATATTC
666413 CAATCCCACCATTTTT
64 CAA-CCCACCATTTTT
666429 GAAGGGATACTC
1 -AAGGGATACTC
666441 TAAACCCATT
Statistics
Matches: 146, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 43 0.29
80 98 0.67
81 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (78 bp):
AAGGGATACTCCAACCTCTTCTTTATTTCCAAAACATCAAATTTTCCATCTTCAGGGATATTCCA
ACCCACCATTTTT
Found at i:666344 original size:25 final size:27
Alignment explanation
Indices: 666316--666365 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
666306 ATCAAATTTT
*
666316 CCATCTTCAA-GG-ATACTTCAACCGA
1 CCATCTTCAATGGAATACTCCAACCGA
*
666341 CCATTTTCAATGGAATACTCCAACC
1 CCATCTTCAATGGAATACTCCAACC
666366 CTATCTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 2 0.10
27 10 0.48
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.26
Consensus pattern (27 bp):
CCATCTTCAATGGAATACTCCAACCGA
Found at i:666401 original size:79 final size:80
Alignment explanation
Indices: 666190--666481 Score: 290
Period size: 80 Copynumber: 3.6 Consensus size: 80
666180 ATCATTTCCA
* *
666190 AAGGGATACTCCAATCCTATCTTTATTTCCAAAAACATCAAATTTTCCATCTTCAGGGATA-TTC
1 AAGGAATACTCCAACCCTATCTTTATTTCCAAAAACATCAAATTTTCCATCTTCAGGGATACTT-
* *
666254 CAACCCTACCATTTTT
65 CAACCCCACCATTTTC
* * * * *
666270 TAGGGATACTCCAACCTCT-TCTGTATTTCCTAAAACATCAAATTTTCCATCTTCAAGGATACTT
1 AAGGAATACTCCAACC-CTATCTTTATTTCCAAAAACATCAAATTTTCCATCTTCAGGGATACTT
*
666334 CAA-CCGACCATTTTC
65 CAACCCCACCATTTTC
* * * *
666349 AATGGAATACTCCAACCCTATCTTTATTTCC-AAAACATTAAATTTTACATCTTGAGGGATACTC
1 AA-GGAATACTCCAACCCTATCTTTATTTCCAAAAACATCAAATTTTCCATCTTCAGGGATACTT
* *
666413 CAATCCCACCATTTTTG
65 CAACCCCACCA-TTTTC
* * * ** *
666430 AAGGGATACTCTAAACCC-ATTTTTGCTTCCAAAAATATCAAAATTTT-CATCT
1 AAGGAATACTC-CAACCCTATCTTTATTTCCAAAAACATC-AAATTTTCCATCT
666482 ATGGGGATTC
Statistics
Matches: 179, Mismatches: 24, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
79 44 0.25
80 102 0.57
81 26 0.15
82 7 0.04
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (80 bp):
AAGGAATACTCCAACCCTATCTTTATTTCCAAAAACATCAAATTTTCCATCTTCAGGGATACTTC
AACCCCACCATTTTC
Found at i:670800 original size:104 final size:104
Alignment explanation
Indices: 670617--670805 Score: 290
Period size: 104 Copynumber: 1.8 Consensus size: 104
670607 ATTTGCCTGC
* *
670617 ATGTATTGATACATTTCATAGTGTATCGATACATCTGGGCAAAATTGCCAGTATGTATTGATACA
1 ATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAAATTGCCAGCATGTATTGATACA
** *
670682 TTTCATAGTTTATCGATACATCTAGGCAAAATTACCGGT
66 TAACATAGTGTATCGATACATCTAGGCAAAATTACCGGT
* *
670721 ATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATTGATACA
1 ATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAAATTGCCAGCATGTATTGATACA
*
670786 -AAGATCAGTGTATCGATACA
66 TAACAT-AGTGTATCGATACA
670806 ATGTATCGAT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
103 2 0.03
104 74 0.97
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (104 bp):
ATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAAATTGCCAGCATGTATTGATACA
TAACATAGTGTATCGATACATCTAGGCAAAATTACCGGT
Found at i:670805 original size:52 final size:52
Alignment explanation
Indices: 670604--670785 Score: 274
Period size: 52 Copynumber: 3.5 Consensus size: 52
670594 CCGAATTATG
670604 AAAATTTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAAA-TTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
670657 AAAATTGCCAGTATGTATTGATACATTTCATAGTTTATCGATACATCTAGGC
1 AAAATTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
670709 AAAATTACCGGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAAATTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
*
670761 AAATTTGCCTGCATGTATTGATACA
1 AAAATTGCCTGCATGTATTGATACA
670786 AAGATCAGTG
Statistics
Matches: 115, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
52 111 0.97
53 4 0.03
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (52 bp):
AAAATTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:670812 original size:13 final size:13
Alignment explanation
Indices: 670794--670818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
670784 CAAAGATCAG
670794 TGTATCGATACAA
1 TGTATCGATACAA
670807 TGTATCGATACA
1 TGTATCGATACA
670819 CTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:670881 original size:13 final size:13
Alignment explanation
Indices: 670863--670978 Score: 52
Period size: 13 Copynumber: 7.5 Consensus size: 13
670853 AGCTTCGTAG
670863 CGATACATTGTAT
1 CGATACATTGTAT
670876 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
*
670895 CGATACATTGCAT
1 CGATACATTGTAT
670908 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
670927 CGATACATTGTAT
1 CGATACATTGTAT
670940 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
670959 CGATACATTGTAT
1 CGATACATTGTAT
*
670972 CAATACA
1 CGATACA
670979 AATCGTTGAA
Statistics
Matches: 82, Mismatches: 3, Indels: 36
0.68 0.02 0.30
Matches are distributed among these distances:
13 33 0.40
14 2 0.02
15 2 0.02
16 14 0.17
17 2 0.02
18 2 0.02
19 27 0.33
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:670895 original size:19 final size:18
Alignment explanation
Indices: 670871--670965 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
670861 AGCGATACAT
670871 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
670890 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
670903 TGCATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
670922 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
670935 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
670954 TGTATCGATACA
1 TGTATCGATACA
670966 TTGTATCAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 24
0.70 0.02 0.27
Matches are distributed among these distances:
13 21 0.34
14 2 0.03
16 4 0.06
18 2 0.03
19 33 0.53
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:670904 original size:32 final size:32
Alignment explanation
Indices: 670863--670980 Score: 200
Period size: 32 Copynumber: 3.7 Consensus size: 32
670853 AGCTTCGTAG
670863 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
670895 CGATACATTGCATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
670927 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
670959 CGATACATTGTATCAATACAAA
1 CGATACATTGTATCGATACAAA
670981 TCGTTGAAAT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 81 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:671885 original size:49 final size:49
Alignment explanation
Indices: 671725--672105 Score: 318
Period size: 49 Copynumber: 7.8 Consensus size: 49
671715 CAAAAAATGA
* * * * * * *
671725 CAATGTGCTGATTCATGGCCAGTGACATTAGACTTGAAGAAG-AA-TGT
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
** * * * *
671772 CAATGCGCTGATACAAGGCCAACAACATTAGG-CTTAGGAATG-TTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGACTTA--AA-GATGAAAG-TGC
** * **
671824 CAATATGCTGATTCAAGGCCAATGATATTGGGTTTAAAGATGAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* *
671873 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAA-GTGC
* * *
671925 CAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* *
671974 CAATGTGCTGAGTCAAGGCCAGCGACATTGGACTT-AA-A-G---GTG-
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
* * *
672016 CAATGTGCTGATTCAAGGCCAGCGACAATGGTCTTAAAGAT-AAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAA-GTGC
* *
672065 CAATATGCTAATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
672106 AGACGCCACC
Statistics
Matches: 270, Mismatches: 43, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
42 32 0.12
43 5 0.02
44 1 0.00
46 1 0.00
47 27 0.10
48 6 0.02
49 107 0.40
50 16 0.06
51 5 0.02
52 70 0.26
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGTGC
Found at i:671927 original size:101 final size:101
Alignment explanation
Indices: 671822--672105 Score: 320
Period size: 101 Copynumber: 2.9 Consensus size: 101
671812 TGTTAAAGAT
* * ** *
671822 GCCAATATGCTGATTCAAGGCCAATGATATTGGGTTTAAAGATGAAAGTGCCAATGTGCTGATTC
1 GCCAATACGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAAGTGCCAATGTGCTGAGTC
671887 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGC
66 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGC
* *
671923 GCCAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTC
1 GCCAATACGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAAGTGCCAATGTGCTGAGTC
* *
671988 AAGGCCAGCGACATTGGACTTAAAGGTG-C-AA--T
66 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGC
* * * * * * *
672020 G----T--GCTGATTCAAGGCCAGCGACAATGGTCTTAAAGAT-AAAGGTGCCAATATGCTAATT
1 GCCAATACGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAA-GTGCCAATGTGCTGAGT
*
672078 CAAGGCCAGCGATATTGGACTTAGAAGA
65 CAAGGCCAGCGACATTGGACTTA-AAGA
672106 AGACGCCACC
Statistics
Matches: 163, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
90 2 0.01
91 68 0.42
92 3 0.02
93 1 0.01
97 1 0.01
99 2 0.01
100 1 0.01
101 85 0.52
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (101 bp):
GCCAATACGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAAGTGCCAATGTGCTGAGTC
AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGC
Found at i:672086 original size:91 final size:91
