Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold201
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: 841227
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 75646 characters in sequence are not A, C, G, or T
File 4 of 6
Found at i:511945 original size:10 final size:10
Alignment explanation
Indices: 511930--511969 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
511920 CTTCATGCCA
511930 AAAAAAAAAC
1 AAAAAAAAAC
511940 -AAAAAAAAC
1 AAAAAAAAAC
511949 --AAAAAAAC
1 AAAAAAAAAC
511957 AAAAAAAAAC
1 AAAAAAAAAC
511967 AAA
1 AAA
511970 CAAACAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.29
9 9 0.32
10 11 0.39
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:511954 original size:17 final size:17
Alignment explanation
Indices: 511932--511980 Score: 80
Period size: 18 Copynumber: 2.8 Consensus size: 17
511922 TCATGCCAAA
511932 AAAAAAACAAAAAAAAC
1 AAAAAAACAAAAAAAAC
511949 AAAAAAACAAAAAAAAAC
1 AAAAAAAC-AAAAAAAAC
*
511967 AAACAAACAAAAAA
1 AAAAAAACAAAAAA
511981 GGGGTCCAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAC
Found at i:511954 original size:18 final size:17
Alignment explanation
Indices: 511929--511980 Score: 77
Period size: 17 Copynumber: 3.0 Consensus size: 17
511919 CCTTCATGCC
511929 AAAAAAAAAACAAAAAA
1 AAAAAAAAAACAAAAAA
*
511946 AACAAAAAAACAAAAAA
1 AAAAAAAAAACAAAAAA
*
511963 AAACAAACAAACAAAAAA
1 AAA-AAAAAAACAAAAAA
511981 GGGGTCCAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
17 18 0.58
18 13 0.42
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAAAAAA
Found at i:511967 original size:27 final size:26
Alignment explanation
Indices: 511930--511980 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
511920 CTTCATGCCA
511930 AAAAAAAAACAAAAAAAACAAAAAAAC
1 AAAAAAAAAC-AAAAAAACAAAAAAAC
*
511957 AAAAAAAAACAAACAAACAAAAAA
1 AAAAAAAAACAAAAAAACAAAAAA
511981 GGGGTCCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAAAAAACAAAAAAACAAAAAAAC
Found at i:513260 original size:28 final size:28
Alignment explanation
Indices: 513229--513836 Score: 686
Period size: 28 Copynumber: 21.1 Consensus size: 28
513219 CGTTCATCTC
* *
513229 TTCAAAGCCCATAGGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
513257 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
513285 TTCAAATCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
513313 TTCAAAGCCCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
513340 CTTCAAAAGACCACAAGTCAATGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* *
513370 TTTAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
513398 TTCAAAGCCCACAAGTTAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
*
513426 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * * *
513454 TTTAAAACTCACAAGTCAGTGGTACCCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
513482 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
513510 TTCAAAGCCCACAAGTTAGTGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
* *
513540 TTCAAAGCCCACACAAG-CTAGTGGTAACTCTT
1 TTCAAAG-CC-CACAAGTC-AGTGG-CA-TCCT
*
513572 TTCAAAGCCCACATGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
513600 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
513628 TTCAAAGCCCATAAGTCAGTGACACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
513657 TTCAAAGCCCACATGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-A-TCCT
513689 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
513717 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
513745 TTCAAAGCCCACAAGTTAGGGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
513774 TTCAAAGCCCACACGAGTC-GATGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAG-TGGC-A-TCCT
*
513806 TTCAAAGCCCATACAAGTTAGTGGCA-CCT
1 TTCAAAGCCC--ACAAGTCAGTGGCATCCT
513835 TT
1 TT
513837 TTTTTAAAAA
Statistics
Matches: 505, Mismatches: 50, Indels: 49
0.84 0.08 0.08
Matches are distributed among these distances:
27 4 0.01
28 320 0.63
29 59 0.12
30 33 0.07
31 21 0.04
32 62 0.12
33 2 0.00
34 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:513709 original size:117 final size:115
Alignment explanation
Indices: 513229--513836 Score: 786
Period size: 117 Copynumber: 5.3 Consensus size: 115
513219 CGTTCATCTC
* * * *
513229 TTCAAAGCCCATAGGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAATCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* * *
513294 CACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGC-A-TCTC
66 CACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * * * *
513341 TTCAAAAGACCACAAGTCAATGGCATCCTTTTAAAGCCCATAAGTCAGTGGCATCCTTTCAAAGC
1 TTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
513406 CCACAAGTTAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGC-ACCCTT
65 CCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * * * *
513455 TT-AAAACTCACAAGTCAGTGGTACCCCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* *
513519 CACAAGTTAGTGGCA-TACCCTTTCAAAGCCCACACAAG-CTAGTGGTAACTCTT
66 CACAAGTTAGTGGCACT--CTTTTCAAAG-CC-CACAAGTC-AGTGGCAACTCTT
* *
513572 TTCAAAGCCCACATGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* * *
513637 CATAAGTCAGTGACACTCTTTTCAAAGCCCACATGAGTCAGTGGCAACTCTT
66 CACAAGTTAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGCAACTCTT
513689 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
*
513754 CACAAGTTAGGGGCACTCTTTTCAAAGCCCACACGAGTC-GATGGCAACTCTT
66 CACAAGTTAGTGGCACTCTTTTCAAAGCCCACA--AGTCAG-TGGCAACTCTT
*
513806 TTCAAAGCCCATACAAGTTAGTGGCA-CCTTT
1 TTCAAAGCCC--ACAAGTCAGTGGCATCCTTT
513837 TTTTTAAAAA
Statistics
Matches: 434, Mismatches: 44, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
112 70 0.16
113 95 0.22
114 13 0.03
115 7 0.02
116 14 0.03
117 148 0.34
118 73 0.17
119 14 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (115 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
CACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
Found at i:515617 original size:15 final size:15
Alignment explanation
Indices: 515597--515629 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
515587 AGCCTTGACC
515597 ATGCATTTTTTTACT
1 ATGCATTTTTTTACT
515612 ATGCATTTTTTTACT
1 ATGCATTTTTTTACT
515627 ATG
1 ATG
515630 TTCCACGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (15 bp):
ATGCATTTTTTTACT
Found at i:520706 original size:80 final size:79
Alignment explanation
Indices: 520593--520792 Score: 211
Period size: 79 Copynumber: 2.5 Consensus size: 79
520583 AATGACAGGG
* * * * * * * *
520593 TTGGAGTGTTCCCTTGAAAATGACGGGGCTGGAGTATCCCCAGTTGTGAGAAATCGATGATTAGA
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTAGA
*
520658 AAAAAAAAATCGGGA
65 AAAAAAAAACCGGGA
** ** *
520673 TTGGAGTATCCTTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTAGAA
* * * *
520738 GAATAAAGCCGGGG
66 AAAAAAAACCGGGA
* *
520752 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
520793 GATGAAATAA
Statistics
Matches: 98, Mismatches: 22, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
79 50 0.51
80 48 0.49
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTAGAA
AAAAAAAACCGGGA
Found at i:520787 original size:28 final size:28
Alignment explanation
Indices: 520747--520818 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
520737 GGAATAAAGC
** *
520747 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
520775 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
520803 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
520819 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:520876 original size:52 final size:52
Alignment explanation
Indices: 520807--521143 Score: 187
Period size: 52 Copynumber: 6.4 Consensus size: 52
520797 AAATAACGAG
*
520807 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** * *
520859 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * *
520912 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTCGCG--ATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* **** * *
520963 GTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAA-CAGG-
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTA-T-TTTTGGA-AATAAAATC-GGA
*
521018 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGA
* * * * *
521072 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
* *
521123 GTTGGAATATCCTCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
521144 GAGAATTGAT
Statistics
Matches: 216, Mismatches: 40, Indels: 58
0.69 0.13 0.18
Matches are distributed among these distances:
48 4 0.02
49 2 0.01
50 2 0.01
51 37 0.17
52 79 0.37
53 35 0.16
54 26 0.12
55 17 0.08
56 4 0.02
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:521003 original size:28 final size:27
Alignment explanation
Indices: 520963--521033 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
520953 TAAAACCGGA
** *
520963 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACAGG
* *
520991 GTTGGAGTATCCCCGATGATTAACAGG
1 GTTGGAGTATCCCCGAGGAATAACAGG
521018 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
521034 TTGTGAAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACAGG
Found at i:521046 original size:107 final size:106
Alignment explanation
Indices: 520693--521085 Score: 336
Period size: 107 Copynumber: 3.7 Consensus size: 106
520683 CTTTCGAAAA
* * * * * * * * *
520693 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAG
1 TAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGGAATAAAACCGGAGTTGGAG
* *
520758 TATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
66 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * *
520800 TAAC-GAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGG
1 TAACAG-GGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGG-AATAAAACCGGAGTTGG
* * ** * ** **
520864 AGTAT-CCC-C-G-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
64 AGTATCCCCTCGGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * * *
520902 AAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTCGCG-ATAAAACCGGAGTT
1 -TAA-CAGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATTTTTG-GAATAAAACCGGAGTT
520966 GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