Alignment explanation
Indices: 671931--672100 Score: 268
Period size: 91 Copynumber: 1.9 Consensus size: 91
671921 GCGCCAATAC
* * * * *
671931 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAG
1 GCTGATTCAAGGCCAGCGACAATGGACTTAAAGATAAAGGTGCCAATATGCTAAGTCAAGGCCAG
671996 CGACATTGGACTTAAAGGTGCAATGT
66 CGACATTGGACTTAAAGGTGCAATGT
* *
672022 GCTGATTCAAGGCCAGCGACAATGGTCTTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAG
1 GCTGATTCAAGGCCAGCGACAATGGACTTAAAGATAAAGGTGCCAATATGCTAAGTCAAGGCCAG
*
672087 CGATATTGGACTTA
66 CGACATTGGACTTA
672101 GAAGAAGACG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 71 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (91 bp):
GCTGATTCAAGGCCAGCGACAATGGACTTAAAGATAAAGGTGCCAATATGCTAAGTCAAGGCCAG
CGACATTGGACTTAAAGGTGCAATGT
Found at i:672203 original size:34 final size:35
Alignment explanation
Indices: 672158--672241 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 35
672148 GTGGGCTTTT
* * * *
672158 GAAAAGGGTGCCACTAACTTGTGGGCTTA-AAAGG
1 GAAAAGAGTGCCACGAACTTATGGGCTTACAAAAG
* *
672192 GAAAAGAGTGCCACGGAGTTATGGGCTTACAAAAG
1 GAAAAGAGTGCCACGAACTTATGGGCTTACAAAAG
*
672227 AAAAAGAGTGCCACG
1 GAAAAGAGTGCCACG
672242 GAGTTGTAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 24 0.57
35 18 0.43
ACGTcount: A:0.37, C:0.15, G:0.31, T:0.17
Consensus pattern (35 bp):
GAAAAGAGTGCCACGAACTTATGGGCTTACAAAAG
Found at i:672239 original size:35 final size:33
Alignment explanation
Indices: 672179--672272 Score: 109
Period size: 35 Copynumber: 2.8 Consensus size: 33
672169 CACTAACTTG
*
672179 TGGGCTTAAAAGGGAAAAGAGTGCCACGGAGTTA
1 TGGGCTTAAAA-AGAAAAGAGTGCCACGGAGTTA
*
672213 TGGGCTTACAAAAGAAAAAGAGTGCCACGGAGTTG
1 TGGGCTTA-AAAAG-AAAAGAGTGCCACGGAGTTA
* *
672248 TAGACTTAAAAAAGAAAAG-GTGCCA
1 TGGGCTT-AAAAAGAAAAGAGTGCCA
672273 ATATGCTGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.11
34 14 0.26
35 32 0.60
36 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.30, T:0.17
Consensus pattern (33 bp):
TGGGCTTAAAAAGAAAAGAGTGCCACGGAGTTA
Found at i:672440 original size:30 final size:29
Alignment explanation
Indices: 672399--672635 Score: 263
Period size: 30 Copynumber: 8.2 Consensus size: 29
672389 TAGGCTTTTG
* *
672399 AAGGTTGCCACTAATTTGTGGGCTTTGAA
1 AAGGGTGCCACTGATTTGTGGGCTTTGAA
*
672428 ATAGGGTGCCACTGACTTGTGGGCTTTTG--
1 A-AGGGTGCCACTGATTTGTGGGC-TTTGAA
*
672457 AAGGTTGCCACTGATTTGTGGGCTTTG--
1 AAGGGTGCCACTGATTTGTGGGCTTTGAA
* *
672484 AAGGTTGCCACTGATCTGTGGGCTTTGAAA
1 AAGGGTGCCACTGATTTGTGGGCTTTG-AA
* *
672514 AATGGTGCCACTGATTTGTGGACTTTGGAA
1 AAGGGTGCCACTGATTTGTGGGCTTT-GAA
672544 AAGGGTGCCACTGATTTGTGGGCTTTG--
1 AAGGGTGCCACTGATTTGTGGGCTTTGAA
* *
672571 AAGGTTGCCACTGACTTGTGGGCTTTGAA
1 AAGGGTGCCACTGATTTGTGGGCTTTGAA
* * *
672600 AAAGATGCCACT-ACTTGTGGGCTTTTGAA
1 AAGGGTGCCACTGATTTGTGGGC-TTTGAA
672629 AAGGGTG
1 AAGGGTG
672636 AGGAATGTAT
Statistics
Matches: 181, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
27 55 0.30
28 30 0.17
29 24 0.13
30 67 0.37
31 5 0.03
ACGTcount: A:0.21, C:0.15, G:0.32, T:0.32
Consensus pattern (29 bp):
AAGGGTGCCACTGATTTGTGGGCTTTGAA
Found at i:672504 original size:85 final size:84
Alignment explanation
Indices: 672386--672628 Score: 337
Period size: 85 Copynumber: 2.8 Consensus size: 84
672376 TGCCATGGAC
* * * *
672386 TTGTAGGCTTTTGAAGGTTGCCACTAATTTGTGGGCTTTGAAATAGGGTGCCACTGACTTGTGGG
1 TTGTGGGC-TTTGAAGGTTGCCACTGATCTGTGGGCTTTGAAA-AAGGTGCCACTGACTTGTGGG
*
672451 CTTTTGAAGGTTGCCACTGAT
64 CTTTTGAAGGGTGCCACTGAT
* *
672472 TTGTGGGCTTTGAAGGTTGCCACTGATCTGTGGGCTTTGAAAAATGGTGCCACTGATTTGTGGAC
1 TTGTGGGCTTTGAAGGTTGCCACTGATCTGTGGGCTTTGAAAAA-GGTGCCACTGACTTGTGGGC
*
672537 TTTGGAAAAGGGTGCCACTGAT
65 TTTTG--AAGGGTGCCACTGAT
*
672559 TTGTGGGCTTTGAAGGTTGCCACTGA-CTTGTGGGCTTTGAAAAAGATGCCACT-ACTTGTGGGC
1 TTGTGGGCTTTGAAGGTTGCCACTGATC-TGTGGGCTTTGAAAAAGGTGCCACTGACTTGTGGGC
672622 TTTTGAA
65 TTTTGAA
672629 AAGGGTGAGG
Statistics
Matches: 141, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
83 2 0.01
84 1 0.01
85 66 0.47
86 16 0.11
87 56 0.40
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.34
Consensus pattern (84 bp):
TTGTGGGCTTTGAAGGTTGCCACTGATCTGTGGGCTTTGAAAAAGGTGCCACTGACTTGTGGGCT
TTTGAAGGGTGCCACTGAT
Found at i:672619 original size:115 final size:116
Alignment explanation
Indices: 672404--672630 Score: 329
Period size: 115 Copynumber: 2.0 Consensus size: 116
672394 TTTTGAAGGT
*
672404 TGCCACTAATTTGTGGGCTTTGAAATAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACT
1 TGCCACTAATTTGTGGACTTTGAAATAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACT
* * *
672469 GATTTGTGGGCTTTGAAGGTTGCCACTGATCTGTGGGC-TTTGAAAAATGG
66 GACTTGTGGGCTTTGAAAGATGCCACTGATCTGTGGGCTTTTGAAAAATGG
* *
672519 TGCCACTGATTTGTGGACTTTGGAAA-AGGGTGCCACTGATTTGTGGGC-TTTGAAGGTTGCCAC
1 TGCCACTAATTTGTGGACTTT-GAAATAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCAC
672582 TGACTTGTGGGCTTTGAAAAAGATGCCACT-A-CTTGTGGGCTTTTGAAAA
65 TGACTTGTGGGCTTTG--AAAGATGCCACTGATC-TGTGGGCTTTTGAAAA
672631 GGGTGAGGAA
Statistics
Matches: 101, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
114 31 0.31
115 48 0.48
116 22 0.22
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (116 bp):
TGCCACTAATTTGTGGACTTTGAAATAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACT
GACTTGTGGGCTTTGAAAGATGCCACTGATCTGTGGGCTTTTGAAAAATGG
Found at i:674048 original size:1 final size:1
Alignment explanation
Indices: 674044--674129 Score: 55
Period size: 1 Copynumber: 86.0 Consensus size: 1
674034 TTTCTGTTTG
* * * * * * * * * *
674044 TTTTTTTTTTATTTTTTTCTCTTCTTTTTTTTGTTTTGTTTGTTTTTTTGTTTTTTTTTCTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
674109 TTTTTGTTTTGTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTT
674130 GTGGAGGACG
Statistics
Matches: 59, Mismatches: 26, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.01, C:0.07, G:0.07, T:0.85
Consensus pattern (1 bp):
T
Found at i:674083 original size:38 final size:37
Alignment explanation
Indices: 674032--674129 Score: 135
Period size: 38 Copynumber: 2.6 Consensus size: 37
674022 TTTGTTGTTG
*
674032 TTTTTCTG-TTTGTTTTTTTTTTATTTTTTTCTCTTCT
1 TTTTTTTGTTTTGTTTTTTTTTTATTTTTTTCTC-TCT
* *
674069 TTTTTTTGTTTTGTTTGTTTTTTTGTTTTTTTTTCTCT
1 TTTTTTTGTTTTGTTT-TTTTTTTATTTTTTTCTCTCT
*
674107 TTTTTTTGTTTTGTTTTCTTTTT
1 TTTTTTTGTTTTGTTTTTTTTTT
674130 GTGGAGGACG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
37 13 0.24
38 26 0.47
39 16 0.29
ACGTcount: A:0.01, C:0.07, G:0.08, T:0.84
Consensus pattern (37 bp):
TTTTTTTGTTTTGTTTTTTTTTTATTTTTTTCTCTCT
Found at i:674123 original size:12 final size:12
Alignment explanation
Indices: 674020--674123 Score: 70
Period size: 12 Copynumber: 8.2 Consensus size: 12
674010 ATCCGGACCC
674020 TTTTTGTTGTTGT
1 TTTTTGTT-TTGT
674033 TTTTCTG-TTTGT
1 TTTT-TGTTTTGT
*
674045 TTTTT-TTTTATT
1 TTTTTGTTTT-GT
* *
674057 TTTTTCTCTTCTTT
1 TTTTTGT-TT-TGT
674071 TTTTTGTTTTGT
1 TTTTTGTTTTGT
674083 TTGTTT-TTTTGT
1 TT-TTTGTTTTGT
* *
674095 TTTTTTTTCTCTTT
1 TTTTTGTT-T-TGT
674109 TTTTTGTTTTGT
1 TTTTTGTTTTGT
674121 TTT
1 TTT
674124 CTTTTTGTGG
Statistics
Matches: 75, Mismatches: 6, Indels: 21
0.74 0.06 0.21
Matches are distributed among these distances:
11 7 0.09
12 33 0.44
13 13 0.17
14 21 0.28
15 1 0.01
ACGTcount: A:0.01, C:0.06, G:0.11, T:0.83
Consensus pattern (12 bp):
TTTTTGTTTTGT
Found at i:675913 original size:3 final size:3
Alignment explanation
Indices: 675905--675936 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
675895 CAGTTTCTTT
675905 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
675937 TTACTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:676597 original size:209 final size:209
Alignment explanation
Indices: 676288--676914 Score: 1200
Period size: 209 Copynumber: 3.0 Consensus size: 209
676278 TAGATAAAAT
* *
676288 TTAAAATTCAAGTTAACATGTAATTAAAGGTATCAATATTTCGAGCGTCATGAGAGGGATTGATC
1 TTAAAATTCAATTTAACATGTAATTAAAGGTATCAATATTTTGAGCGTCATGAGAGGGATTGATC
*
676353 CTTACTTGTGATTGTAACTGACTCCTGAACCCTCTTACATGATCTCTAGTATTCATGTAGATCCT
66 CTTACTTGTGATTGTAACTGACTCCTGAACCCTCTTACATGATCTCTAGTATTCATGCAGATCCT
* *
676418 GTGATTTATTTTTTGGCTTTTGTATCACTTAAAATATTAATTCTGACAGGTGACAATCTCACTCG
131 GTGATTTATTTTTTGGCTTTCGTATCACTTAAAATATTAATTCTGACAGGTGACAATCTCACTTG
676483 GCCAAAATAGAATA
196 GCCAAAATAGAATA
676497 TTAAAATTCAATTTAACATGTAATTAAAGGTATCAATATTTTGAGCGTCATGAGAGGGATTGATC
1 TTAAAATTCAATTTAACATGTAATTAAAGGTATCAATATTTTGAGCGTCATGAGAGGGATTGATC
676562 CTTACTTGTGATTGTAACTGACTCCTGAACCCTCTTACATGATCTCTAGTATTCATGCAGATCCT
66 CTTACTTGTGATTGTAACTGACTCCTGAACCCTCTTACATGATCTCTAGTATTCATGCAGATCCT
676627 GTGATTTATTTTTTGGCTTTCGTATCACTTAAAATATTAATTCTGACAGGTGACAATCTCACTTG
131 GTGATTTATTTTTTGGCTTTCGTATCACTTAAAATATTAATTCTGACAGGTGACAATCTCACTTG
676692 GCCAAAATAGAATA
196 GCCAAAATAGAATA
676706 TTAAAATTCAATTTAACATGTAATTAAAGGTATCAATATTTTGAGCGTCATGAGAGGGATTGATC
1 TTAAAATTCAATTTAACATGTAATTAAAGGTATCAATATTTTGAGCGTCATGAGAGGGATTGATC
676771 CTTACTTGTGATTGTAACTGACTCCTGAACCCTCTTACATGATCTCTAGTATTCATGCAGATCCT
66 CTTACTTGTGATTGTAACTGACTCCTGAACCCTCTTACATGATCTCTAGTATTCATGCAGATCCT
*
676836 GTGATTTATTTTTTGGCTTTCGTATCACTTAAAATATTAATTCTGATAGGTGACAATCTCACTTG
131 GTGATTTATTTTTTGGCTTTCGTATCACTTAAAATATTAATTCTGACAGGTGACAATCTCACTTG
676901 GCCAAAATAGAATA
196 GCCAAAATAGAATA
676915 GTAGTGTCTC
Statistics
Matches: 412, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
209 412 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (209 bp):
TTAAAATTCAATTTAACATGTAATTAAAGGTATCAATATTTTGAGCGTCATGAGAGGGATTGATC
CTTACTTGTGATTGTAACTGACTCCTGAACCCTCTTACATGATCTCTAGTATTCATGCAGATCCT
GTGATTTATTTTTTGGCTTTCGTATCACTTAAAATATTAATTCTGACAGGTGACAATCTCACTTG
GCCAAAATAGAATA
Found at i:679291 original size:39 final size:38
Alignment explanation
Indices: 679246--679359 Score: 92
Period size: 39 Copynumber: 2.9 Consensus size: 38
679236 TAATACCAAA
679246 TCTAGGGTCATGTGGGAACTTTAATGTCAATACATGTC
1 TCTAGGGTCATGTGGGAACTTTAATGTCAATACATGTC
* * * *
679284 TATTAGGGTTATATAGGTAA-TATTATAT-T-AATAC-TGAGTC
1 T-CTAGGGTCATGT-GGGAACT-TTA-ATGTCAATACAT--GTC
* *
679324 TCTAGGGTCATGTGAGAACTTTCATGTCAATACATG
1 TCTAGGGTCATGTGGGAACTTTAATGTCAATACATG
679360 CCCATTGGGG
Statistics
Matches: 56, Mismatches: 10, Indels: 20
0.65 0.12 0.23
Matches are distributed among these distances:
37 2 0.04
38 9 0.16
39 30 0.54
40 13 0.23
41 2 0.04
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (38 bp):
TCTAGGGTCATGTGGGAACTTTAATGTCAATACATGTC
Found at i:679357 original size:154 final size:153
Alignment explanation
Indices: 678939--679543 Score: 571
Period size: 154 Copynumber: 4.0 Consensus size: 153
678929 AAATTAAGTC
* * * * * *
678939 TCTAGGGTCATGTAGGAACTTTTATGTCGATATATGTCCATT-AGTTTTATTTAGGTAAGACTAC
1 TCTAGGGTCATGTGGGAACTTTCATGTCGATACATGTCCATTAAG-GTTA-TTAGGTAATATTAC
* * * *
679003 ATTAATACTAAGTCTGTA-GGTCATGTG-GAAACTTTCATATCAATGCATGTCTATTAGGGTTAT
64 ATTAATACTAAGTCTCTAGGGTCATGTGAGAAA-TTTCATGTCAATACATGTCCATTAGGGTTAT
* **
679066 TTAGGTAATATTACATTAATACGAGCC
128 TTAGGTAATATTACATTAATACCA-AA
* * * * *
679093 TTTA-GGTCATTTAGGG-ACTTTCATGTCGATACATGTCCATTAAGGTTCATTTGGTGATATTAT
1 TCTAGGGTCATGT-GGGAACTTTCATGTCGATACATGTCCATTAAGGTT-ATTAGGTAATATTAC
* * * * * * * * * * *
679156 TTTAATACTAAATGTCTAAGATCACGTGAAAAATTTTAAGTCGATACATGTCCATTATGGTTCA-
64 ATTAATACTAAGTCTCTAGGGTCATGTGAGAAATTTCATGTCAATACATGTCCATTAGGGTT-AT
** * *
679220 TTAAATGATATTACTTTAATACCAAA
128 TTAGGTAATATTACATTAATACCAAA
* * * * *
679246 TCTAGGGTCATGTGGGAACTTTAATGTCAATACATGTCTATTAGGGTTATATAGGTAATATTATA
1 TCTAGGGTCATGTGGGAACTTTCATGTCGATACATGTCCATTAAGGTTAT-TAGGTAATATTACA
* * * *
679311 TTAATACTGAGTCTCTAGGGTCATGTGAGAACTTTCATGTCAATACATGCCCATTGGGGTTATTT
65 TTAATACTAAGTCTCTAGGGTCATGTGAGAAATTTCATGTCAATACATGTCCATTAGGGTTATTT
** *
679376 AGGTAATATTACATTAATACTGAG
130 AGGTAATATTACATTAATACCAAA
* * * *
679400 TCTAGGGTCATGTGGAAACTTTCATGTTGATGCATGTCCAATAAGGTTACTTA-GTAATATTACA
1 TCTAGGGTCATGTGGGAACTTTCATGTCGATACATGTCCATTAAGGTTA-TTAGGTAATATTACA
* * * *
679464 TTAATACTAAG--TCTAGGTTCATGTGGGAAATTTCATGTCAATTCATGTCTATTAGGGTTATTT
65 TTAATACTAAGTCTCTAGGGTCATGTGAGAAATTTCATGTCAATACATGTCCATTAGGGTTATTT
* *
679527 AAGTAATAATACATTAA
130 AGGTAATATTACATTAA
679544 AACCGAGTCA
Statistics
Matches: 359, Mismatches: 81, Indels: 25
0.77 0.17 0.05
Matches are distributed among these distances:
151 60 0.17
153 84 0.23
154 210 0.58
155 5 0.01
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (153 bp):
TCTAGGGTCATGTGGGAACTTTCATGTCGATACATGTCCATTAAGGTTATTAGGTAATATTACAT
TAATACTAAGTCTCTAGGGTCATGTGAGAAATTTCATGTCAATACATGTCCATTAGGGTTATTTA
GGTAATATTACATTAATACCAAA
Found at i:679379 original size:78 final size:78
Alignment explanation
Indices: 678935--679552 Score: 503
Period size: 76 Copynumber: 8.1 Consensus size: 78
678925 ATGAAAATTA
* * * ** *
678935 AGTCTCTAGGGTCATGT-AGGAACTTTTATGTCGATATATGTCCATTAGTTTTATTTAGGTAAGA
1 AGTCTCTAGGGTCATGTGA-GAACTTTCATGTCAATACATGTCCATTAGGGTTATTTAGGTAATA
* *
678999 CTACATTAATACTA
65 TTACATTAATACTG
* * * *
679013 AGTCTGTA-GGTCATGTG-GAAACTTTCATATCAATGCATGTCTATTAGGGTTATTTAGGTAATA
1 AGTCTCTAGGGTCATGTGAG-AACTTTCATGTCAATACATGTCCATTAGGGTTATTTAGGTAATA
679076 TTACATTAATAC-G
65 TTACATTAATACTG
* * * * * * *
679089 AGCCTTTA-GGTCAT-TTAGGGACTTTCATGTCGATACATGTCCATTAAGGTTCATTT-GGTGAT
1 AGTCTCTAGGGTCATGTGA-GAACTTTCATGTCAATACATGTCCATTAGGGTT-ATTTAGGTAAT
** *
679151 ATTATTTTAATACTA
64 ATTACATTAATACTG
* * * * * * * * * * * ** *
679166 AATGTCTAAGATCACGTGAAAAATTTTAAGTCGATACATGTCCATTATGGTTCA-TTAAATGATA
1 AGTCTCTAGGGTCATGTGAGAACTTTCATGTCAATACATGTCCATTAGGGTT-ATTTAGGTAATA
* *
679230 TTACTTTAATAC-C
65 TTACATTAATACTG
** * * * *
679243 A-AATCTAGGGTCATGTGGGAACTTTAATGTCAATACATGTCTATTAGGGTTATATAGGTAATAT
1 AGTCTCTAGGGTCATGTGAGAACTTTCATGTCAATACATGTCCATTAGGGTTATTTAGGTAATAT
*
679307 TATATTAATACTG
66 TACATTAATACTG
* *
679320 AGTCTCTAGGGTCATGTGAGAACTTTCATGTCAATACATGCCCATTGGGGTTATTTAGGTAATAT
1 AGTCTCTAGGGTCATGTGAGAACTTTCATGTCAATACATGTCCATTAGGGTTATTTAGGTAATAT
679385 TACATTAATACTG
66 TACATTAATACTG
** * * * *
679398 AG--TCTAGGGTCATGTG-GAAACTTTCATGTTGATGCATGTCCAATAAGGTTACTTA-GTAATA
1 AGTCTCTAGGGTCATGTGAG-AACTTTCATGTCAATACATGTCCATTAGGGTTATTTAGGTAATA
*
679459 TTACATTAATACTA
65 TTACATTAATACTG
* * * * * * *
679473 AG--TCTAGGTTCATGTGGGAAATTTCATGTCAATTCATGTCTATTAGGGTTATTTAAGTAATAA
1 AGTCTCTAGGGTCATGTGAGAACTTTCATGTCAATACATGTCCATTAGGGTTATTTAGGTAATAT
* *
679536 TACATTAAAACCG
66 TACATTAATACTG
679549 AGTC
1 AGTC
679553 ATTAGGATCA
Statistics
Matches: 430, Mismatches: 93, Indels: 34
0.77 0.17 0.06
Matches are distributed among these distances:
75 66 0.15
76 170 0.40
77 67 0.16
78 125 0.29
79 2 0.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (78 bp):
AGTCTCTAGGGTCATGTGAGAACTTTCATGTCAATACATGTCCATTAGGGTTATTTAGGTAATAT
TACATTAATACTG
Found at i:687070 original size:32 final size:31
Alignment explanation
Indices: 687032--687120 Score: 112
Period size: 32 Copynumber: 2.9 Consensus size: 31
687022 GTTTAGAAGG
687032 GTTGCCACCAACTTTTGTGGGCTTTAGAAAAA
1 GTTGCCACCAACTTTTGTGGGCTTT-GAAAAA
* *
687064 GTTGCCACCAACTTATGTGGGCTTTG-AAAG
1 GTTGCCACCAACTTTTGTGGGCTTTGAAAAA
* *
687094 GATGCCACTAAC--TTGTGGGCTTTGAAA
1 GTTGCCACCAACTTTTGTGGGCTTTGAAA
687121 TGGTGCCACT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
28 11 0.22
29 2 0.04
30 13 0.25
31 1 0.02
32 24 0.47
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (31 bp):
GTTGCCACCAACTTTTGTGGGCTTTGAAAAA
Found at i:687117 original size:28 final size:28
Alignment explanation
Indices: 687079--687848 Score: 730
Period size: 28 Copynumber: 27.7 Consensus size: 28
687069 CACCAACTTA
*
687079 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
687107 TGTGGGCTTTGAAATGG-TGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
687135 TGTGGGCTTTTACAATGATGCCACTAACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* * * *
687164 TATGGG---TG---GG-TGTCACTAACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
687185 TGTGGGCCTTAAAAGGGTGCTATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
687213 TGTGGGTTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
687241 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
687269 TATAGGCTTT-AAACAGATGCCATTTACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
687297 TGTGGACTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
687325 TGTAGGCTTTGAAAAAGATGCCATTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
687354 TGTGGGCTTT-AAATGGATGCCATTTACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
687382 TGTGGGCTTTGAAAAGG-TGCCATTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
687410 TGTGGGC-TTGAAAATGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
687438 TGTGGGGTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
687466 TGTGGGCTTT-ACAGAAATGCCACTAACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
*
687494 TGTGGGCTTTAAAAAGGCA--CCACTGACT
1 TGTGGGCTTT-GAAAGG-ATGCCACTGACT
* *
687522 TATGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
687550 TATGGGCTTTCAAAGGATGCCACTCACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * **
687578 TATGGGTTTTGCAATAATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
687606 TGTGGGCTTTGAAGAGG-TGCCACTGGCT
1 TGTGGGCTTTGAA-AGGATGCCACTGACT
*
687634 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** * *
687662 TGTGAACTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
687690 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
687718 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
687746 TATGGGCTTT-AAAGAGATGCCATTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
* * *
687774 TATGGGCTTCGAAA-GAGTACCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
687802 TGTGGACTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
687830 TGTGGGCTTTGAAAAGATG
1 TGTGGGCTTTGAAAGGATG
687849 AACATTCTAG
Statistics
Matches: 618, Mismatches: 94, Indels: 60
0.80 0.12 0.08
Matches are distributed among these distances:
21 14 0.02
22 1 0.00
24 1 0.00
26 2 0.00
27 33 0.05
28 503 0.81
29 57 0.09
30 7 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:708305 original size:20 final size:20
Alignment explanation
Indices: 708270--708310 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
708260 CGAAATTCTT
708270 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
708292 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