62 GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
* * * *
521011 TAACAGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 TAACAGGGTTGGAGTATCCCCGATTGTGAA-AAATTAGT-ATTTTTGG-AATAAAACCGGAGTTG
521076 GAGTATCCCC
63 GAGTATCCCC
521086 GATTATAGAA
Statistics
Matches: 222, Mismatches: 44, Indels: 38
0.73 0.14 0.12
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 46 0.21
105 21 0.09
106 19 0.09
107 72 0.32
108 32 0.14
109 27 0.12
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (106 bp):
TAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGGAATAAAACCGGAGTTGGAG
TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:521099 original size:212 final size:212
Alignment explanation
Indices: 520740--521145 Score: 631
Period size: 212 Copynumber: 1.9 Consensus size: 212
520730 TATTTTAGGA
* * *
520740 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
520805 AGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
* *
520870 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGA
131 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTGGA
520934 AAAATTAGTGTTTTCGCG
195 AAAATTAGTGTTTTCGCG
*
520952 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAAC-
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
*
521015 AGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGT
66 A-GGTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGT
* * * *
521080 ATCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTG
128 ATCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTG
521144 GA
193 GA
521146 GAATTGATAA
Statistics
Matches: 177, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
210 1 0.01
211 31 0.18
212 106 0.60
213 39 0.22
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAA
AAATTAGTGTTTTCGCG
Found at i:521118 original size:51 final size:53
Alignment explanation
Indices: 521022--521140 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 53
521012 AACAGGGTTG
* * *
521022 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
521076 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
* *
521127 GAATATCCTCGATT
1 GAGTATCCCCGATT
521141 GTGGAGAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 33 0.57
52 2 0.03
53 8 0.14
54 15 0.26
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:523555 original size:19 final size:18
Alignment explanation
Indices: 523531--523598 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
523521 CAGTAGCTAA
523531 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
523550 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
523565 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
523582 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
523599 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:523571 original size:13 final size:13
Alignment explanation
Indices: 523553--523577 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
523543 ACAATACTTA
523553 TGTATCGATACAT
1 TGTATCGATACAT
523566 TGTATCGATACA
1 TGTATCGATACA
523578 AAACTTATGT
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:523575 original size:32 final size:32
Alignment explanation
Indices: 523534--523596 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
523524 TAGCTAATTA
*
523534 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
523566 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
523597 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:525715 original size:26 final size:26
Alignment explanation
Indices: 525686--525770 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
525676 CCTTTTGTCC
525686 TCAAAGAGCAAGACACCTTTTTCTTT
1 TCAAAGAGCAAGACACCTTTTTCTTT
** * *
525712 TCAAAGCCCACACGAGC-CCTTTAGTC--C
1 TCAAAGAGCA-A-GA-CACCTTT-TTCTTT
*
525739 TCAAAGAGCAGGACACCTTTTTCTTT
1 TCAAAGAGCAAGACACCTTTTTCTTT
525765 TCAAAG
1 TCAAAG
525771 CCCACACGAG
Statistics
Matches: 43, Mismatches: 9, Indels: 14
0.65 0.14 0.21
Matches are distributed among these distances:
24 3 0.07
25 7 0.16
26 14 0.33
27 9 0.21
28 7 0.16
29 3 0.07
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (26 bp):
TCAAAGAGCAAGACACCTTTTTCTTT
Found at i:525717 original size:62 final size:62
Alignment explanation
Indices: 525615--525926 Score: 327
Period size: 62 Copynumber: 5.3 Consensus size: 62
525605 CTTTTAGCCT
* * *
525615 TTTTAGTCCTCAAAGAGCAGGACACTTTTTTCTTTTCAAAGCCCACACGGGCTGGTGGCACCC
1 TTTT-GTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
*
525678 TTTTGTCCTCAAAGAGCAAGACACCTTTTTCTTTTCAAAGCCCACACGA-------G--CCC
1 TTTTGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
*
525731 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
1 TTTTGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* ** * * *
525793 TTTTGTCCACAAAGAGCAGGATGCCTTTTTC---T--AAGCCCATATGAGTTTGTGGCA-CC
1 TTTTGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
* * ** *
525849 TTTTAGTCCTTAAAAAGCAGGATGCC-TTTT-TTTTCAAAGCCCACACAAGTTGGTGGCA-CC
1 TTTT-GTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
*
525909 TTTAGTCCTCAAAGAGCA
1 TTTTGTCCTCAAAGAGCA
525927 AGACGCCTGT
Statistics
Matches: 212, Mismatches: 22, Indels: 34
0.79 0.08 0.13
Matches are distributed among these distances:
53 50 0.24
55 1 0.00
56 10 0.05
57 37 0.17
58 1 0.00
59 13 0.06
60 24 0.11
62 72 0.34
63 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (62 bp):
TTTTGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
Found at i:525733 original size:53 final size:53
Alignment explanation
Indices: 525675--525780 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
525665 GCTGGTGGCA
*
525675 CCCTTTTGTCCTCAAAGAGCAAGACACCTTTTTCTTTTCAAAGCCCACACGAG
1 CCCTTTAGTCCTCAAAGAGCAAGACACCTTTTTCTTTTCAAAGCCCACACGAG
*
525728 CCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAG
1 CCCTTTAGTCCTCAAAGAGCAAGACACCTTTTTCTTTTCAAAGCCCACACGAG
525781 TTGGTGGCAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.27
Consensus pattern (53 bp):
CCCTTTAGTCCTCAAAGAGCAAGACACCTTTTTCTTTTCAAAGCCCACACGAG
Found at i:525820 original size:115 final size:115
Alignment explanation
Indices: 525616--525824 Score: 355
Period size: 115 Copynumber: 1.8 Consensus size: 115
525606 TTTTAGCCTT
* *
525616 TTTAGTCCTCAAAGAGCAGGACACTTTTTTCTTTTCAAAGCCCACACGGGCTGGTGGCACCCTTT
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACCCTTT
*
525681 TGTCCTCAAAGAGCAAGACACCTTTTTCTTTTCAAAGCCCACACGAGCCC
66 TGTCCACAAAGAGCAAGACACCTTTTTCTTTTCAAAGCCCACACGAGCCC
*
525731 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTT
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACCCTTT
* **
525796 TGTCCACAAAGAGCAGGATGCCTTTTTCT
66 TGTCCACAAAGAGCAAGACACCTTTTTCT
525825 AAGCCCATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
115 87 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (115 bp):
TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACCCTTT
TGTCCACAAAGAGCAAGACACCTTTTTCTTTTCAAAGCCCACACGAGCCC
Found at i:525905 original size:60 final size:60
Alignment explanation
Indices: 525731--525926 Score: 240
Period size: 57 Copynumber: 3.3 Consensus size: 60
525721 ACACGAGCCC
**
525731 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCT
1 TTTAGTCCTCAAAGAGCAGGATGCC-TTTT-TTTTCAAAGCCCACACGAGTTGGTGGCA-CCT
* * * * *
525794 TTT-GTCCACAAAGAGCAGGATGCC---TTTTTCTAAGCCCATATGAGTTTGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTTTTCAAAGCCCACACGAGTTGGTGGCACCT
* * *
525850 TTTAGTCCTTAAAAAGCAGGATGCCTTTTTTTTCAAAGCCCACACAAGTTGGTGGCACC-
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTTTTCAAAGCCCACACGAGTTGGTGGCACCT
525909 TTTAGTCCTCAAAGAGCA
1 TTTAGTCCTCAAAGAGCA
525927 AGACGCCTGT
Statistics
Matches: 112, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
56 6 0.05
57 42 0.38
58 1 0.01
59 16 0.14
60 26 0.23
62 18 0.16
63 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (60 bp):
TTTAGTCCTCAAAGAGCAGGATGCCTTTTTTTTCAAAGCCCACACGAGTTGGTGGCACCT
Found at i:526190 original size:21 final size:21
Alignment explanation
Indices: 526165--526220 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
526155 TTTTGGTCCA
526165 AATGTATCGATACATTGTTAT
1 AATGTATCGATACATTGTTAT
526186 AATGTATCGATACATTGTTAT
1 AATGTATCGATACATTGTTAT
526207 AATGTATCGATACA
1 AATGTATCGATACA
526221 AGGTCCCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTGTTAT
Found at i:526314 original size:33 final size:33
Alignment explanation
Indices: 526258--526324 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
526248 TTCAACGATT
*
526258 TGTATCGATACATAAAATGTTGTATTGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
526291 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
526324 T
1 T
526325 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:526385 original size:13 final size:13
Alignment explanation
Indices: 526367--526391 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
526357 ATTACTCAAA
526367 TGTATCGATACAT
1 TGTATCGATACAT
526380 TGTATCGATACA
1 TGTATCGATACA
526392 CTGATCTTTG
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:526493 original size:52 final size:52
Alignment explanation
Indices: 526400--526523 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
526390 CACTGATCTT
*
526400 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
526451 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
526503 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
526524 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 19 0.28
52 47 0.68
53 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:529720 original size:62 final size:61
Alignment explanation
Indices: 529597--529832 Score: 230
Period size: 62 Copynumber: 4.0 Consensus size: 61
529587 CGTTACGACA
*
529597 ACGCCTTTTTCTTTTC-AAGCCCACATGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
1 ACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
* * *
529657 ACGCCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACTCTTTAGTCCTTAAAGAGTAGG
1 ACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC-CTTTAGTCCTCAAAGAGCAGG
* * * *
529719 ACGCATTTTT-TCTTTCAAAG-CC-CAC-A--------C-CCTTTAGTCCTCGAACAACAGG
1 ACGCCTTTTTCT-TTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