708311 TTTAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:710704 original size:13 final size:13
Alignment explanation
Indices: 710686--710710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
710676 ACACACAGTA
710686 TGTATCGATACAT
1 TGTATCGATACAT
710699 TGTATCGATACA
1 TGTATCGATACA
710711 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:712220 original size:20 final size:20
Alignment explanation
Indices: 712165--712250 Score: 93
Period size: 20 Copynumber: 4.3 Consensus size: 20
712155 AGAATGTTTT
*
712165 GATACATTGAAAAAT-TATC
1 GATACATTAAAAAATGTATC
* * * *
712184 AATACATTCATACATGTATC
1 GATACATTAAAAAATGTATC
** *
712204 GATATGTTGAAAAATGTATC
1 GATACATTAAAAAATGTATC
712224 GATACATTAAAAAATGTATC
1 GATACATTAAAAAATGTATC
712244 GATACAT
1 GATACAT
712251 CTAGGTAAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
19 11 0.21
20 42 0.79
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
GATACATTAAAAAATGTATC
Found at i:712241 original size:40 final size:39
Alignment explanation
Indices: 712171--712247 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
712161 TTTTGATACA
* * *
712171 TTGAAAAATTATCAATACATTCATACATGTATCGATATG
1 TTGAAAAATTATCAATACATTAAAAAATGTATCGATATG
*
712210 TTGAAAAATGTATCGATACATTAAAAAATGTATCGATA
1 TTGAAAAAT-TATCAATACATTAAAAAATGTATCGATA
712248 CATCTAGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 9 0.27
40 24 0.73
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (39 bp):
TTGAAAAATTATCAATACATTAAAAAATGTATCGATATG
Found at i:713063 original size:30 final size:32
Alignment explanation
Indices: 713003--713068 Score: 91
Period size: 30 Copynumber: 2.1 Consensus size: 32
712993 CTTGCCACCA
* *
713003 ACTTGTGTGGGTTTTAGAGAAAGTTGCCACTG
1 ACTTGTGTGGGCTTTAGAGAAAGATGCCACTG
*
713035 ACTTGTGTGGGCTTT-GA-AAGGATGCCACTG
1 ACTTGTGTGGGCTTTAGAGAAAGATGCCACTG
713065 ACTT
1 ACTT
713069 ATAGGCACTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 15 0.48
31 2 0.06
32 14 0.45
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.33
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTAGAGAAAGATGCCACTG
Found at i:713572 original size:32 final size:30
Alignment explanation
Indices: 713536--713594 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
713526 GAAATCAAAT
713536 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
713568 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
713595 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:713892 original size:13 final size:13
Alignment explanation
Indices: 713874--713899 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
713864 CAATTTTTTG
713874 TGTATCGATACAT
1 TGTATCGATACAT
713887 TGTATCGATACAT
1 TGTATCGATACAT
713900 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:713910 original size:32 final size:33
Alignment explanation
Indices: 713854--713917 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
713844 TACAAGCCAA
*
713854 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
713887 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
713918 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:713911 original size:19 final size:19
Alignment explanation
Indices: 713854--713917 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
713844 TACAAGCCAA
*
713854 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
713874 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
713887 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
713906 TGTATCGATACA
1 TGTATCGATACA
713918 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:713994 original size:20 final size:20
Alignment explanation
Indices: 713948--714021 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
713938 ATCCCAATGA
***
713948 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
713969 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
713989 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
714009 TATGTATCGATAC
1 CATGTATCGATAC
714022 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:716462 original size:13 final size:13
Alignment explanation
Indices: 716444--716481 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
716434 ATAATCCCCC
716444 TGTATCGATACAG
1 TGTATCGATACAG
*
716457 TGTATCGATACAT
1 TGTATCGATACAG
716470 TGTATCGATACA
1 TGTATCGATACA
716482 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:718580 original size:15 final size:15
Alignment explanation
Indices: 718560--718590 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
718550 ATTTCGTTTG
*
718560 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
718575 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
718590 G
1 G
718591 GATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:720421 original size:21 final size:21
Alignment explanation
Indices: 720392--720436 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
720382 AAAATTTTAT
*
720392 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
720412 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
720434 TTT
1 TTT
720437 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:722353 original size:32 final size:30
Alignment explanation
Indices: 722317--722375 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
722307 GAAATCAAAT
722317 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
722349 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
722376 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:722690 original size:32 final size:33
Alignment explanation
Indices: 722636--722699 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
722626 TACAAGCCAA
* * *
722636 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGACACAATATTTTGTGTATCAATACAT
722669 TGTATCGACAC-ATATTTTGTGTATCAATACA
1 TGTATCGACACAATATTTTGTGTATCAATACA
722700 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGACACAATATTTTGTGTATCAATACAT
Found at i:723121 original size:28 final size:28
Alignment explanation
Indices: 723086--723815 Score: 803
Period size: 28 Copynumber: 25.8 Consensus size: 28
723076 GGGCAGGTGT
* *
723086 CACTGACTTATGGGCTTTGAAAGGGTGC
1 CACTGACTTGTGGGCTTTGAAAGGATGC
* * *
723114 CACTGACTTGTGGGCTTTGAAAAGTTGT
1 CACTGACTTGTGGGCTTTGAAAGGATGC
723142 CACTGACTTGTGGGCTTTGAAAGGATGC
1 CACTGACTTGTGGGCTTTGAAAGGATGC
* * *
723170 CACTAACTTGTGGGCTTT-AAACAGATAC
1 CACTGACTTGTGGGCTTTGAAA-GGATGC
* * *
723198 CACTTACTTATGGGCTTTGAAAAGATGC
1 CACTGACTTGTGGGCTTTGAAAGGATGC
723226 CACTGACTTGTGGGCTTTGAAAAGGATGC
1 CACTGACTTGTGGGCTTTG-AAAGGATGC
* *
723255 CACTAACTTGTGGACTTT-AAATGGATGC
1 CACTGACTTGTGGGCTTTGAAA-GGATGC
* *
723283 CCCTTACTTGTGGGCTTTGAAATGG-TGC
1 CACTGACTTGTGGGCTTTGAAA-GGATGC
** *
723311 CACTGACTTGTGGGCTAGGAAATGATGC
1 CACTGACTTGTGGGCTTTGAAAGGATGC
*
723339 CACTGACTTGTGGGCTTTGAAAGGATGT
1 CACTGACTTGTGGGCTTTGAAAGGATGC
* *
723367 CACTGACTTGTAGGCTTTGAAAAGATGC
1 CACTGACTTGTGGGCTTTGAAAGGATGC
*
723395 CGCTGACTTGTGGGCTTT-AAAGAGATGC
1 CACTGACTTGTGGGCTTTGAAAG-GATGC
*
723423 CATTGACTTGTGGGCTTTGAAAAGG-TGC
1 CACTGACTTGTGGGCTTTG-AAAGGATGC
* *
723451 CACTGACTTGTGGACTTTGAAAGGATGA
1 CACTGACTTGTGGGCTTTGAAAGGATGC
* * *
723479 CACTGATTTGTGAGCTTTGAAAAGATGC
1 CACTGACTTGTGGGCTTTGAAAGGATGC
* *
723507 CACTTGACTTATGGGCTTTGAAAATG-TGC
1 CAC-TGACTTGTGGGCTTTG-AAAGGATGC
*
723536 CCCTGACTTGTGGGCTTTGAAAGGATGC
1 CACTGACTTGTGGGCTTTGAAAGGATGC
*
723564 CACTGACTTATGGACTTTGGGCTTTGAAAGGGTGC
1 CACTGAC-T-T-G----TGGGCTTTGAAAGGATGC
* *
723599 CATTGACTTGTGGACTTTGAAAGGATGC
1 CACTGACTTGTGGGCTTTGAAAGGATGC
*
723627 CACTAACTTGTGGGCTTTGAAAGGATGC
1 CACTGACTTGTGGGCTTTGAAAGGATGC
* *
723655 CACTGACTTGTGGACTTTGAAAGAATGC
1 CACTGACTTGTGGGCTTTGAAAGGATGC
* *
723683 CATTAACTTGTGGGCTTTG-AAGAGATGC
1 CACTGACTTGTGGGCTTTGAAAG-GATGC
* *
723711 CACTAACTTGTGGGCTTT-AAAAGAGTGC
1 CACTGACTTGTGGGCTTTGAAAGGA-TGC
* * **
723739 CACTAACTTGTGGACTTTGAAAATATGC
1 CACTGACTTGTGGGCTTTGAAAGGATGC
*
723767 CACGGACTTGTGGGCTTTG-AAGAGATGC
1 CACTGACTTGTGGGCTTTGAAAG-GATGC
* *
723795 CACTAACTTGTGGGGTTTGAA
1 CACTGACTTGTGGGCTTTGAA
723816 GAGATGAACA
Statistics
Matches: 596, Mismatches: 80, Indels: 51
0.82 0.11 0.07
Matches are distributed among these distances:
27 26 0.04
28 475 0.80
29 59 0.10
30 9 0.02
31 1 0.00
32 1 0.00
33 1 0.00
34 1 0.00
35 23 0.04
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (28 bp):
CACTGACTTGTGGGCTTTGAAAGGATGC
Found at i:723587 original size:35 final size:35
Alignment explanation
Indices: 723540--723617 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
723530 ATGTGCCCCT
723540 GACTTGTGGGCTTTGAAAGGATGCCACTGACTTATG
1 GACTT-TGGGCTTTGAAAGGATGCCACTGACTTATG
* * *
723576 GACTTTGGGCTTTGAAAGGGTGCCATTGACTTGTG
1 GACTTTGGGCTTTGAAAGGATGCCACTGACTTATG
723611 GACTTTG
1 GACTTTG
723618 AAAGGATGCC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 34 0.87
36 5 0.13
ACGTcount: A:0.19, C:0.15, G:0.32, T:0.33
Consensus pattern (35 bp):
GACTTTGGGCTTTGAAAGGATGCCACTGACTTATG
Found at i:728153 original size:20 final size:20
Alignment explanation
Indices: 728128--728202 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
728118 TTTGGACCAC
*
728128 AATGTATTGATACATAAGTA
1 AATGTATCGATACATAAGTA