* * * *
529768 ATGCCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAGGAGTAGG
1 ACGCC-TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGG
529831 AC
1 AC
529833 ATTTTCCTTA
Statistics
Matches: 139, Mismatches: 19, Indels: 33
0.73 0.10 0.17
Matches are distributed among these distances:
49 19 0.14
50 14 0.10
51 4 0.03
52 3 0.02
53 1 0.01
59 1 0.01
60 19 0.14
61 24 0.17
62 36 0.26
63 18 0.13
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (61 bp):
ACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
Found at i:529942 original size:84 final size:82
Alignment explanation
Indices: 529842--530116 Score: 259
Period size: 84 Copynumber: 3.3 Consensus size: 82
529832 CATTTTCCTT
*
529842 ATTTCCTT-TTTT-CCTTTGTCCTCAAAAAGTACGATGCACTTTTTTTCCTTTTCCTTTGTCTTT
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAAAGTA-GATGCACTTTTTTT-CTTTTCCTTTGTCCTT
*
529905 AAAGAGCAGGACACACCTC
64 AAAGAGCAGGACACACTTC
* *
529924 ATTTCATTATTTTCCCTTTGTCCT--AACAG--GATGCACTTCATTTCCTTCTTTTCTCTTTTGT
1 ATTTCCTTATTTTCCCTTTGTCCTCAAAAAGTAGATGCACTT--TTT--TTCTTTTC-C-TTTGT
* *
529985 CCTTAAAGAGCAAGACACACTTT
60 CCTTAAAGAGCAGGACACACTTC
* * *
530008 ATTTCCCTT-TTTTCCCTTAGTCCTCAAAGAGTAAGGA-GC-CTTTTCCTTT-TTTT-CTTCGTC
1 ATTT-CCTTATTTTCCCTTTGTCCTCAAAAAGT-A-GATGCACTTTT--TTTCTTTTCCTTTGTC
*
530068 CTCAAAGAGCAGGACACA-TTC
61 CTTAAAGAGCAGGACACACTTC
530089 ATTTCCTTATTTTCCCTTTGTCCTCAAA
1 ATTTCCTTATTTTCCCTTTGTCCTCAAA
530117 GAGAAAAACG
Statistics
Matches: 161, Mismatches: 14, Indels: 37
0.76 0.07 0.17
Matches are distributed among these distances:
79 9 0.06
80 4 0.02
81 27 0.17
82 38 0.24
83 8 0.05
84 52 0.32
85 7 0.04
86 8 0.05
88 4 0.02
89 2 0.01
90 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.43
Consensus pattern (82 bp):
ATTTCCTTATTTTCCCTTTGTCCTCAAAAAGTAGATGCACTTTTTTTCTTTTCCTTTGTCCTTAA
AGAGCAGGACACACTTC
Found at i:530145 original size:43 final size:43
Alignment explanation
Indices: 529842--530145 Score: 181
Period size: 40 Copynumber: 7.3 Consensus size: 43
529832 CATTTTCCTT
* * * * *
529842 ATTTCCTTTTTT-CCTTTGTCCTCAAAAAGTACGATGCACTTT
1 ATTTCCTTTTTTCCCTTTGTCCTCAAAGAGAAAGACGCACTTC
* * * * * * *
529884 TTTTCC--TTTT-CCTTTGTCTTTAAAGAGCAGGACACACCTC
1 ATTTCCTTTTTTCCCTTTGTCCTCAAAGAGAAAGACGCACTTC
* * *
529924 ATTTCATTATTTTCCCTTTGTCCT--AACAG---GATGCACTTC
1 ATTTCCTT-TTTTCCCTTTGTCCTCAAAGAGAAAGACGCACTTC
* * * * *
529963 ATTTCCTTCTTTTCTCTTTTGTCCTTAAAGAGCAAGACACACTTT
1 ATTTCCTT-TTTTC-CCTTTGTCCTCAAAGAGAAAGACGCACTTC
* *
530008 ATTTCCCTTTTTTCCCTTAGTCCTCAAAGAGTAAGGA-GC-C-T-
1 ATTT-CCTTTTTTCCCTTTGTCCTCAAAGAG-AAAGACGCACTTC
* * * * *
530049 -TTTCCTTTTTT-TCTTCGTCCTCAAAGAGCAGGACACA-TTC
1 ATTTCCTTTTTTCCCTTTGTCCTCAAAGAGAAAGACGCACTTC
*
530089 ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGAAAAACGCACTTC
1 ATTTCCTT-TTTTCCCTTTGTCCTCAAAGAGAAAGACGCACTTC
*
530133 ATTTCATTTTTTC
1 ATTTCCTTTTTTC
530146 TTGTTGTCAC
Statistics
Matches: 201, Mismatches: 41, Indels: 39
0.72 0.15 0.14
Matches are distributed among these distances:
37 4 0.02
38 16 0.08
39 28 0.14
40 41 0.20
41 7 0.03
42 18 0.09
43 30 0.15
44 34 0.17
45 19 0.09
46 4 0.02
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.42
Consensus pattern (43 bp):
ATTTCCTTTTTTCCCTTTGTCCTCAAAGAGAAAGACGCACTTC
Found at i:530926 original size:30 final size:30
Alignment explanation
Indices: 530890--531011 Score: 129
Period size: 30 Copynumber: 4.4 Consensus size: 30
530880 CTTTATTGTG
*
530890 TCGATACATTCTAGGTTTAACCCAGATGTA
1 TCGATACATTCTAGGTTTTACCCAGATGTA
*
530920 TCGATACA-T-TA----TT---CA-TTGTA
1 TCGATACATTCTAGGTTTTACCCAGATGTA
*
530940 TCGATACATTCTAGGTTTTACCGAGATGTA
1 TCGATACATTCTAGGTTTTACCCAGATGTA
* *
530970 TCGATACATTCTGGGTTTTACCGAGATGTA
1 TCGATACATTCTAGGTTTTACCCAGATGTA
531000 TCGATACATTCT
1 TCGATACATTCT
531012 TTATTGTATC
Statistics
Matches: 77, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
20 12 0.16
21 3 0.04
22 2 0.03
24 1 0.01
26 2 0.03
28 2 0.03
29 2 0.03
30 53 0.69
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (30 bp):
TCGATACATTCTAGGTTTTACCCAGATGTA
Found at i:530938 original size:50 final size:50
Alignment explanation
Indices: 530867--530979 Score: 172
Period size: 50 Copynumber: 2.3 Consensus size: 50
530857 TAAACAATTC
* * * *
530867 GTATTGATACATTCTTTATTGTGTCGATACATTCTAGGTTTAACCCAGAT
1 GTATCGATACATTATTCATTGTATCGATACATTCTAGGTTTAACCCAGAT
* *
530917 GTATCGATACATTATTCATTGTATCGATACATTCTAGGTTTTACCGAGAT
1 GTATCGATACATTATTCATTGTATCGATACATTCTAGGTTTAACCCAGAT
530967 GTATCGATACATT
1 GTATCGATACATT
530980 CTGGGTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (50 bp):
GTATCGATACATTATTCATTGTATCGATACATTCTAGGTTTAACCCAGAT
Found at i:531023 original size:80 final size:80
Alignment explanation
Indices: 530890--531059 Score: 268
Period size: 80 Copynumber: 2.1 Consensus size: 80
530880 CTTTATTGTG
530890 TCGATACATTCTAGGTTTAACCCAGATGTATCGATACATTATTCATTGTATCGATACATTCTAGG
1 TCGATACATTCTAGGTTTAACCCAGATGTATCGATACATTATTCATTGTATCGATACATTCTAGG
*
530955 TTTTACCGAGATGTA
66 TCTTACCGAGATGTA
* * * * * *
530970 TCGATACATTCTGGGTTTTACCGAGATGTATCGATACATTCTTTATTGTATCGATACATTCTGGG
1 TCGATACATTCTAGGTTTAACCCAGATGTATCGATACATTATTCATTGTATCGATACATTCTAGG
*
531035 TCTTACCTAGATGTA
66 TCTTACCGAGATGTA
531050 TCGATACATT
1 TCGATACATT
531060 TCTCAATGTA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (80 bp):
TCGATACATTCTAGGTTTAACCCAGATGTATCGATACATTATTCATTGTATCGATACATTCTAGG
TCTTACCGAGATGTA
Found at i:531070 original size:50 final size:50
Alignment explanation
Indices: 530965--531080 Score: 171
Period size: 50 Copynumber: 2.3 Consensus size: 50
530955 TTTTACCGAG
* *
530965 ATGTATCGATACATTCTGGGTTTTACCGAGATGTATCGATACATTCTTTA
1 ATGTATCGATACATTCTGGGTCTTACCGAGATGTATCGATACATTCTTCA
* *
531015 TTGTATCGATACATTCTGGGTCTTACCTAGATGTATCGATACATT-TCTCA
1 ATGTATCGATACATTCTGGGTCTTACCGAGATGTATCGATACATTCT-TCA
*
531065 ATGTATCGATATATTC
1 ATGTATCGATACATTC
531081 AAGCATTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 1 0.02
50 58 0.98
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (50 bp):
ATGTATCGATACATTCTGGGTCTTACCGAGATGTATCGATACATTCTTCA
Found at i:533580 original size:80 final size:79
Alignment explanation
Indices: 533439--533822 Score: 330
Period size: 80 Copynumber: 4.8 Consensus size: 79
533429 CATGTTTTTA
* * * * * * *
533439 TTTCCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATTCTCTAACCCTAATTTTTAT
1 TTTCCACAATCGGAGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCC-GATTTTTAT
*
533504 TTTCAAAACATCGAT
65 TTCCAAAACATCGAT
* * * * *
533519 TTTCCATAATCAGAGATACTCAAACCTCATTATTTTCGAAAGGATACTCCAACCTCGATTTTTAT
1 TTTCCACAATCGGAGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACC-CGATTTTTAT
* *
533584 TTCCAAAACACCAAT
65 TTCCAAAACATCGAT
* * * * * *
533599 TTTTCACAATCGGGGATACTCCAATCTCATTA-TTTCAGAGGGGATACTCCAACCCTAATTTTTA
1 TTTCCACAATCGGAGATACTCCAACCCCATTATTTTC-GAAGGGATACTCCAACCC-GATTTTTA
533663 TTTCCAAAACATCGAT
64 TTTCCAAAACATCGAT
* * *
533679 CTTT-CACAATCGGGAAATACTCCAACCCCATTATTTTCG-AGGAGATACTCTAACCCCG-GTTT
1 -TTTCCACAATC-GGAGATACTCCAACCCCATTATTTTCGAAGG-GATACTCCAA-CCCGATTTT
* ** *
533741 TATTTCTAAAGTATTGAT
62 TATTTCCAAAACATCGAT
* * * * **
533759 TTTCCATAATCGGGGATACTCTAACCCCGTTA-TTTCTG-AGGAGATACTCCAACCCCTTTTTTA
1 TTTCCACAATCGGAGATACTCCAACCCCATTATTTTC-GAAGG-GATACTCCAACCCGATTTTTA
533822 T
64 T
533823 CCCTAAAATT
Statistics
Matches: 247, Mismatches: 46, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
78 7 0.03
79 45 0.18
80 157 0.64
81 31 0.13
82 7 0.03
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (79 bp):
TTTCCACAATCGGAGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCGATTTTTATT
TCCAAAACATCGAT
Found at i:533744 original size:160 final size:160
Alignment explanation
Indices: 533439--533813 Score: 459
Period size: 160 Copynumber: 2.3 Consensus size: 160
533429 CATGTTTTTA
* * *
533439 TTTCCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATTCTCTAACCCTAATTTTTAT
1 TTTCCACAATCGGGGATACTCCAACCCCGTTATTTCAGAGGGGATACTCCAACCCTAATTTTTAT
* * * *
533504 TTTCAAAACATCGATTTTCCATAATCAGAGATACTCAAACCTCATTATTTTCGAAAGGATACTCC
66 TTCCAAAACATCGATTTTCCACAATCAGAAATACTCAAACCCCATTATTTTCGAAAGGATACTCC
* *
533569 AACCTCGATTTTTATTTCCAAAACACCAAT
131 AACCCCGAGTTTTATTTCCAAAACACCAAT
* * * *
533599 TTTTCACAATCGGGGATACTCCAATCTCATTATTTCAGAGGGGATACTCCAACCCTAATTTTTAT
1 TTTCCACAATCGGGGATACTCCAACCCCGTTATTTCAGAGGGGATACTCCAACCCTAATTTTTAT
* * *
533664 TTCCAAAACATCGATCTTT-CACAATCGGGAAATACTCCAACCCCATTATTTTCG-AGGAGATAC
66 TTCCAAAACATCGAT-TTTCCACAATC-AGAAATACTCAAACCCCATTATTTTCGAAAG-GATAC
* * ** ***
533727 TCTAACCCCG-GTTTTATTTCTAAAGTATTGAT
128 TCCAACCCCGAGTTTTATTTCCAAAACACCAAT
* * * *
533759 TTTCCATAATCGGGGATACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCC
1 TTTCCACAATCGGGGATACTCCAACCCCGTTATTTCAGAGGGGATACTCCAACCC
533814 CTTTTTTATC
Statistics
Matches: 181, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
160 142 0.78
161 39 0.22
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (160 bp):
TTTCCACAATCGGGGATACTCCAACCCCGTTATTTCAGAGGGGATACTCCAACCCTAATTTTTAT
TTCCAAAACATCGATTTTCCACAATCAGAAATACTCAAACCCCATTATTTTCGAAAGGATACTCC
AACCCCGAGTTTTATTTCCAAAACACCAAT
Found at i:534963 original size:14 final size:14
Alignment explanation
Indices: 534944--534970 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
534934 CATGTCACAA
534944 CATTACTAATTAAG
1 CATTACTAATTAAG
534958 CATTACTAATTAA
1 CATTACTAATTAA
534971 ACATAATAAA
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:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (14 bp):
CATTACTAATTAAG
Found at i:542499 original size:35 final size:35
Alignment explanation
Indices: 542460--542530 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
542450 TAAGGATATT
* * *
542460 ATCTTTACTAGATGTTTTGTTAATATAAACATGTA
1 ATCTTTACTAAATGTTTTATTAACATAAACATGTA
542495 ATCTTTACTAAATGTTTTATTAACATAAACATGTA
1 ATCTTTACTAAATGTTTTATTAACATAAACATGTA
542530 A
1 A
542531 GTAATATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (35 bp):
ATCTTTACTAAATGTTTTATTAACATAAACATGTA
Found at i:546614 original size:16 final size:16
Alignment explanation
Indices: 546593--546634 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
546583 TAATTTTATT
546593 TTGAAAAAATA-GTTAA
1 TTGAAAAAATATGTT-A
*
546609 TTGAAATAACTATGTTA
1 TTGAAA-AAATATGTTA
546626 TTGAAAAAA
1 TTGAAAAAA
546635 GAAATTCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.36
17 11 0.50
18 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (16 bp):
TTGAAAAAATATGTTA
Found at i:557053 original size:12 final size:12
Alignment explanation
Indices: 557036--557063 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
557026 GTCTAAAGGA
557036 TGTAAAAGTATT
1 TGTAAAAGTATT
557048 TGTAAAAGTATT
1 TGTAAAAGTATT
557060 TGTA
1 TGTA
557064 CCTTGACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (12 bp):
TGTAAAAGTATT
Found at i:559161 original size:20 final size:19
Alignment explanation
Indices: 559136--559252 Score: 108
Period size: 20 Copynumber: 5.7 Consensus size: 19
559126 TTTTAACTGG
559136 ATGTATCGATACATTGAGCA
1 ATGTATCGATACATTGAG-A
*
559156 ATGTATTGATACATCTGGATAGA
1 ATGTATCGATACAT-T-G--AGA
*
559179 ATATATCGATACATTGAAGA
1 ATGTATCGATACATTG-AGA
* **
559199 ATGTATCGATACATTCATCC
1 ATGTATCGATACATTGA-GA
559219 ATGTATCGATACATTGAGAA
1 ATGTATCGATACATTGAG-A
*
559239 ATGTATCGGTACAT
1 ATGTATCGATACAT
559253 CTAGGTAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
19 1 0.01
20 59 0.75
21 2 0.03
22 2 0.03
23 13 0.16
24 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACATTGAGA
Found at i:564256 original size:19 final size:20
Alignment explanation
Indices: 564211--564261 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
564201 CACACCCAGA
564211 TGTATCGATACATATTGCTT
1 TGTATCGATACATATTGCTT
* *
564231 TGCATCGATACATGTT-CTT
1 TGTATCGATACATATTGCTT
564250 TGTATCGATACA
1 TGTATCGATACA
564262 CTATAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTGCTT
Found at i:564867 original size:34 final size:33
Alignment explanation
Indices: 564777--564936 Score: 159
Period size: 31 Copynumber: 4.9 Consensus size: 33
564767 AATGATTGAG
* *
564777 AGGTTCTATCTTAACTTTTGAAAAAGATAAGGAGAA
1 AGGTTCTATCTTAACCTATG-AAAAGAT-AGGA-AA
* *
564813 AGGTTCTATCTTAGCTTATGAAAAGATAGGAAA
1 AGGTTCTATCTTAACCTATGAAAAGATAGGAAA
*
564846 GAGGTTCTAACTTAACCTATGAAAAGATA-G-AA
1 -AGGTTCTATCTTAACCTATGAAAAGATAGGAAA
*
564878 AGGTTCTATCTTAACCTGTGAAAAGATA--AAA
1 AGGTTCTATCTTAACCTATGAAAAGATAGGAAA
* * * *
564909 AAGTTATATCTTAGCCT-TCAAAAGATAG
1 AGGTTCTATCTTAACCTATGAAAAGATAG
564937 TGTTGTAAGG
Statistics
Matches: 110, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
30 9 0.08
31 42 0.38
32 2 0.02
33 3 0.03
34 29 0.26
35 7 0.06
36 18 0.16
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.29
Consensus pattern (33 bp):
AGGTTCTATCTTAACCTATGAAAAGATAGGAAA
Found at i:565486 original size:21 final size:21
Alignment explanation
Indices: 565461--565516 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
565451 ATAATTTTAG
565461 GTAATGTTTTTATATAACTCTA
1 GTAATGTTTTTATATAAC-CTA
* *
565483 -TAATGTTTGTATGTAACCTA
1 GTAATGTTTTTATATAACCTA
* *
565503 GAAATATTTTTATA
1 GTAATGTTTTTATA
565517 CAATTTGTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (21 bp):
GTAATGTTTTTATATAACCTA
Found at i:567168 original size:16 final size:16
Alignment explanation
Indices: 567141--567203 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
567131 CCGATTGAAC
*
567141 CGAATCCAAAATGACTT
1 CGAACCCAAAATGA-TT
*
567158 -GAACTCAAAATGATT
1 CGAACCCAAAATGATT
* *
567173 CGAACCCAAAATAATC
1 CGAACCCAAAATGATT
* *
567189 CAAACCCGAAATGAT
1 CGAACCCAAAATGAT
567204 CTAAACCCGA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
15 2 0.05
16 35 0.95
ACGTcount: A:0.46, C:0.24, G:0.11, T:0.19
Consensus pattern (16 bp):
CGAACCCAAAATGATT
Found at i:567209 original size:16 final size:16
Alignment explanation
Indices: 567175--567215 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
567165 AAATGATTCG
*
567175 AACCCAAAATAATCCA
1 AACCCGAAATAATCCA
* *
567191 AACCCGAAATGATCTA
1 AACCCGAAATAATCCA
567207 AACCCGAAA
1 AACCCGAAA
567216 CCAACTTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.29, G:0.07, T:0.12
Consensus pattern (16 bp):
AACCCGAAATAATCCA
Found at i:567580 original size:20 final size:19
Alignment explanation
Indices: 567555--567601 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
567545 CAGATATATT
*
567555 AATACATAAGTAAATTTATC
1 AATACATAA-TAAATGTATC
567575 AATACACTAATAAATGTATC
1 AATACA-TAATAAATGTATC
567595 AATACAT
1 AATACAT
567602 TCTCCTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (19 bp):
AATACATAATAAATGTATC
Found at i:571736 original size:53 final size:53
Alignment explanation
Indices: 571656--571760 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
571646 GTACAGACTA
571656 TTCCAGCTAATATTTCCGCCTTAGCAGGAATTACAATACCAGTAAAGACAATT
1 TTCCAGCTAATATTTCCGCCTTAGCAGGAATTACAATACCAGTAAAGACAATT
* * *
571709 TTCCAGCTAATATTTCTGCCTTAGCAGGAATTACAATACCGGTAAAGCCAAT
1 TTCCAGCTAATATTTCCGCCTTAGCAGGAATTACAATACCAGTAAAGACAAT
571761 CGGTACATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (53 bp):
TTCCAGCTAATATTTCCGCCTTAGCAGGAATTACAATACCAGTAAAGACAATT
Found at i:573966 original size:2 final size:2
Alignment explanation
Indices: 573959--573985 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
573949 CATGAATGGC
573959 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
573986 GAATAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:574085 original size:14 final size:15
Alignment explanation
Indices: 574062--574132 Score: 58
Period size: 16 Copynumber: 4.6 Consensus size: 15
574052 ATACGAAATG
574062 ATAT-AAATTTACAT
1 ATATAAAATTTACAT
*
574076 AT-TAAAATTTATAT
1 ATATAAAATTTACAT
*
574090 AATATAAATTATTA-AT
1 -ATATAAAAT-TTACAT
574106 ATATTAAAATTTATACAT
1 ATA-TAAAA-TT-TACAT
574124 ATATAAAAT
1 ATATAAAAT
574133 ATTTTAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
13 1 0.02
14 11 0.24
15 5 0.11
16 13 0.28
17 11 0.24
18 5 0.11
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATAAAATTTACAT
Found at i:574114 original size:32 final size:33
Alignment explanation
Indices: 574074--574135 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
574064 ATAAATTTAC
* *
574074 ATATTAAAATTTATATA-ATATAAATTATTAAT
1 ATATTAAAATTTATACATATATAAAATATTAAT
574106 ATATTAAAATTTATACATATATAAAATATT
1 ATATTAAAATTTATACATATATAAAATATT
574136 TTAAATACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (33 bp):
ATATTAAAATTTATACATATATAAAATATTAAT
Found at i:574119 original size:18 final size:16
Alignment explanation
Indices: 574062--574132 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 16
574052 ATACGAAATG
*
574062 ATAT-AAATTTA-CAT
1 ATATAAAATTTATAAT
574076 AT-TAAAATTTAT-AT
1 ATATAAAATTTATAAT
574090 A-ATATAAA-TTATTAAT
1 ATATA-AAATTTA-TAAT
574106 ATATTAAAATTTATACAT
1 ATA-TAAAATTTATA-AT
574124 ATATAAAAT
1 ATATAAAAT
574133 ATTTTAAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 17
0.73 0.00 0.27
Matches are distributed among these distances:
13 1 0.02
14 17 0.36
15 4 0.09
16 3 0.06
17 12 0.26
18 10 0.21
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:574130 original size:17 final size:17
Alignment explanation
Indices: 574071--574132 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
574061 GATATAAATT
574071 TACATAT-TAAAATTTA
1 TACATATATAAAATTTA
*
574087 TATA-ATAT-AAA-TTA
1 TACATATATAAAATTTA
574101 TTA-ATATATTAAAATTTA
1 -TACATATA-TAAAATTTA
574119 TACATATATAAAAT
1 TACATATATAAAAT
574133 ATTTTAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
14 4 0.11
15 10 0.26
16 5 0.13
17 11 0.29
18 8 0.21
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TACATATATAAAATTTA
Found at i:574613 original size:5 final size:5
Alignment explanation
Indices: 574603--574628 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
574593 TTAAGTCTGG
574603 ATATT ATATT ATATT ATATT ATATT A
1 ATATT ATATT ATATT ATATT ATATT A
574629 AGAATGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:576254 original size:18 final size:19
Alignment explanation
Indices: 576220--576257 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
576210 TAATGTAATT
576220 TTGGAAATTTAAAGCATTG
1 TTGGAAATTTAAAGCATTG
576239 TTGGAAATTT-AAGCATTG
1 TTGGAAATTTAAAGCATTG
576257 T
1 T
576258 GGAGATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.39
Consensus pattern (19 bp):
TTGGAAATTTAAAGCATTG
Found at i:583518 original size:20 final size:18
Alignment explanation
Indices: 583472--583559 Score: 69
Period size: 20 Copynumber: 4.8 Consensus size: 18
583462 AAAACCCTGA
*
583472 AAAGTATCGATACACATTT
1 AAAGTATCGATACA-AATT
583491 AAATGTATCGATACAAATT
1 AAA-GTATCGATACAAATT
583510 ACACAGTATCGATAC-AA-T
1 A-A-AGTATCGATACAAATT
583528 ---GTATCGATACAAATT
1 AAAGTATCGATACAAATT
*
583543 GCACAGTATCGATACAA
1 --AAAGTATCGATACAA
583560 TGTATCGATA
Statistics
Matches: 58, Mismatches: 1, Indels: 19
0.74 0.01 0.24
Matches are distributed among these distances:
13 10 0.17
14 2 0.03
15 1 0.02
18 1 0.02
19 9 0.16
20 34 0.59
21 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.27
Consensus pattern (18 bp):
AAAGTATCGATACAAATT
Found at i:583531 original size:13 final size:12
Alignment explanation
Indices: 583509--583571 Score: 53
Period size: 13 Copynumber: 5.3 Consensus size: 12
583499 CGATACAAAT
583509 TACACAGTATCGA
1 TACA-AGTATCGA
583522 TACAATGTATCGA
1 TACAA-GTATCGA
*
583535 TACAA--ATTG-
1 TACAAGTATCGA
*
583544 CAC-AGTATCGA
1 TACAAGTATCGA
583555 TACAATGTATCGA
1 TACAA-GTATCGA
583568 TACA
1 TACA
583572 TGACTAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
8 1 0.03
9 2 0.05
10 6 0.15
11 2 0.05
12 2 0.05
13 27 0.68
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (12 bp):
TACAAGTATCGA
Found at i:583534 original size:33 final size:33
Alignment explanation
Indices: 583492--583571 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
583482 TACACATTTA
583492 AATGTATCGATACAAATTACACAGTATCGATAC
1 AATGTATCGATACAAATTACACAGTATCGATAC
*
583525 AATGTATCGATACAAATTGCACAGTATCGATAC
1 AATGTATCGATACAAATTACACAGTATCGATAC
583558 AATGTATCGATACA
1 AATGTATCGATACA
583572 TGACTAAATG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
AATGTATCGATACAAATTACACAGTATCGATAC