* *
728148 AATGTATCAATACATAAGTG
1 AATGTATCGATACATAAGTA
* *
728168 AATGTATCGATACACAAGTG
1 AATGTATCGATACATAAGTA
* *
728188 AATATATCAATACAT
1 AATGTATCGATACAT
728203 TCACCCAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATAAGTA
Found at i:728964 original size:43 final size:43
Alignment explanation
Indices: 728903--728989 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
728893 AGAGGTCAGG
* * *
728903 TTTTGAAGGTTTTTAGTATATTCCTGTCCACTTTTCATTTTTT
1 TTTTGAAGCTTCTTAGTATATTCCTGTCCACTTTTCATTGTTT
728946 TTTTGAAGCTTCTTAGTATATTCCTGTCCACTTTTCATTGTTT
1 TTTTGAAGCTTCTTAGTATATTCCTGTCCACTTTTCATTGTTT
728989 T
1 T
728990 CCTTCGTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.56
Consensus pattern (43 bp):
TTTTGAAGCTTCTTAGTATATTCCTGTCCACTTTTCATTGTTT
Found at i:732295 original size:71 final size:71
Alignment explanation
Indices: 732171--732308 Score: 188
Period size: 71 Copynumber: 1.9 Consensus size: 71
732161 AAAGTCACAT
* * * *
732171 TTTTACCCAGATGTATCGATACATTTTTCAATATATCGATACATTCTTCAATGTATCGATACATT
1 TTTTACCCAAATGTATCAATACATTTTTCAATATATCGATACATTCATCAATGTATAGATACATT
732236 CTGTCC
66 CTGTCC
* * * *
732242 TTTTATCCAAATGTATCAATTCATTTTTCAATGTATCGATACATGT-ATGAATGTATAGATACAT
1 TTTTACCCAAATGTATCAATACATTTTTCAATATATCGATACAT-TCATCAATGTATAGATACAT
732306 TCT
65 TCT
732309 TCAATGTATC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 57 0.98
72 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (71 bp):
TTTTACCCAAATGTATCAATACATTTTTCAATATATCGATACATTCATCAATGTATAGATACATT
CTGTCC
Found at i:732327 original size:20 final size:20
Alignment explanation
Indices: 732181--732328 Score: 109
Period size: 20 Copynumber: 6.8 Consensus size: 20
732171 TTTTACCCAG
*
732181 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
*
732201 ATATATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
732221 ATGTATCGATACATTCTGTCCTTTTATCCAA
1 ATGTATCGATACA---T-T-C---T-T-C-A
* * *
732252 ATGTATCAATTCATTTTTCA
1 ATGTATCGATACATTCTTCA
* *
732272 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
*
732292 ATGTATAGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
732312 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
732329 GTCTTTTTAC
Statistics
Matches: 101, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
19 1 0.01
20 76 0.75
21 2 0.02
22 1 0.01
23 2 0.02
24 1 0.01
25 1 0.01
27 1 0.01
28 2 0.02
29 1 0.01
30 1 0.01
31 12 0.12
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:732337 original size:91 final size:91
Alignment explanation
Indices: 732181--732376 Score: 268
Period size: 91 Copynumber: 2.2 Consensus size: 91
732171 TTTTACCCAG
* * *
732181 ATGTATCGATACATTTTTCAATATATCGATACATTCTTCAATGTATCGATACATTCTGTCCTTTT
1 ATGTATCGATACATGTATCAATATATAGATACATTCTTCAATGTATCGATACATTCTGTCCTTTT
* * **
732246 ATCCAAATGTATCAATTCATT-TTTCA
66 ACCCAAATGTATCAATACATTGAAT-A
* * *
732272 ATGTATCGATACATGTATGAATGTATAGATACATTCTTCAATGTATCGATACATTCTGTCTTTTT
1 ATGTATCGATACATGTATCAATATATAGATACATTCTTCAATGTATCGATACATTCTGTCCTTTT
* *
732337 ACCCAGATGTATCGATACATTGAATA
66 ACCCAAATGTATCAATACATTGAATA
732363 ATGTATCGATACAT
1 ATGTATCGATACAT
732377 CTAGTTAAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 91 0.99
92 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (91 bp):
ATGTATCGATACATGTATCAATATATAGATACATTCTTCAATGTATCGATACATTCTGTCCTTTT
ACCCAAATGTATCAATACATTGAATA
Found at i:746299 original size:20 final size:20
Alignment explanation
Indices: 746268--746324 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
746258 GTCAAAACCC
*
746268 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
746288 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
746308 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
746325 TGACCAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:746336 original size:20 final size:21
Alignment explanation
Indices: 746313--746365 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
746303 CAGATTGCAT
**
746313 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
746333 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
746354 TGTATCGATACA
1 TGTATCGATACA
746366 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:746438 original size:32 final size:33
Alignment explanation
Indices: 746397--746464 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
746387 GTAGCCAAAT
746397 TTGTATCGATACA-CAC-AATATGTATCAATACA
1 TTGTATCGATACACCACAAAT-TGTATCAATACA
* *
746429 TTGTATCGATACACCACAAATTGTGTCGATACA
1 TTGTATCGATACACCACAAATTGTATCAATACA
746462 TTG
1 TTG
746465 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 13 0.41
33 16 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAATTGTATCAATACA
Found at i:747440 original size:13 final size:12
Alignment explanation
Indices: 747421--747483 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 12
747411 TCTTTTGTAC
747421 AAAAAAAAACCA
1 AAAAAAAAACCA
747433 AGAAAAAAAACCAAAAA
1 A-AAAAAAAACC----A
747450 AAAGAAAAAACCA
1 AAA-AAAAAACCA
747463 AAAAAAAAA-CA
1 AAAAAAAAACCA
747474 AAAAAAAAAC
1 AAAAAAAAAC
747484 AAACAAACAA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
11 11 0.25
12 7 0.16
13 14 0.32
16 2 0.05
17 10 0.23
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACCA
Found at i:747454 original size:19 final size:19
Alignment explanation
Indices: 747432--747478 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
747422 AAAAAAAACC
747432 AAGAAAAAAAACCAAAAAA
1 AAGAAAAAAAACCAAAAAA
747451 AAG--AAAAAACCAAAAAA
1 AAGAAAAAAAACCAAAAAA
747468 AA-AACAAAAAA
1 AAGAA-AAAAAA
747479 AAAACAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 16 0.64
19 9 0.36
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (19 bp):
AAGAAAAAAAACCAAAAAA
Found at i:747460 original size:30 final size:27
Alignment explanation
Indices: 747421--747497 Score: 102
Period size: 29 Copynumber: 2.8 Consensus size: 27
747411 TCTTTTGTAC
747421 AAAAAAAAACCAAGAAAAAAAACCAAAAA
1 AAAAAAAAACCAA-AAAAAAAA-CAAAAA
747450 AAAGAAAAAACCAAAAAAAAAACAAAAA
1 AAA-AAAAAACCAAAAAAAAAACAAAAA
* *
747478 AAAAACAAA-CAAACAAAAAA
1 AAAAAAAAACCAAAAAAAAAA
747498 GGGGTCCAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
26 10 0.22
27 5 0.11
28 9 0.20
29 11 0.24
30 10 0.22
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (27 bp):
AAAAAAAAACCAAAAAAAAAACAAAAA
Found at i:747470 original size:18 final size:17
Alignment explanation
Indices: 747437--747469 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
747427 AAACCAAGAA
747437 AAAAAACCAAAAAAAAG
1 AAAAAACCAAAAAAAAG
747454 AAAAAACCAAAAAAAA
1 AAAAAACCAAAAAAAA
747470 AACAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAAAACCAAAAAAAAG
Found at i:747481 original size:11 final size:11
Alignment explanation
Indices: 747421--747486 Score: 64
Period size: 11 Copynumber: 6.2 Consensus size: 11
747411 TCTTTTGTAC
*
747421 AAAAAAAAACC
1 AAAAAAAAACA
*
747432 AAGAAAAAA-A
1 AAAAAAAAACA
**
747442 ACCAAAAAA-A
1 AAAAAAAAACA
* *
747452 AGAAAAAACCA
1 AAAAAAAAACA
747463 AAAAAAAAACA
1 AAAAAAAAACA
747474 AAAAAAAAACA
1 AAAAAAAAACA
747485 AA
1 AA
747487 CAAACAAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
10 14 0.31
11 31 0.69
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:748768 original size:28 final size:28
Alignment explanation
Indices: 748736--749092 Score: 464
Period size: 28 Copynumber: 12.7 Consensus size: 28
748726 CTAGAACGTT
*
748736 CATCTTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
748764 CATCTTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * * *
748792 CACCCTTTTAAAGCTCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
748820 CATCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
748848 CACCCTTTCAAAGCCCATAAATCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
748876 CATCCTTTCAAAGCCCATAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
748904 CAT-CTCTTCAAAGCCCACAAGTCAATGG
1 CATCCT-TTCAAAGCCCACAAGTCAGTGG
*
748932 CATCCTTTTAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * *
748960 CACCCTTTCAAAGCCCATAAATCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
* * * * *
748988 TACCCCTTCAAAACCCATAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
749016 CACCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
749044 CATAACCTTTCAAAGCCCACAAGTCGGTGG
1 CAT--CCTTTCAAAGCCCACAAGTCAGTGG
*
749074 CACCCTTTCAAAGCCCACA
1 CATCCTTTCAAAGCCCACA
749093 CAAGTCGGCG
Statistics
Matches: 292, Mismatches: 33, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
27 2 0.01
28 262 0.90
29 2 0.01
30 26 0.09
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (28 bp):
CATCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:753326 original size:13 final size:13
Alignment explanation
Indices: 753308--753333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
753298 TATAGCAAAT
753308 ATGTATCGATACA
1 ATGTATCGATACA
753321 ATGTATCGATACA
1 ATGTATCGATACA
753334 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:756606 original size:13 final size:13
Alignment explanation
Indices: 756588--756613 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
756578 ATAATCACCC