Found at i:583682 original size:13 final size:13
Alignment explanation
Indices: 583664--583689 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
583654 ACACATAATA
583664 TGTATCGATACAT
1 TGTATCGATACAT
583677 TGTATCGATACAT
1 TGTATCGATACAT
583690 CACAAAATGT
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:583705 original size:33 final size:32
Alignment explanation
Indices: 583644--583711 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
583634 GTAGCTAAAT
* *
583644 TTGTATCGATACACATAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
583676 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
583709 TTG
1 TTG
583712 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:589872 original size:13 final size:13
Alignment explanation
Indices: 589853--589891 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
589843 ACAGCATTCT
*
589853 CTGTATCGATATA
1 CTGTATCGATACA
*
589866 TTGTATCGATACA
1 CTGTATCGATACA
589879 CTGTATCGATACA
1 CTGTATCGATACA
589892 AGGGGTTTAT
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:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:590058 original size:20 final size:20
Alignment explanation
Indices: 590023--590063 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
590013 CAAATTTCTT
590023 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
590045 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
590064 AACAAAAACA
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:592526 original size:33 final size:33
Alignment explanation
Indices: 592471--592570 Score: 166
Period size: 33 Copynumber: 3.1 Consensus size: 33
592461 TAGCTAAATA
*
592471 TGTATCGATACA-CACAATATGTATCGATACAT
1 TGTATCGATACATCACAAAATGTATCGATACAT
* *
592503 TGTATCGATATATCACAAAATGTATCCATACAT
1 TGTATCGATACATCACAAAATGTATCGATACAT
592536 TGTATCGATACATCACAAAATGTATCGATACAT
1 TGTATCGATACATCACAAAATGTATCGATACAT
592569 TG
1 TG
592571 GCTTGTAACG
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
32 11 0.18
33 51 0.82
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATCACAAAATGTATCGATACAT
Found at i:594004 original size:155 final size:153
Alignment explanation
Indices: 593550--594051 Score: 480
Period size: 155 Copynumber: 3.3 Consensus size: 153
593540 TAAAGGGCTA
* * * * * *
593550 AGTTCAAAAAAATTATAAAAATA-CCTCTAGGGAATACCTTCAACGTAGAAGCGCCCAATACCTA
1 AGTTCTAAAAAATTATGAAAATACCCTCTAGGGAATACCTTCGATGTAGAAGTGCCCAATCCCTA
* ** * * * * *
593614 AAGGACTTAAAAAAGATTATAAATGGGATGAATTTATCCTAAGTTCTCACATTTGGCATAAAAGT
66 AAGGACTT-AAAAAGATTATAGATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGC
* * *
593679 AGACCCAGTGATAACCTAAGACTC
130 GGACCCGGTGATAACCTAAGACTT
* ** * * * ** *
593703 AATTCTAAAAAATTACCAAAAT-GCCTGTATGGG-ATATCTTCGATGTAGAAGTGTTCGATGCCC
1 AGTTCTAAAAAATTATGAAAATACCCTCTA-GGGAATACCTTCGATGTAGAAGTGCCCAAT-CCC
* * * *
593766 TTAAAGGACTTAAAAAGATTATAGATGAGATGAACCAATCTTAAATGCCCACCTTTAGCATAAAA
64 -TAAAGGACTTAAAAAGATTATAGATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAA
** ** *
593831 GCGGACCCGACGGCAACCTAGGACTT
128 GCGGACCCGGTGATAACCTAAGACTT
* * *
593857 AGTTCTAGAAAAATTATGAAAATACCCT-TAGGGGATACCTTTGATTTAGAAGTGCCCAACATCC
1 AGTTCTA-AAAAATTATGAAAATACCCTCTAGGGAATACCTTCGATGTAGAAGTGCCC-A-ATCC
* *
593921 CTAAAGGACTTAAAAAGATTAGAGATGGGATGAACCTATCCCAAATGCCCACCTTTGGCATAAAA
63 CTAAAGGACTTAAAAAGATTATAGATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAA
*
593986 GCGGACCTGGTGATAACCTAAGAC-T
128 GCGGACCCGGTGATAACCTAAGACTT
* *
594011 AGGTTC-AAATAAATTATGAAAAT-GCCTTTA-GGAATACCTTC
1 A-GTTCTAAA-AAATTATGAAAATACCCTCTAGGGAATACCTTC
594052 AACGTGCAAG
Statistics
Matches: 279, Mismatches: 58, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
153 56 0.20
154 92 0.33
155 123 0.44
156 6 0.02
157 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (153 bp):
AGTTCTAAAAAATTATGAAAATACCCTCTAGGGAATACCTTCGATGTAGAAGTGCCCAATCCCTA
AAGGACTTAAAAAGATTATAGATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCG
GACCCGGTGATAACCTAAGACTT
Found at i:594484 original size:12 final size:11
Alignment explanation
Indices: 594462--594494 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
594452 ATGAAAAAGA
594462 ATTTATTTATT
1 ATTTATTTATT
594473 ATTTATTTTATT
1 ATTTA-TTTATT
594485 ATTT-TTTATT
1 ATTTATTTATT
594495 TTTGAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 5 0.24
12 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTTATTTATT
Found at i:594486 original size:15 final size:16
Alignment explanation
Indices: 594463--594496 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
594453 TGAAAAAGAA
594463 TTTATTTATTATTTAT
1 TTTATTTATTATTTAT
*
594479 TTTA-TTATTTTTTAT
1 TTTATTTATTATTTAT
594494 TTT
1 TTT
594497 TGAAAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTATTATTTAT
Found at i:594535 original size:24 final size:26
Alignment explanation
Indices: 594508--594562 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
594498 GAAAATTTCA
594508 TTTTGTA-CCTT-AAAAAGAATTTAT
1 TTTTGTATCCTTGAAAAAGAATTTAT
* **
594532 TTTT-CATTTTTGAAAAAGAATTTAT
1 TTTTGTATCCTTGAAAAAGAATTTAT
594557 TTTTGT
1 TTTTGT
594563 TGGTGATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 6 0.25
25 17 0.71
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (26 bp):
TTTTGTATCCTTGAAAAAGAATTTAT
Found at i:596395 original size:167 final size:164
Alignment explanation
Indices: 596194--596637 Score: 550
Period size: 167 Copynumber: 2.7 Consensus size: 164
596184 GAGATTTCAA
* * *
596194 AAAAAAATCCAAAACTCATGAAAATGAATGAATTTTTAAAAATTGATTTAATATGAAATAAATAA
1 AAAAAAAT-CAAAAATCATGAAAATGAATGAATTTTTGAAAACTGATTTAATAT-AAATAAATAA
* * * * * ***
596259 TAATATTTTATGGATTTTAGAAATTAGAAACCAAGAAAAATCTCCT-TGCAAAAA-TTTATGGAG
64 TAATATTTTATGGATTTTAAAAATTAAAAACTAAGAAAAATC-CATCAG-AAAAAGTTTACAAAG
* * * * **
596322 TAGAAAATTTCGTATTTTGAAAATATGAGACTTTTAAAG
127 TAAAAAACTTCGTATTTCGAAAACATGA-AAATTTAAAG
*
596361 AAAAAAATCAAAAATGAATGAAAATGAATGAATTTTTGAAAACTGATTTAATATAATATAAATAA
1 AAAAAAATCAAAAAT-CATGAAAATGAATGAATTTTTGAAAACTGATTTAATATAA-ATAAATAA
* *
596426 TAATATTTTATGGATTTTAAAAATTAAAAAATATGAAAAATCCATCAGAAAAAGTTTACAAAGTA
64 TAATATTTTATGGATTTTAAAAATTAAAAACTAAGAAAAATCCATCAGAAAAAGTTTACAAAGTA
* *
596491 AAAAACTTCGTATTTCGAACACATGAAAATTTCAAG
129 AAAAACTTCGTATTTCGAAAACATGAAAATTTAAAG
* *
596527 AAAAAAATTCAAAAACTCTTGAAAATGAATAAATTTTTGAAAACTGATTTAATATAAAATAAATA
1 AAAAAAA-TCAAAAA-TCATGAAAATGAATGAATTTTTGAAAACTGATTTAATAT-AAATAAATA
* *
596592 ATAATATTTGATGGATTTTAAAAATTAAAAACTAAGAAAAGTCCAT
63 ATAATATTTTATGGATTTTAAAAATTAAAAACTAAGAAAAATCCAT
596638 ATTTCAAAAA
Statistics
Matches: 241, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
166 29 0.12
167 209 0.87
168 3 0.01
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (164 bp):
AAAAAAATCAAAAATCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATAAATAAATAATA
ATATTTTATGGATTTTAAAAATTAAAAACTAAGAAAAATCCATCAGAAAAAGTTTACAAAGTAAA
AAACTTCGTATTTCGAAAACATGAAAATTTAAAG
Found at i:603613 original size:79 final size:79
Alignment explanation
Indices: 603530--603920 Score: 391
Period size: 79 Copynumber: 5.0 Consensus size: 79
603520 GATAAAAATA
* * * * *
603530 GGGTTAGAGTATCTTTTCAGAAATAACGAGGTTAGAGTATCCCCGATGGTGAAAAATCGATATTT
1 GGGTTGGAGTATCTCTTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTT
*
603595 TGGAAATAAAATTG
66 TGGAAATAAAATCG
* * ** * * * *
603609 GGGTTGGAGTA-CTCCTTCAAAAATAATGGGGACGGAGTATGCCCGATTATGGAAAATCGATGTT
1 GGGTTGGAGTATCT-CTTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATT
* **
603673 TTAGAAATAAAGCCG
65 TTGGAAATAAAATCG
* * * * *
603688 GGGTTGGAGTATC-CTCTC-GAAGATAACGGGGTTGGAGTATCCCCGATTATGGAACATCAATGT
1 GGGTTGGAGTATCTCT-TCAGAA-ATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATAT
603751 TTTGGAAATAAAATCG
64 TTTGGAAATAAAATCG
* * * *
603767 GGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAT-TATTGTT
1 GGGTTGGAGTATCTCTTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGA-TATT
603831 TTGGAAATAAAATCG
65 TTGGAAATAAAATCG
* * * * * *
603846 AGGTTGGAGTATATCTTC-GAAAATAACAGGGTTGGAGTATCCCTGATGGT-AGAAAAT-TATAT
1 GGGTTGGAGTATCTCTTCAG-AAATAACGGGGTTGGAGTATCCCCGATTGTGA-AAAATCGATAT
603908 TTTGGAAATAAAA
64 TTTGGAAATAAAA
603921 CATCGATGAA
Statistics
Matches: 263, Mismatches: 40, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
78 24 0.09
79 234 0.89
80 5 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCTCTTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTT
TGGAAATAAAATCG
Found at i:608341 original size:13 final size:13
Alignment explanation
Indices: 608323--608348 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
608313 ACATTTTAGG
608323 ATGTATCGATACA
1 ATGTATCGATACA
608336 ATGTATCGATACA
1 ATGTATCGATACA
608349 TATTGTGTGT
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:608343 original size:33 final size:32
Alignment explanation
Indices: 608301--608368 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
608291 CGTTACAAGC
*
608301 CAATGTATCGATACATTTTAG-GATGTATCGATA
1 CAATGTATCGATACATATT-GTG-TGTATCGATA
608334 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGTGTGTATCGATA
608366 CAA
1 CAA
608369 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGTGTGTATCGATA
Found at i:608448 original size:20 final size:21
Alignment explanation
Indices: 608401--608453 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
608391 GCCAATGACC
**
608401 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
608422 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
608442 TGTATCGATACA
1 TGTATCGATACA
608454 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:608459 original size:13 final size:13
Alignment explanation
Indices: 608441--608465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
608431 ACATTTGGTC
608441 ATGTATCGATACA
1 ATGTATCGATACA
608454 ATGTATCGATAC
1 ATGTATCGATAC
608466 TGTGCAATCT
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):
ATGTATCGATACA
Found at i:609049 original size:22 final size:22
Alignment explanation
Indices: 609022--609066 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
609012 TTTTCTTTTC
609022 TCTCCCCCTTAATCAAAAAATT
1 TCTCCCCCTTAATCAAAAAATT