756588 TGTATCGATACAA
1 TGTATCGATACAA
756601 TGTATCGATACAA
1 TGTATCGATACAA
756614 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:760564 original size:21 final size:21
Alignment explanation
Indices: 760529--760579 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
760519 TATGCAAGTT
*
760529 TTCATT-TTTTCTTAGCTAAC
1 TTCATTATTTTCTTAGCCAAC
760549 -TCATTATTTTCATTAGCCAAC
1 TTCATTATTTTC-TTAGCCAAC
*
760570 TTCTTTATTT
1 TTCATTATTT
760580 CAACTTGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 5 0.19
21 8 0.31
22 8 0.31
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.55
Consensus pattern (21 bp):
TTCATTATTTTCTTAGCCAAC
Found at i:810207 original size:21 final size:21
Alignment explanation
Indices: 810178--810222 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
810168 AAGTTTTCAT
*
810178 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
810198 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
810220 TTT
1 TTT
810223 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:812453 original size:13 final size:13
Alignment explanation
Indices: 812435--812461 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
812425 ACAATTTTTT
812435 TTGTATCGATACA
1 TTGTATCGATACA
812448 TTGTATCGATACA
1 TTGTATCGATACA
812461 T
1 T
812462 ACTTGCTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:825634 original size:20 final size:20
Alignment explanation
Indices: 825589--825641 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
825579 ACACACCTAG
*
825589 ATGTATTGATATAAATTACT
1 ATGTATTGATACAAATTACT
* *
825609 AAGTATTGATACAAATTGCT
1 ATGTATTGATACAAATTACT
* *
825629 TTGTATCGATACA
1 ATGTATTGATACA
825642 CTATGAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATTGATACAAATTACT
Found at i:826448 original size:12 final size:12
Alignment explanation
Indices: 826423--826455 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
826413 TGAGCTTACA
826423 TTTTTC-TT-TT
1 TTTTTCTTTCTT
826433 TTTTTCTTTCTT
1 TTTTTCTTTCTT
826445 TTTTTCTTTCT
1 TTTTTCTTTCT
826456 CAGCTGCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.29
11 2 0.10
12 13 0.62
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTCTT
Found at i:827065 original size:20 final size:20
Alignment explanation
Indices: 827037--827111 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
827027 TTTTACCCAG
827037 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
827057 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
827077 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
*
827097 ATGTATCAATACATT
1 ATGTATCGATACATT
827112 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:827097 original size:40 final size:39
Alignment explanation
Indices: 827037--827114 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
827027 TTTTACCCAG
* *
827037 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCAATACAT-TATGA
* *
827077 ATGTATCGATATATTCTTCAATGTATCAATACATTATG
1 ATGTATCGATACATTCTTCAATATATCAATACATTATG
827115 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCAATACATTATGA
Found at i:841120 original size:14 final size:14
Alignment explanation
Indices: 841101--841127 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
841091 TTGACACAAA
841101 AAAAAAAACAAAAC
1 AAAAAAAACAAAAC
841115 AAAAAAAACAAAA
1 AAAAAAAACAAAA
841128 AACTAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAC
Found at i:842412 original size:29 final size:29
Alignment explanation
Indices: 842367--843456 Score: 1157
Period size: 28 Copynumber: 38.0 Consensus size: 29
842357 AATGTTCACC
* *
842367 CTTTTCAAAGTCCACAAGTCAGTGGCAGT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
842396 CTTTTCAAAGCCTACAAGTTAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
842424 CCTTTCAAAGCCCACAAGTCAGTGACACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
842453 CTTTTAAAAGCCCACAAGTTAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
842482 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
842511 C-TTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
842539 C-TTTCGAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
842566 CTTTTC-AAGCCCACAAGTTAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
842594 C-TTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
842621 CCTTTCAAAGCCCATAAGTCAATGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
842649 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
842677 CCTTTCGAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
842706 CTTTTCAAAGCCCATAATTTAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
842735 CTTTTCAAAGCCCATAAGTTAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
842764 C-TTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
842791 CATTTC-AAGCCCACGAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
842819 C-TTTCAAAGCACACAAGTTAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
842846 CCTTTCAAAGCCTACACAAGTCAGTGGCATT
1 CTTTTCAAAGCC--CACAAGTCAGTGGCACT
* * **
842877 CCTTTCGAAGCCCACACAAGTTGGTGGCAACT
1 CTTTTCAAAG-CC-CACAAGTCAGTGGC-ACT
* * * * *
842909 CATTTCAAAGACCATAGGTCGGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
842938 CTTTTCAAAGCCCACGAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
842967 C-TTTCAAAGCCCACAAGTCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
842994 CATTTCAAAGCTCACGCAAGTTAGTGGCACC
1 CTTTTCAAAGC-C-CACAAGTCAGTGGCACT
843025 CTTTT-AAAGCCCACGCAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
843054 CTTTTC-AAGCCCACGAGCCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
843082 C-CTTCAAAGCCCACAAGTCAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
843109 CCTTTCAAAGCCCACGCAAGTCAGTGGCACC
1 CTTTTCAAAGCCCA--CAAGTCAGTGGCACT
*
843140 CTTTT-AAAGCCCACGCAAGTTAGTGGCACT
1 CTTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
843170 CTTTTCAAAGCCCACGTGAGTCAGTGGCACC
1 CTTTTCAAAGCCCAC--AAGTCAGTGGCACT
**
843201 CTTTT-AAAGCCCATGAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
843228 CTTTTC-AAGCCCAGAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
843256 -TTTTC-AAGCCCACAAGTC--TGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
843281 -TTTTCAAAGCCCACAAGTTAGTGGCA-T
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
*
843308 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* *
843336 CTTTTCAAAGCCCACAAGTTAGTGACACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCACT
* * * **
843365 CTTTTCAAAGCCCATAAGCCATTAGTAACT
1 CTTTTCAAAGCCCACAAGTCAGT-GGCACT
*
843395 CTTTTCAAAGCCCACACGTGTC-GATGGCAACT
1 CTTTTCAAAGCCCACA--AGTCAG-TGGC-ACT
* *
843427 TTTTTCAAAGCCTACACAAGTTAGTGGCAC
1 CTTTTCAAAGCC--CACAAGTCAGTGGCAC
843457 ATTTTTTTAA
Statistics
Matches: 914, Mismatches: 100, Indels: 92
0.83 0.09 0.08
Matches are distributed among these distances:
25 12 0.01
26 12 0.01
27 114 0.12
28 363 0.40
29 190 0.21
30 124 0.14
31 59 0.06
32 35 0.04
33 1 0.00
34 4 0.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.24
Consensus pattern (29 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:842457 original size:57 final size:57
Alignment explanation
Indices: 842363--843378 Score: 1066
Period size: 57 Copynumber: 17.8 Consensus size: 57
842353 CTAGAATGTT
* ** * *
842363 CACCCTTTTCAAAGTCCACAAGTCAGTGGCAGTCTTTTCAAAGCCTACAAGTTAGTGG
1 CACCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* * *
842421 CACCCTTTCAAAGCCCACAAGTCAGTGACACCCTTTTAAAAGCCCACAAGTTAGTGG
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* *
842478 CACTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGG
1 CAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* * *
842535 CACTCTTTCGAAGCCCACAAGTCAGTGGCA-CCTTTTC-AAGCCCACAAGTTAGTGG
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* * *
842590 CACTCTTTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCATAAGTCAATGG
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* *
842646 CACCCTTTCAGAGCCCACAAGTCAGTGGCACCC-TTTCGAAGCCCACAAGTCAGTGG
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* * * * * * *
842702 CACTCTTTTCAAAGCCCATAATTTAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGG
1 CAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* * *
842760 CACTCTTTCAAAGCCCACAAGTCAGTGGCA-CCATTTC-AAGCCCACGAGTCAGTGG
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* * * *
842815 CACTCTTTCAAAGCACACAAGTTAGTGGCATCC-TTTCAAAGCCTACACAAGTCAGTGG
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCC--CACAAGTCAGTGG
* * ** * * * * * *
842873 CATTCCTTTCGAAGCCCACACAAGTTGGTGGCAACTCATTTCAAAGACCATAGGTCGGTGG
1 CA-CCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACCCTTTTCAAAGCCCACAAGTCAGTGG
* * *
842934 CACTCTTTTCAAAGCCCACGAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGG
1 CAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* * * *
842991 CATCATTTCAAAGCTCACGCAAGTTAGTGGCACCCTTTT-AAAGCCCACGCAAGTCAGTGG
1 CACCCTTTCAAAGC-C-CACAAGTCAGTGGCACCCTTTTCAAAGCCCA--CAAGTCAGTGG
* * *
843051 CACCTTTTC-AAGCCCACGAGCCAGTGGCACTCC--TTCAAAGCCCACAAGTCAGTGG
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTTCAAAGCCCACAAGTCAGTGG
* *
843106 CATCCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTT-AAAGCCCACGCAAGTTAGTGG
1 CACCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTTCAAAGCCCA--CAAGTCAGTGG
* * **
843166 CACTCTTTTCAAAGCCCACGTGAGTCAGTGGCACCCTTTT-AAAGCCCATGAGTCAGTGG
1 CAC-CCTTTCAAAGCCCAC--AAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* * *
843225 CACCTTTTC-AAGCCCAGAAGTCAGTGGCA-CTTTTTC-AAGCCCACAAGTC--TGG
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
** * *
843277 CACTTTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGG
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
* * * *
843333 CACCTTTTCAAAGCCCACAAGTTAGTGACACTCTTTTCAAAGCCCA
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCA
843379 TAAGCCATTA
Statistics
Matches: 814, Mismatches: 104, Indels: 81
0.81 0.10 0.08
Matches are distributed among these distances:
52 11 0.01
53 22 0.03
54 30 0.04
55 127 0.16
56 162 0.20
57 182 0.22
58 124 0.15
59 40 0.05
60 33 0.04
61 72 0.09
62 2 0.00
63 9 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (57 bp):
CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGG
Found at i:842761 original size:225 final size:225
Alignment explanation
Indices: 842369--843410 Score: 1249
Period size: 225 Copynumber: 4.6 Consensus size: 225
842359 TGTTCACCCT
* * * *
842369 TTTCAAAGTCCACAAGTCAGTGGCAGTCTTTTCAAAGCCTACAAGTTAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
842434 CCCACAAGTCAGTGACACCCTTTTAAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAA
65 CCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAA
*
842499 GTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCGAAGCCCACAAGTCAGTGG
129 GTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACAAGTCAGTGG
*
842563 CACCTTTTCAAGCCCACAAGTTAGTGGCACTC
194 CACCTTTTCAAGCCCACAAGTCAGTGGCACTC
* * * *
842595 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAATGGCACCCTTTCAGAGC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
842660 CCACAAGTCAGTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAATT
66 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGT
* * *
842725 TAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGC
131 CAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACAAGTCAGTGGC
* *
842789 ACCATTTCAAGCCCACGAGTCAGTGGCACTC
195 ACCTTTTCAAGCCCACAAGTCAGTGGCACTC
* * * *
842820 TTTCAAAGCACACAAGTTAGTGGCATCCTTTCAAAGCCTACACAAGTCAGTGGCATTCCTTTCGA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC--CACAAGTCAGTGGCA-CCCTTTCAA
** * * * * *
842885 AGCCCACACAAGTTGGTGGCAACTCATTTCAAAGACCATAGGTCGGTGGCACTCTTTTCAAAGCC
63 AG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCC
* *
842950 CACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA-TCATTTCAAAGCTCACGCAAG
124 CACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGC-C-CACAAG
* *
843014 TTAGTGGCACCCTTTTAAAGCCCACGCAAGTCAGTGGCAC-C
187 TCAGTGGCA-CCTTTTCAAGCCCA--CAAGTCAGTGGCACTC
* * *
843055 TTTTC-AAGCCCACGAGCCAGTGGCACTCC-TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
1 -TTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* *
843118 GCCCACGCAAGTCAGTGGCACCCTTTTAAAGCCCACGCAAGTTAGTGGCACTCTTTTCAAAGCCC
64 GCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCACTCTTTTCAAAGCCC
* * * ** * *
843183 ACGTGAGTCAGTGGCACCCTTTTAAAGCCCATGAGTCAGTGGCAC-CTTTTC-AAGCCCAGAAGT
125 AC--AAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACAAGT
* *
843246 CAGTGGCACTTTTTCAAGCCCACAAGTC--TGGCACTT
188 CAGTGGCACCTTTTCAAGCCCACAAGTCAGTGGCACTC
* *
843282 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * * * * * **
843347 CCACAAGTTAGTGACACTCTTTTCAAAGCCCATAAGCCATTAGTAACTCTTTTCAAAGCCCACA
66 CCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGT-GGCACTCTTTTCAAAGCCCACA
843411 CGTGTCGATG
Statistics
Matches: 699, Mismatches: 89, Indels: 59
0.83 0.11 0.07
Matches are distributed among these distances:
224 56 0.08
225 194 0.28
226 49 0.07
227 67 0.10
228 14 0.02
229 2 0.00
230 39 0.06
231 50 0.07
232 97 0.14
233 32 0.05
234 53 0.08
235 26 0.04
236 20 0.03
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.24
Consensus pattern (225 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGT
CAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACAAGTCAGTGGCA
CCTTTTCAAGCCCACAAGTCAGTGGCACTC
Found at i:844090 original size:40 final size:39
Alignment explanation
Indices: 844018--844095 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
844008 TTTTACCCAG
844018 ATGTATCGATACATTTTTCAATATATCAATACATGTATGA
1 ATGTATCGATACATTTTTCAATATATCAATACAT-TATGA
* * *
844058 ATGTATCGATATATTCTTT-AATGTATCGATACATTATG
1 ATGTATCGATACATT-TTTCAATATATCAATACATTATG
844096 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 27 0.79
41 3 0.09
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTTTTCAATATATCAATACATTATGA
Found at i:848018 original size:97 final size:97
Alignment explanation
Indices: 847882--848122 Score: 374
Period size: 97 Copynumber: 2.5 Consensus size: 97
847872 ATTGAAAAAT
* *
847882 GGGGTTGGAGTATCCCCTCAGAGGAATGGGTTTGGAGTGTCCCCGATGATGACAATTTAAGTGAG
1 GGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAG
847947 AATAAAATTTAAACTTTGAGGCGTTTAAAAGC
66 AATAAAATTTAAACTTTGAGGCGTTTAAAAGC
* * * * *
847979 GGTGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCTCGATGGTGATAATTTAAGTGAG
1 GGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAG
* * *
848044 AATAAGATTTAAACTTTGATGTGTTTAAAAGC
66 AATAAAATTTAAACTTTGAGGCGTTTAAAAGC
* *
848076 GGGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGAT
848123 AAAGAAAATT
Statistics
Matches: 129, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 129 1.00
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (97 bp):
GGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAG
AATAAAATTTAAACTTTGAGGCGTTTAAAAGC
Found at i:849574 original size:20 final size:20
Alignment explanation
Indices: 849503--849577 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
849493 AAAAAGACAG
* *
849503 AATGTATCAATACATTGAAG
1 AATGTATCGATACATTGAAA
* *
849523 AATGTAGT-GATACATTCATA
1 AATGTA-TCGATACATTGAAA
* *
849543 CATGTATAGATACATTGAAA
1 AATGTATCGATACATTGAAA
849563 AATGTATCGATACAT
1 AATGTATCGATACAT
849578 CTAGATACTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:850532 original size:28 final size:28
Alignment explanation
Indices: 850476--850859 Score: 446
Period size: 28 Copynumber: 13.4 Consensus size: 28
850466 ACCGACTCGA
**
850476 GTGGGCTTTGAAAATAGTGCCACTGACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
* *
850505 ATGGGCATTGAAAGAGG-GCCACTGACTT
1 GTGGGCTTTGAAAG-GGTGCCACTGACTT
**
850533 GTGGGCTTTGAAAGGGTGCTTCTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
850561 GTGGGCTTTGAAAAGATGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
850589 ATGGGCTTTGAAAAGAGTTGCCACCGACTC
1 GTGGGCTTTG-AAAG-GGTGCCACTGACTT
* * *
850619 GTGGGTTTTGAAAGGAATGCCACTGACTC
1 GTGGGCTTTGAAAGG-GTGCCACTGACTT
850648 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* ** *
850676 ATGGGCTTTGAAAGAATGCCACTGACAT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
850704 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
*
850732 GTGGGCTTTGAAAGGGTACCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
850760 GTGGGCTTTGAAAAGAGTTGCCTCCGACTTTT
1 GTGGGCTTTG-AAAG-GGTGCCACTGAC--TT
* *
850792 GTAGGCTTTGAAAGGGTGCCACTAACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
850820 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
*
850848 GTGGTCTTTGAA
1 GTGGGCTTTGAA
850860 GAGATGAATG
Statistics
Matches: 301, Mismatches: 45, Indels: 19
0.82 0.12 0.05
Matches are distributed among these distances:
27 2 0.01
28 204 0.68
29 45 0.15
30 35 0.12
31 4 0.01
32 11 0.04
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (28 bp):
GTGGGCTTTGAAAGGGTGCCACTGACTT
Found at i:850777 original size:171 final size:171
Alignment explanation
Indices: 850448--850859 Score: 547
Period size: 171 Copynumber: 2.4 Consensus size: 171
850438 ACTTGTGTAA
* * ** *
850448 GCTTTGAAAAGAGTTGCCACCGACTCGAGTGGGCTTTGAAAATAGTGCCACTGACTTATGGGCAT
1 GCTTTG-AAAG-GATGCCACTGACTC--GTGGGCTTTG-AAAGGGTGCCACTGACTTATGGGCTT
* * **
850513 TGAAAGAGGGCCACTGACTTGTGGGCTTTGAAAGGGTGCTTCTGACTTGTGGGCTTTGAAAAGAT
61 TGAAAGAAGGCCACTGACATGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAT
* *
850578 GCCACTGACTTATGGGCTTTGAAAAGAGTTGCCACCGAC-TCGTGG
126 ACCACTGACTTATGGGCTTTGAAAAGAGTTGCCACCGACTTCGTAG
*
850623 GTTTTGAAAGGAATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAA
1 GCTTTGAAAGG-ATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAA
* * *
850688 AGAATGCCACTGACATGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTACCA
65 AGAAGGCCACTGACATGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATACCA
* * *
850753 CTGACTTGTGGGCTTTGAAAAGAGTTGCCTCCGACTTTTGTAG
130 CTGACTTATGGGCTTTGAAAAGAGTTGCCACCGAC-TTCGTAG
* * * * *
850796 GCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGTCTTTGAA
1 GCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAA
850860 GAGATGAATG
Statistics
Matches: 210, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
171 117 0.56
172 58 0.28
173 15 0.07
174 15 0.07