*
609044 TCTCCCCCTTAATCAAATAATT
1 TCTCCCCCTTAATCAAAAAATT
609066 T
1 T
609067 AACAATTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATCAAAAAATT
Found at i:610478 original size:20 final size:21
Alignment explanation
Indices: 610450--610490 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
610440 GGGGGCTGTT
*
610450 CGGTTGCGACCTGG-GGGTGC
1 CGGTCGCGACCTGGTGGGTGC
610470 CGGTCGCGACCTGGTGGGTGC
1 CGGTCGCGACCTGGTGGGTGC
610491 TGCCTAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.05, C:0.27, G:0.49, T:0.20
Consensus pattern (21 bp):
CGGTCGCGACCTGGTGGGTGC
Found at i:611149 original size:8 final size:8
Alignment explanation
Indices: 611136--611161 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
611126 AACATCATTC
611136 ATCACAAA
1 ATCACAAA
611144 ATCACAAA
1 ATCACAAA
611152 ATCACAAA
1 ATCACAAA
611160 AT
1 AT
611162 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:617112 original size:13 final size:13
Alignment explanation
Indices: 617094--617118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
617084 CATTTTGGGC
617094 TGTATCGATACAA
1 TGTATCGATACAA
617107 TGTATCGATACA
1 TGTATCGATACA
617119 TATTGTGTGT
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:617113 original size:33 final size:32
Alignment explanation
Indices: 617071--617138 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
617061 CGTTACAAGC
*
617071 CAATGTATCGATACATTTTGGGCTGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
617104 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
617136 CAA
1 CAA
617139 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:617218 original size:20 final size:21
Alignment explanation
Indices: 617171--617222 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
617161 GCCAATGACC
**
617171 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
617192 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
617212 TGTATCGATAC
1 TGTATCGATAC
617223 TGTGCAATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:621019 original size:21 final size:21
Alignment explanation
Indices: 621000--621052 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
620990 ACTATATAAT
621000 TTAATTATAAAAATAAATAAAA
1 TTAATTA-AAAAATAAATAAAA
**
621022 TTAATTAAAAAATATTTAAAAA
1 TTAATTAAAAAATAAAT-AAAA
621044 TTAATTAAA
1 TTAATTAAA
621053 TATAACTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TTAATTAAAAAATAAATAAAA
Found at i:621021 original size:10 final size:10
Alignment explanation
Indices: 621007--621065 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
620997 AATTTAATTA
*
621007 TAAAAATAAA
1 TAAAAATAAT
*
621017 TAAAATTAAT
1 TAAAAATAAT
*
621027 TAAAAAATATT
1 T-AAAAATAAT
621038 TAAAAATTAAT
1 TAAAAA-TAAT
* *
621049 TAAATATAAC
1 TAAAAATAAT
621059 TAAAAAT
1 TAAAAAT
621066 TTTTAAGACA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 23 0.59
11 16 0.41
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAAAATAAT
Found at i:621028 original size:22 final size:22
Alignment explanation
Indices: 621000--621066 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 22
620990 ACTATATAAT
621000 TTAATTATAAAAATAAAT-AAAA
1 TTAATTA-AAAAATAAATAAAAA
**
621022 TTAATTAAAAAATATTTAAAAA
1 TTAATTAAAAAATAAATAAAAA
* *
621044 TTAATT-AAATATAACTAAAAA
1 TTAATTAAAAAATAAATAAAAA
621065 TT
1 TT
621067 TTTAAGACAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 22 0.56
22 17 0.44
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (22 bp):
TTAATTAAAAAATAAATAAAAA
Found at i:623412 original size:2 final size:2
Alignment explanation
Indices: 623401--623459 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
623391 ACATTGAAAC
*
623401 TA TA -A TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
623442 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
623460 GAGAGAGAGA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:627977 original size:61 final size:60
Alignment explanation
Indices: 627882--627997 Score: 196
Period size: 61 Copynumber: 1.9 Consensus size: 60
627872 AGAGTACATT
*
627882 TTTTGAATCTATTTCAATTTCTTGTGAAAATGAAATAATGTTATGACATCTTAGGCTATTG
1 TTTTGAATCTATTTCAATTTCTGGTGAAAATGAAATAATGTTATGACATC-TAGGCTATTG
* *
627943 TTTTGAATCTATTTCTATTTCTGGTGAAAATGAAATAATGTTATGGCATCTAGGC
1 TTTTGAATCTATTTCAATTTCTGGTGAAAATGAAATAATGTTATGACATCTAGGC
627998 AATGCTGTCC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 5 0.10
61 47 0.90
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.43
Consensus pattern (60 bp):
TTTTGAATCTATTTCAATTTCTGGTGAAAATGAAATAATGTTATGACATCTAGGCTATTG
Found at i:628619 original size:24 final size:25
Alignment explanation
Indices: 628575--628622 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
628565 TTGATATGGC
628575 ATCAGAGCCATAAAAATCTGGTATT
1 ATCAGAGCCATAAAAATCTGGTATT
628600 ATCAGAGCCAT-AAAATCTGGTAT
1 ATCAGAGCCATAAAAATCTGGTAT
628623 ATATAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (25 bp):
ATCAGAGCCATAAAAATCTGGTATT
Found at i:632864 original size:25 final size:25
Alignment explanation
Indices: 632831--632879 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
632821 AATTAGATCT
*
632831 AATAGCATAATTTAATAAATATATC
1 AATAACATAATTTAATAAATATATC
632856 AATAACATAATTTAATAAATATAT
1 AATAACATAATTTAATAAATATAT
632880 TTTATTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (25 bp):
AATAACATAATTTAATAAATATATC
Found at i:632881 original size:13 final size:13
Alignment explanation
Indices: 632840--632881 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
632830 TAATAGCATA
632840 ATTTAATAAATAT
1 ATTTAATAAATAT
*
632853 A-TCAATAACATA-
1 ATTTAATAA-ATAT
632865 ATTTAATAAATAT
1 ATTTAATAAATAT
632878 ATTT
1 ATTT
632882 TATTTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTTAATAAATAT
Found at i:651273 original size:22 final size:24
Alignment explanation
Indices: 651230--651284 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 24
651220 GATGAAATGG
*
651230 TTTTATTTATATTTAATTTATAAAT
1 TTTTA-TTATATTTAATATATAAAT
651255 TTTTATTAT-TTTAA-ATAT--AT
1 TTTTATTATATTTAATATATAAAT
651275 TTTT-TTATAT
1 TTTTATTATAT
651285 CGTGATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 4 0.14
20 7 0.25
22 3 0.11
23 5 0.18
24 4 0.14
25 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTATTATATTTAATATATAAAT
Found at i:651405 original size:72 final size:76
Alignment explanation
Indices: 651315--651458 Score: 215
Period size: 72 Copynumber: 1.9 Consensus size: 76
651305 TTTAATAATA
* * *
651315 TTAAATATTTAAATATTTTTAAA-TAT-TTGTTTTACTATTTAC-TTTTTCAATTTAAA-TTTTT
1 TTAAATATTTAAAGATTTTTAAATTATATTGTTTTACTATTTACTTTTTTCAACTCAAATTTTTT
651376 TAATAACAATG
66 TAATAACAATG
*
651387 TTAAATATTTAAAGATTTTTAAATTATATTTTTTTACTATTTACTTTTTTTCAACTCAAATTTTT
1 TTAAATATTTAAAGATTTTTAAATTATATTGTTTTACTATTTAC-TTTTTTCAACTCAAATTTTT
651452 TTAATAA
65 TTAATAA
651459 TAATAGTATA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
72 22 0.35
73 3 0.05
74 15 0.24
76 12 0.19
77 11 0.17
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (76 bp):
TTAAATATTTAAAGATTTTTAAATTATATTGTTTTACTATTTACTTTTTTCAACTCAAATTTTTT
TAATAACAATG
Found at i:655384 original size:16 final size:16
Alignment explanation
Indices: 655365--655399 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
655355 ATTACTTCCT
655365 TATTTATAATCTATAA
1 TATTTATAATCTATAA
655381 TATTTATAATCTATAA
1 TATTTATAATCTATAA
655397 TAT
1 TAT
655400 ATAAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTTATAATCTATAA
Found at i:655409 original size:14 final size:16
Alignment explanation
Indices: 655369--655410 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
655359 CTTCCTTATT
*
655369 TATAATCTATAATATT
1 TATAATCTATAATATA
655385 TATAATCTATAATATA
1 TATAATCTATAATATA
655401 TA-AAT-TATAA
1 TATAATCTATAA
655411 CGGTAATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 5 0.20
15 3 0.12
16 17 0.68
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATCTATAATATA
Found at i:657710 original size:19 final size:18
Alignment explanation
Indices: 657686--657748 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
657676 AAACCGTAAC
657686 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
657705 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
657718 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
*
657737 TGTATCAATACA
1 TGTATCGATACA
657749 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:657723 original size:13 final size:13
Alignment explanation
Indices: 657705--657729 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
657695 ACATAAGTGT
657705 TGTATCGATACAA
1 TGTATCGATACAA
657718 TGTATCGATACA
1 TGTATCGATACA
657730 TAAGTTTTGT
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:657727 original size:32 final size:32
Alignment explanation
Indices: 657686--657756 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
657676 AAACCGTAAC
*
657686 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
*
657718 TGTATCGATACATAAGTTTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
657750 TGTATCG
1 TGTATCG
657757 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:657819 original size:13 final size:13
Alignment explanation
Indices: 657801--657828 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
657791 ATTACTCAAA
657801 TGTATCGATACAT
1 TGTATCGATACAT
657814 TGTATCGATACAT
1 TGTATCGATACAT
657827 TG
1 TG
657829 ATCTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:671743 original size:11 final size:11
Alignment explanation
Indices: 671723--671806 Score: 54
Period size: 11 Copynumber: 7.9 Consensus size: 11
671713 TCCTCCTGCA
*
671723 AAAAAAAAAAC
1 AAAAACAAAAC
671734 AAAAACAAAAC
1 AAAAACAAAAC
*
671745 AAAAAAAAGAGAC
1 AAAAACAA-A-AC
*
671758 AAAAA-ACAAC
1 AAAAACAAAAC
671768 -AAAA-AAAA-
1 AAAAACAAAAC
* *
671776 AGAGACAAAA-
1 AAAAACAAAAC
671786 AAAAAC-AAAC
1 AAAAACAAAAC
671796 AAACAACAAAA
1 AAA-AACAAAA
671807 AGGGTCCGGA
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
9 12 0.21
10 13 0.22
11 21 0.36
12 5 0.09
13 7 0.12
ACGTcount: A:0.82, C:0.13, G:0.05, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAC
Found at i:671749 original size:24 final size:23