175 5 0.02
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (171 bp):
GCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAA
GAAGGCCACTGACATGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATACCAC
TGACTTATGGGCTTTGAAAAGAGTTGCCACCGACTTCGTAG
Found at i:852029 original size:26 final size:30
Alignment explanation
Indices: 851968--852029 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 30
851958 CCCCTTTCTA
*
851968 TTTTTTTGTTATTTTTTCCTTAGTTTTTTG
1 TTTTTTTATTATTTTTTCCTTAGTTTTTTG
851998 -TTTTTTATT-TTTTTT-C-TA-TTTTTTG
1 TTTTTTTATTATTTTTTCCTTAGTTTTTTG
852023 TTTTTTT
1 TTTTTTT
852030 TGGGTATTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 7 0.23
26 8 0.27
27 1 0.03
28 6 0.20
29 8 0.27
ACGTcount: A:0.06, C:0.05, G:0.06, T:0.82
Consensus pattern (30 bp):
TTTTTTTATTATTTTTTCCTTAGTTTTTTG
Found at i:852794 original size:20 final size:20
Alignment explanation
Indices: 852769--852834 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
852759 TTACAAGCCA
852769 ATGTATCGATACATTTGGTC
1 ATGTATCGATACATTTGGTC
852789 ATGTATCGATACA-------
1 ATGTATCGATACATTTGGTC
852802 ATGTATCGATACATTTGGTC
1 ATGTATCGATACATTTGGTC
852822 ATGTATCGATACA
1 ATGTATCGATACA
852835 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.33
20 26 0.67
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTTGGTC
Found at i:852807 original size:13 final size:13
Alignment explanation
Indices: 852789--852847 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
852779 ACATTTGGTC
852789 ATGTATCGATACA
1 ATGTATCGATACA
852802 ATGTATCGATAC-
1 ATGTATCGATACA
*
852814 AT-T-T-GGT-C-
1 ATGTATCGATACA
852822 ATGTATCGATACA
1 ATGTATCGATACA
852835 ATGTATCGATACA
1 ATGTATCGATACA
852848 TCTTGTATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 2 0.05
11 3 0.08
12 3 0.08
13 25 0.64
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:852809 original size:33 final size:33
Alignment explanation
Indices: 852767--852867 Score: 179
Period size: 33 Copynumber: 3.1 Consensus size: 33
852757 CGTTACAAGC
852767 CAATGTATCGATACATTTGGTCATGTATCGATA
1 CAATGTATCGATACATTTGGTCATGTATCGATA
852800 CAATGTATCGATACATTTGGTCATGTATCGATA
1 CAATGTATCGATACATTTGGTCATGTATCGATA
852833 CAATGTATCGATACATCTT-GT-ATGTATCGATA
1 CAATGTATCGATACAT-TTGGTCATGTATCGATA
852865 CAA
1 CAA
852868 ACAGTTAAGG
Statistics
Matches: 67, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
32 14 0.21
33 51 0.76
34 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (33 bp):
CAATGTATCGATACATTTGGTCATGTATCGATA
Found at i:855476 original size:33 final size:33
Alignment explanation
Indices: 855434--855509 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
855424 AAACCTTTTG
* *
855434 TATCGATACAATGTATTGATACAGAGAATGCTC
1 TATCGATACAATGTATCGATACAAAGAATGCTC
*
855467 TATCGATACAATGTATCGATACAAAGAATGCTG
1 TATCGATACAATGTATCGATACAAAGAATGCTC
855500 TATCGATACA
1 TATCGATACA
855510 TCTGAGTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (33 bp):
TATCGATACAATGTATCGATACAAAGAATGCTC
Found at i:866934 original size:96 final size:97
Alignment explanation
Indices: 866763--866978 Score: 285
Period size: 96 Copynumber: 2.2 Consensus size: 97
866753 TTTTTGATTG
* * * **
866763 AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTAGAGTGTCCCCGATGATGACAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAATGGGGTTAGAATGTAACCGATGATGACAATTTA
866828 AGTGAGAATAAAACTTAAACTTTGATACATTT
66 AGTGAGAATAAAACTTAAACTTTGATACATTT
* *
866860 AAAAG-TGGGTTGGACTATCCCCTCAGAGGAATGGGGTT-GAAATGTAACCGAT-AGTGACAATT
1 AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAATGGGGTTAG-AATGTAACCGATGA-TGACAATT
* * ***
866922 TAAGTGAGAATAAGATTTAAACTTTGATGTGTTT
64 TAAGTGAGAATAAAACTTAAACTTTGATACATTT
866956 AAAAGCGGGGTTGGAGTATCCCC
1 AAAAGCGGGGTTGGAGTATCCCC
866979 GATAAATAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
95 2 0.02
96 81 0.79
97 19 0.19
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.27
Consensus pattern (97 bp):
AAAAGCGGGGTTGGAGTATCCCCTCAGAGGAATGGGGTTAGAATGTAACCGATGATGACAATTTA
AGTGAGAATAAAACTTAAACTTTGATACATTT
Found at i:869207 original size:20 final size:19
Alignment explanation
Indices: 869180--869256 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 19
869170 GTAAAAAGAC
*
869180 AAAATGTATTGATACATTG
1 AAAATGTATCGATACATTG
* *
869199 AAGAATGTAGCGATACATTC
1 AA-AATGTATCGATACATTG
* *
869219 ATACATGTACCGATACATTG
1 A-AAATGTATCGATACATTG
869239 AAAAATGTATCGATACAT
1 -AAAATGTATCGATACAT
869257 CTGTGTACTT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
19 2 0.04
20 43 0.91
21 2 0.04
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:870506 original size:20 final size:17
Alignment explanation
Indices: 870481--870533 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
870471 TTTTACCTAG
870481 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATT---AA
*
870501 ATGTATCGATACACTTCA
1 ATGTATCGATACA-TTAA
870519 ATGTATCGATACATT
1 ATGTATCGATACATT
870534 CTATTTTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 2 0.06
18 14 0.45
20 13 0.42
21 2 0.06
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (17 bp):
ATGTATCGATACATTAA
Found at i:871538 original size:13 final size:13
Alignment explanation
Indices: 871520--871545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
871510 CAATTTTTTG
871520 TGTATCGATACAT
1 TGTATCGATACAT
871533 TGTATCGATACAT
1 TGTATCGATACAT
871546 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:872295 original size:19 final size:19
Alignment explanation
Indices: 872271--872316 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
872261 TTTATAAGGT
872271 AATTTA-CACACATATCAAA
1 AATTTATCACACATA-CAAA
*
872290 AATTTATTCGCACATACAAA
1 AATTTA-TCACACATACAAA
872310 AATTTAT
1 AATTTAT
872317 TTGCACATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 10 0.42
21 7 0.29
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (19 bp):
AATTTATCACACATACAAA
Found at i:872311 original size:20 final size:20
Alignment explanation
Indices: 872279--872327 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
872269 GTAATTTACA
872279 CACATATCAAAAATTTATTCG
1 CACATA-CAAAAATTTATTCG
*
872300 CACATACAAAAATTTATTTG
1 CACATACAAAAATTTATTCG
872320 CACATACA
1 CACATACA
872328 TCTATTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (20 bp):
CACATACAAAAATTTATTCG
Found at i:874075 original size:13 final size:13
Alignment explanation
Indices: 874057--874081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
874047 ATAATCCCCC
874057 TGTATCGATACAG
1 TGTATCGATACAG
874070 TGTATCGATACA
1 TGTATCGATACA
874082 TTGAATTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:880188 original size:20 final size:20
Alignment explanation
Indices: 880159--880210 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
880149 TACAAGCCAA
**
880159 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
*
880179 TGTATTGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
880198 TGTATCGATACAA
1 TGTATCGATACAA
880211 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:884068 original size:52 final size:52
Alignment explanation
Indices: 883990--884117 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
883980 CGAAATATGA
*
883990 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
884042 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
884094 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
884118 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:884144 original size:13 final size:13
Alignment explanation
Indices: 884126--884150 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
884116 CAAAGATCAG
884126 TGTATCGATACAA
1 TGTATCGATACAA
884139 TGTATCGATACA
1 TGTATCGATACA
884151 TTTTTTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:884207 original size:33 final size:33
Alignment explanation
Indices: 884170--884236 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
884160 AGTAGCTTAA
884170 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
884203 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
884236 A
1 A
884237 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:884210 original size:13 final size:13
Alignment explanation
Indices: 884192--884216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
884182 CAAAAAAATA
884192 TGTATCGATACAT
1 TGTATCGATACAT
884205 TGTATCGATACA
1 TGTATCGATACA
884217 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:884418 original size:9 final size:9
Alignment explanation
Indices: 884406--884435 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
884396 AAAAAGTTAT
884406 AAAAATCTA
1 AAAAATCTA
884415 AAAAATCT-
1 AAAAATCTA
884423 AAAAATCTA
1 AAAAATCTA
884432 AAAA
1 AAAA
884436 GTTATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAATCTA
Found at i:884426 original size:7 final size:8
Alignment explanation
Indices: 884405--884435 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
884395 CAAAAAGTTA
884405 TAAAAATC
1 TAAAAATC
884413 TAAAAAATC
1 T-AAAAATC
884422 TAAAAATC
1 TAAAAATC
884430 TAAAAA
1 TAAAAA
884436 GTTATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (8 bp):
TAAAAATC
Done.