Alignment explanation
Indices: 671721--671794 Score: 105
Period size: 24 Copynumber: 3.2 Consensus size: 23
671711 CGTCCTCCTG
671721 CAAAAAAAAAA-ACAAAAACAAAA
1 CAAAAAAAAAAGACAAAAA-AAAA
* *
671744 CAAAAAAAAGAGACAAAAAACAA
1 CAAAAAAAAAAGACAAAAAAAAA
671767 CAAAAAAAAAGAGACAAAAAAAAA
1 CAAAAAAAAA-AGACAAAAAAAAA
671791 CAAA
1 CAAA
671795 CAAACAACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
23 22 0.49
24 23 0.51
ACGTcount: A:0.82, C:0.12, G:0.05, T:0.00
Consensus pattern (23 bp):
CAAAAAAAAAAGACAAAAAAAAA
Found at i:673275 original size:29 final size:30
Alignment explanation
Indices: 673233--673379 Score: 187
Period size: 29 Copynumber: 5.0 Consensus size: 30
673223 ATTCCTCACC
* *
673233 TTCAAAAGCCCACAAGTTAGTGGTA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
673262 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
673292 TTC-AAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
* *
673321 TTCTAAAGTCCACAAGTCAGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
* * *
673350 TTCCAAAA-TCCACAACTCCGTGGCAC-CTT
1 TT-CAAAAGCCCACAAGTCAGTGGCACTCTT
673379 T
1 T
673380 AAGTCCAATA
Statistics
Matches: 108, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
29 77 0.71
30 31 0.29
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:673334 original size:59 final size:59
Alignment explanation
Indices: 673237--673379 Score: 184
Period size: 59 Copynumber: 2.5 Consensus size: 59
673227 CTCACCTTCA
* *
673237 AAAGCCCACAAGTTAGTGGTA-TCTTTTCAAAAGCCCACAAGTCAGTGGCACTCTTTT-C
1 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* *
673295 AAAGCCCACAAGTCAGTGGCACTCTTTTCTAAAGTCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCC
** * *
673354 AAAATCCACAACTCCGTGGCAC-CTTT
1 AAAGCCCACAAGTCAGTGGCACTCTTT
673380 AAGTCCAATA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
58 29 0.39
59 46 0.61
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (59 bp):
AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCC
Found at i:673566 original size:95 final size:93
Alignment explanation
Indices: 673370--673757 Score: 453
Period size: 95 Copynumber: 4.1 Consensus size: 93
673360 CACAACTCCG
*
673370 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTG--TCTTTAAGAT
1 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTATCTTTAAGAC
*
673433 CAATGTCGCTGGCCTTGAATCAACACAT
66 CAATGTTGCTGGCCTTGAATCAACACAT
* *
673461 TGGCACCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAG
1 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT-ATCTTTAAG
**
673526 ACCAATGTTGCTGGCCTTGTCTCAACACAT
64 ACCAATGTTGCTGGCCTTGAATCAACACAT
*
673556 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAGGAC
1 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTATCTTTAAGAC
* *
673620 CAATGTCT-CTGGCCTTGAATCAGCATAT
66 CAATGT-TGCTGGCCTTGAATCAACACAT
* * * *
673648 TGGCGCCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-CAT
1 T---G-----G-CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTAT
* * * * * *
673712 CTTTAAGTCCAATATCGATGGCCTTGAATCAGCATAT
57 CTTTAAGACCAATGTTGCTGGCCTTGAATCAACACAT
*
673749 TGGCGCCTT
1 TGGCACCTT
673758 CATCATCTTT
Statistics
Matches: 258, Mismatches: 24, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
91 48 0.19
92 40 0.16
93 3 0.01
94 2 0.01
95 83 0.32
98 1 0.00
100 1 0.00
101 80 0.31
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (93 bp):
TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTATCTTTAAGAC
CAATGTTGCTGGCCTTGAATCAACACAT
Found at i:673634 original size:49 final size:49
Alignment explanation
Indices: 673376--673803 Score: 414
Period size: 49 Copynumber: 8.8 Consensus size: 49
673366 TCCGTGGCAC
* * *
673376 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
673424 CTTTAAGATCAATGTCGCTGGCCTTGAATCAACACATTGGCA-C-----
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * *
673467 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-AT
* ** * *
673519 CTTTAAGACCAATGTTGCTGGCCTTGTCTCAACACATTGGCA-C-----
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* *
673562 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
673611 CTTTAGGACCAATGTCTCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-AT
* * *
673663 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * *
673712 CTTTAAGTCCAATATCGATGGCCTTGAATCAGCATATTGGCGCCTTCATCAT
1 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-AT
* *
673764 CTTTAAAACCCAATGTCGCTGGCCTTGAATCAGCACATTG
1 CTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCATATTG
673804 ACATTCTTCT
Statistics
Matches: 309, Mismatches: 49, Indels: 39
0.78 0.12 0.10
Matches are distributed among these distances:
43 70 0.23
44 2 0.01
47 1 0.00
48 37 0.12
49 85 0.28
51 2 0.01
52 84 0.27
53 28 0.09
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
Found at i:673662 original size:144 final size:149
Alignment explanation
Indices: 673481--673803 Score: 458
Period size: 144 Copynumber: 2.2 Consensus size: 149
673471 AAGTCTAATA
* * *
673481 TCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTTGCTGGCCTTGT
1 TCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGACCAATGTCGCTGGCCTTGA
* *
673546 CTCAACACATTGGCA-C-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-
66 ATCAACACATTGGCACCACTTTAAGTCCAATATCGATGGCCTTGAATCAGCATATTGGCACCTTA
**
673608 T-ATCTTTAGGA-CCAATG
131 TCATCTTTAAAACCCAATG
* *
673625 TCTCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGA
1 TCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGACCAATGTCGCTGGCCTTGA
* *
673690 ATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGATGGCCTTGAATCAGCATATTGGCGC
66 ATCAACACATTGGCA-C--CA-CTTTAAGTCCAATATCGATGGCCTTGAATCAGCATATTGGCAC
673755 CTTCATCATCTTTAAAACCCAATG
127 CTT-ATCATCTTTAAAACCCAATG
*
673779 TCGCTGGCCTTGAATCAGCACATTG
1 TCGCTGGCCTTGAATCAGCATATTG
673804 ACATTCTTCT
Statistics
Matches: 156, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
144 73 0.47
148 1 0.01
150 44 0.28
152 1 0.01
153 8 0.05
154 29 0.19
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (149 bp):
TCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGACCAATGTCGCTGGCCTTGA
ATCAACACATTGGCACCACTTTAAGTCCAATATCGATGGCCTTGAATCAGCATATTGGCACCTTA
TCATCTTTAAAACCCAATG
Found at i:673737 original size:101 final size:101
Alignment explanation
Indices: 673562--673803 Score: 376
Period size: 101 Copynumber: 2.4 Consensus size: 101
673552 ACATTGGCAC
* * * * *
673562 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAGGACCAATGTC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATC
** *
673627 TCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
66 GATGGCCTTGAATCAGCATATTGGCGCCTTCATCAT
*
673663 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATC
673728 GATGGCCTTGAATCAGCATATTGGCGCCTTCATCAT
66 GATGGCCTTGAATCAGCATATTGGCGCCTTCATCAT
**
673764 CTTTAAAACCCAATGTCGCTGGCCTTGAATCAGCACATTG
1 CTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
673804 ACATTCTTCT
Statistics
Matches: 129, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 96 0.74
102 33 0.26
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (101 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATATC
GATGGCCTTGAATCAGCATATTGGCGCCTTCATCAT
Found at i:675724 original size:19 final size:20
Alignment explanation
Indices: 675679--675731 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 20
675669 TTCAACAATT
675679 TGTATCGATACAAACCGTAAC
1 TGTATCGATACAAA-CGTAAC
675700 TGTATCGATACATAA-GTAA-
1 TGTATCGATACA-AACGTAAC
675719 TGTATCGATACAA
1 TGTATCGATACAA
675732 TGTATCGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.03
19 12 0.39
20 4 0.13
21 12 0.39
22 2 0.06
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (20 bp):
TGTATCGATACAAACGTAAC
Found at i:675741 original size:32 final size:32
Alignment explanation
Indices: 675700--675770 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
675690 AAACCGTAAC
*
675700 TGTATCGATACATAAGTAATGTATCGATACAA
1 TGTATCGATACATAAGTAATGTATCAATACAA
**
675732 TGTATCGATACATAAGTTTTGTATCAATACAA
1 TGTATCGATACATAAGTAATGTATCAATACAA
675764 TGTATCG
1 TGTATCG
675771 CTACGAAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTAATGTATCAATACAA
Found at i:675756 original size:19 final size:17
Alignment explanation
Indices: 675700--675749 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 17
675690 AAACCGTAAC
675700 TGTATCGATACATAAGT
1 TGTATCGATACATAAGT
675717 AATGTATCGATAC--AA--
1 --TGTATCGATACATAAGT
675732 TGTATCGATACATAAGT
1 TGTATCGATACATAAGT
675749 T
1 T
675750 TTGTATCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.41
15 2 0.07
17 3 0.11
19 11 0.41
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (17 bp):
TGTATCGATACATAAGT
Found at i:675833 original size:13 final size:13
Alignment explanation
Indices: 675815--675842 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
675805 ATTACTCAAA
675815 TGTATCGATACAT
1 TGTATCGATACAT
675828 TGTATCGATACAT
1 TGTATCGATACAT
675841 TG
1 TG
675843 ATCTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:685946 original size:149 final size:148
Alignment explanation
Indices: 685711--686204 Score: 419
Period size: 149 Copynumber: 3.3 Consensus size: 148
685701 CCTTAAGACC
* * * * * * *
685711 TACCATCGACATAGAAGTACCCGGAGATCCT-AGTGGA-TTTAAGAAGATAAAAACAAACCTACT
1 TACCATCGACTTAGAAGT-GCCGGTGATCCTAAG-AGACTTGAAAAAGATAAAAACAAACTTACT
* * *
685774 CCTAACTCATACCTTT-GGTGTAGAAGTGGACCTAGTAGTTTTATAGGACTAGGTTTCGGACAAA
64 CCTAATTCATA-CTTTCGGCGTAGAAGAGGACCTAGTAGTTTTATAGGACTAGGTTTCGGACAAA
* ** *
685838 TGCTAAAAGGTCCCTAAGGCT
128 TGATAAAATATCCCTAAGGTT
* * * * *
685859 TGCCATCGACTTAGAAGTGTCTGGTGATCCTAAGTGACTTGAAAAAGATAAAAATAAACTTACCC
1 TACCATCGACTTAGAAGTG-CCGGTGATCCTAAGAGACTTGAAAAAGATAAAAACAAACTTACTC
* * * * * *
685924 CTAATTCATACTTTCGGCGTAGAA-ACGGA-CTCGGTAATTTCATAGG-GTGAGGTTTTGGGCAA
65 CTAATTCATACTTTCGGCGTAGAAGA-GGACCT-AGTAGTTTTATAGGACT-AGGTTTCGGACAA
* *
685986 AAGATAAAATATTCCTAAGGTT
127 ATGATAAAATATCCCTAAGGTT
* * * *
686008 TACCATCGAGTTAGAAGTGCCGGTGATCCTAAGAGACTT-AAAAAGACAAAAACGAA-TCTACTA
1 TACCATCGACTTAGAAGTGCCGGTGATCCTAAGAGACTTGAAAAAGATAAAAACAAACT-TACTC
* * * * ** * * * *
686071 CTAATTTATACCTTCGACATAGAAGAAAACCAAGTAGTTTTTTAGGACTAGGTTTCGAAAAAAGT
65 CTAATTCATACTTTCGGCGTAGAAGAGGACCTAGTAGTTTTATAGGACTAGGTTTCGGACAAA-T
*
686136 GTTAAAATATCCCTAAGGTT
129 GATAAAATATCCCTAAGGTT
* * ** *
686156 TACCATTGACTTAGGAGCACCCGGTGATCCTAAGGGACTTGAAAAAGAT
1 TACCATCGACTTAGAAG-TGCCGGTGATCCTAAGAGACTTGAAAAAGAT
686205 TGCAAAAGGT
Statistics
Matches: 271, Mismatches: 61, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
146 1 0.00
147 58 0.21
148 87 0.32
149 118 0.44
150 7 0.03
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (148 bp):
TACCATCGACTTAGAAGTGCCGGTGATCCTAAGAGACTTGAAAAAGATAAAAACAAACTTACTCC
TAATTCATACTTTCGGCGTAGAAGAGGACCTAGTAGTTTTATAGGACTAGGTTTCGGACAAATGA
TAAAATATCCCTAAGGTT
Found at i:687673 original size:12 final size:11
Alignment explanation
Indices: 687636--687675 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
687626 TTTTACTTAA
687636 TTTTC-CTTTT
1 TTTTCTCTTTT
*
687646 TTTTTTCTTTT
1 TTTTCTCTTTT
687657 TTTTCTCTCTTT
1 TTTTCTCT-TTT
687669 TTTTCTC
1 TTTTCTC
687676 CCTACTTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 4 0.15
11 12 0.46
12 10 0.38
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTCTTTT
Found at i:688377 original size:166 final size:163
Alignment explanation
Indices: 688205--688710 Score: 495
Period size: 167 Copynumber: 3.0 Consensus size: 163
688195 AATGTTAGGT
* * * *
688205 GAATTTTAAAAGTTTTAAATAGAGAAAAATCCTCCCGAAAACATTTATAGAATAAAAAACTTA-A
1 GAATTTTAAAAATTTTAAATAGAGAAAAATCC-CCCGAAAACATTTATGGAGTAGAAAACTTATA
* *
688269 TTTTTCGAAAAAAGGAAAATTTCAGAGAAAAAATAAAAAACTTATGAAAATAAATGAAATTTTCA
65 -TTTT-GAAAAAAGGAGAATTTCAGAGAAAAAATAAAAAACTCATGAAAATAAATGAAATTTTCA
* * *
688334 AAATTGATTTAACATGAATTAAATGATGATATTTAAA
128 AAACTGATTTAATATAAATTAAAT-ATGATATTTAAA
** * * *
688371 GAATTTTAAAAATTTTAAACCTAGA-AAATTTCGCCCGAAAACATTTATGGAGTAGCAAATTTCA
1 GAATTTTAAAAATTTTAAA--TAGAGAAAAATCCCCCGAAAACATTTATGGAGTAGAAAACTT-A
* * * *
688435 TATTTTGAAAATAA-GAGGCATTTCAAAGAAAAAATGAAAAAACTCA-GAAAATAAAAGTAATTT
63 TATTTTGAAAA-AAGGA-GAATTTCAGAGAAAAAAT-AAAAAACTCATGAAAATAAATGAAATTT
** * *
688498 GGAAAACTGATTTAATAAAAATTAAATAATGATATTTGATA
125 TCAAAACTGATTTAATATAAATTAAAT-ATGATATTT-AAA
* * * *
688539 -AATTTTAAAAATTTTAAATTGAGAAAAATCCCCTCGAAAATATTTATGGAGTAGGAAACTCTGT
1 GAATTTTAAAAATTTTAAATAGAGAAAAATCCCC-CGAAAACATTTATGGAGTAGAAAACT-TAT
* * * * *
688603 ATTTT-AAAAATAGAGAGATTTTAAGA-AAAAAATGAAAAACTCATGAAATTAAATGAAAATTTC
64 ATTTTGAAAAA-AG-GAGAATTTCAGAGAAAAAATAAAAAACTCATGAAAATAAATGAAATTTTC
* * * *
688666 AAAACTAATTTAATGTTAATTAAAATATAATATTTAAA
127 AAAACTGATTTAATATAAATT-AAATATGATATTTAAA
688704 GAATTTT
1 GAATTTT
688711 GAAGTTAAAA
Statistics
Matches: 275, Mismatches: 48, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
165 15 0.05
166 112 0.41
167 129 0.47
168 19 0.07
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.31
Consensus pattern (163 bp):
GAATTTTAAAAATTTTAAATAGAGAAAAATCCCCCGAAAACATTTATGGAGTAGAAAACTTATAT
TTTGAAAAAAGGAGAATTTCAGAGAAAAAATAAAAAACTCATGAAAATAAATGAAATTTTCAAAA
CTGATTTAATATAAATTAAATATGATATTTAAA
Found at i:689903 original size:15 final size:15
Alignment explanation
Indices: 689874--689903 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
689864 TTGATTAAAA
689874 TTGATTTTAATTTTT
1 TTGATTTTAATTTTT
689889 TTGATATTTAATTTT
1 TTGAT-TTTAATTTT
689904 AATTTTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
TTGATTTTAATTTTT
Found at i:690452 original size:406 final size:406
Alignment explanation
Indices: 689700--690500 Score: 1280
Period size: 406 Copynumber: 2.0 Consensus size: 406
689690 ACCAAAGTCT
*
689700 ATCTTTTGAGAGTTACAAAACCATTGTAAACAAACTCTAAAGTTTGTATACTACCTAGAGATTCA
1 ATCTTTTGAGAGTTACAAAACCATTGTAAACAAACTCTAAAGTTTGTATACTAACTAGAGATTCA
* * **
689765 CAAGCAAAGGATTCAGGAGTTAGTTACGTACAGAGTGAGACATGTCCTTTTTGCGACTATTGTAA
66 CAAGCAAAGGATTCAGGAGTTAGTTACATACAGAGTGAGACATGTCCCTTTTGCGACTACCGTAA
* * **
689830 AATGATACCTATTAATCGCATGTTATCTTAAATTTTGATTAAAATTGATTTTAATTTTTTTGATA
131 AATGATACCTATTAATCACATGTTATCTTAAATTTTGACTAAAATTGATTTTAATTTTTCAGATA
*
689895 TTTAATTTTAATTTTTCATTTTTTGAAATTAGTTATAATTAATATTTTATTTTAAGTAAATCAAT
196 TTTAATTATAATTTTTCATTTTTTGAAATTAGTTATAATTAATATTTTATTTTAAGTAAATCAAT
*** * *
689960 TCTTTACATATTTTGAAAAAAAAAAGATTTTCACACCCTGGAGGAAAACCTGAAGGAATATGAAA
261 TCTTTACATATTTTGAAAAAAAAAAGATTTTCACACCCCAAAGGAAAACCTGAAAGAATACGAAA
* * *
690025 CTTTTATTTAACGAGAAAATCAAAATTTTTAATTTACTTATTTAAAGAAGGTATTCCTTTAATTG
326 CTTTTATTTAACGAGAAAATCAAAATTTTCAATTTACTTATTTAAAGAAGGCATTCCTTTAATTA
690090 AAAATCAAAATTTTTC
391 AAAATCAAAATTTTTC
* *
690106 ATCTTTTGAGAGTTACAAAACCATTGTAAACAAACTCTGAAGTTTGTATACTAACTAGGGATTCA
1 ATCTTTTGAGAGTTACAAAACCATTGTAAACAAACTCTAAAGTTTGTATACTAACTAGAGATTCA
* * * * * *
690171 CATGTAAAGGATTCAGGGGTTGGTTACATATAGAGTGAGACATGTCCCTTTTGCGACTCCCGTAA
66 CAAGCAAAGGATTCAGGAGTTAGTTACATACAGAGTGAGACATGTCCCTTTTGCGACTACCGTAA
*
690236 AATGGTACCTATTAATCACATGTTATCTTAAATTTTGACTAAAATTGATTTTAATTTTTCAG-TA
131 AATGATACCTATTAATCACATGTTATCTTAAATTTTGACTAAAATTGATTTTAATTTTTCAGATA
*
690300 TTTAATTATAATTTTTCATTTTTTGAAATTAGTTATAATTAATATTTTATTTTAAGTAAATCGAT
196 TTTAATTATAATTTTTCATTTTTTGAAATTAGTTATAATTAATATTTTATTTTAAGTAAATCAAT
* *
690365 TTTTTACATATTTTGAAAATAAAAAGGATTTTCACACCCCAAAGGAAAACCTGAAAGAATACGAA
261 TCTTTACATATTTTGAAAA-AAAAAAGATTTTCACACCCCAAAGGAAAACCTGAAAGAATACGAA
* * * *
690430 AGTTTTATTTAATGAGAAAATCAAAATTTTCGATTTACTTATTTAAAGAAGGCATTTCTTTAATT
325 ACTTTTATTTAACGAGAAAATCAAAATTTTCAATTTACTTATTTAAAGAAGGCATTCCTTTAATT
690495 AAAAAT
390 AAAAAT
690501 AACTGATAAG
Statistics
Matches: 360, Mismatches: 34, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
405 83 0.23
406 277 0.77
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (406 bp):
ATCTTTTGAGAGTTACAAAACCATTGTAAACAAACTCTAAAGTTTGTATACTAACTAGAGATTCA
CAAGCAAAGGATTCAGGAGTTAGTTACATACAGAGTGAGACATGTCCCTTTTGCGACTACCGTAA
AATGATACCTATTAATCACATGTTATCTTAAATTTTGACTAAAATTGATTTTAATTTTTCAGATA
TTTAATTATAATTTTTCATTTTTTGAAATTAGTTATAATTAATATTTTATTTTAAGTAAATCAAT
TCTTTACATATTTTGAAAAAAAAAAGATTTTCACACCCCAAAGGAAAACCTGAAAGAATACGAAA
CTTTTATTTAACGAGAAAATCAAAATTTTCAATTTACTTATTTAAAGAAGGCATTCCTTTAATTA
AAAATCAAAATTTTTC
Found at i:691346 original size:19 final size:19
Alignment explanation
Indices: 691302--691357 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
691292 CTGCTAGTTT
*
691302 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAC
* *
691322 CATGTATCAATACAATGAG
1 CATGTATCGATACAATGAC
691341 CATGTATCGATACAATG
1 CATGTATCGATACAATG
691358 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:691360 original size:13 final size:13
Alignment explanation
Indices: 691342--691368 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
691332 TACAATGAGC
691342 ATGTATCGATACA
1 ATGTATCGATACA
691355 ATGTATCGATACA
1 ATGTATCGATACA
691368 A
1 A
691369 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:699714 original size:14 final size:14
Alignment explanation
Indices: 699695--699727 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
699685 CTAAGAGATT
699695 AACACTCAAGGTTG
1 AACACTCAAGGTTG
699709 AACACTCAAGGTTG
1 AACACTCAAGGTTG
699723 AACAC
1 AACAC
699728 AACCTTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (14 bp):
AACACTCAAGGTTG
Found at i:700149 original size:20 final size:20
Alignment explanation
Indices: 700124--700177 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
700114 GTTAGAAGCA
700124 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
700144 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
700164 ATGTATCGATACAA
1 ATGTATCGATACAA
700178 ATAATAGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:700967 original size:58 final size:58
Alignment explanation
Indices: 700842--700969 Score: 132
Period size: 58 Copynumber: 2.2 Consensus size: 58
700832 TTCTTAAGTT
* ** * * **
700842 ATGGAAAATGACTTAAATATTTCTAAAATGCATGAAATTGCATGAAAATCTCTAGATT
1 ATGGAAAATGACCTAAATAGCTCTAAAATACATGAAATTGCATAAAAATCTCTAGAAC
*** * *
700900 ATATCAAATGACCTAAATAAGCTC-AAAATACATGAATTTGCATAAAAATCTCTATAAC
1 ATGGAAAATGACCTAAAT-AGCTCTAAAATACATGAAATTGCATAAAAATCTCTAGAAC
700958 ATGGAAAATGAC
1 ATGGAAAATGAC
700970 AAAGATGACA
Statistics
Matches: 54, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
58 51 0.94
59 3 0.06
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (58 bp):
ATGGAAAATGACCTAAATAGCTCTAAAATACATGAAATTGCATAAAAATCTCTAGAAC
Found at i:706981 original size:9 final size:9
Alignment explanation
Indices: 706969--706998 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
706959 TAATTTATTT
706969 AATTTTAAA
1 AATTTTAAA
706978 AATTTTAAA
1 AATTTTAAA
706987 AATTTTAAA
1 AATTTTAAA
706996 AAT
1 AAT
706999 GAACTTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AATTTTAAA
Found at i:711490 original size:13 final size:13
Alignment explanation
Indices: 711472--711517 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
711462 TTTTAAATAT
*
711472 AATATTATTTAAA
1 AATATTATATAAA
711485 AATATTATAATAAA
1 AATATTAT-ATAAA
* *
711499 AATATAATCTAAA
1 AATATTATATAAA
711512 AATATT
1 AATATT
711518 TCAATAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATTATATAAA
Found at i:711490 original size:27 final size:27
Alignment explanation
Indices: 711458--711524 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
711448 TTATTATATT
* * *
711458 AATATTTTAA-ATATAATATTATTTAAA
1 AATATTTTAATA-AAAATATAATCTAAA
*
711485 AATATTATAATAAAAATATAATCTAAA
1 AATATTTTAATAAAAATATAATCTAAA
*
711512 AATATTTCAATAA
1 AATATTTTAATAA
711525 TATTTAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (27 bp):
AATATTTTAATAAAAATATAATCTAAA
Found at i:712518 original size:20 final size:20
Alignment explanation
Indices: 712469--712540 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
712459 TTACAATTTA
* *
712469 TATCGATACAAATAGTAAATG
1 TATCGATACATA-AGTGAATG
**
712490 TATTAATACATAAGTGAATG
1 TATCGATACATAAGTGAATG
** *
712510 TATCGATACATACTTGAAATT
1 TATCGATACATAAGTG-AATG
712531 TATCGATACA
1 TATCGATACA
712541 AAACCACCTT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 19 0.46
21 22 0.54
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (20 bp):
TATCGATACATAAGTGAATG
Done.