Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold44
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: 3265628
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.28
Warning! 491382 characters in sequence are not A, C, G, or T
File 14 of 17
Found at i:2658363 original size:86 final size:85
Alignment explanation
Indices: 2658208--2658927 Score: 587
Period size: 86 Copynumber: 8.5 Consensus size: 85
2658198 AAATCTCTTT
* * * **
2658208 TCAAAGCCCACAAGTCAGTGGCATCCTCT-T-AAAGCCCAAAAGTCAGTGACACTCTCTCGAAGC
1 TCAAAGCCCACAAGTCAGTGGCATCC-CTATCAAAGCCCACAAGTCAGTGGCACCCTCTTAAAGC
* * *
2658271 CCATAAGTCGGTGGCGTTCCCTA
65 CCATAAGTCAGTGGC--ACCCTC
* * * *
2658294 TCAAAGCCCACAAGTCAGTGGCAT-CCTTTCAAAGCACACAAGTTAGTGGCACCCTCTTAGAGCC
1 TCAAAGCCCACAAGTCAGTGGCATCCCTATCAAAGCCCACAAGTCAGTGGCACCCTCTTAAAGCC
*
2658358 TATAAGTCAGTGGCACCCTC
66 CATAAGTCAGTGGCACCCTC
* ** * *
2658378 TCAAAGCCCACAAGTTAGTGGTGTCCCTATCAAAACCCACAAGTCAGTGGCACCCTCATAAAGCC
1 TCAAAGCCCACAAGTCAGTGGCATCCCTATCAAAGCCCACAAGTCAGTGGCACCCTCTTAAAGCC
*
2658443 CATAAGTCAATGGCACCCTC
66 CATAAGTCAGTGGCACCCTC
* * * * * *
2658463 TCGAAGCCCACAAGTCGGTGGCATCCCCTATCAAAGCCCACAAGTTAATAGCACCCTTTTAAAGC
1 TCAAAGCCCACAAGTCAGTGGCAT-CCCTATCAAAGCCCACAAGTCAGTGGCACCCTCTTAAAGC
* *
2658528 CCACAAGTTAGTGGCACCCTC
65 CCATAAGTCAGTGGCACCCTC
* * * * * * * * * * *
2658549 TTAAAGCCCATAAATCAATGG-AACCTTTTCGAAGCCCATAAGTCGGTGGCATCCTCTTAAAGCC
1 TCAAAGCCCACAAGTCAGTGGCATCCCTATCAAAGCCCACAAGTCAGTGGCACCCTCTTAAAGCC
* * *
2658613 CAAAAGTCAGTGACACTCTC
66 CATAAGTCAGTGGCACCCTC
* * * * *
2658633 TCGAAGCCCATAAGTCGGTGGCGTTCCCTATCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAG
1 TCAAAGCCCACAAGTCAGTGGC-ATCCCTATCAAAGCCCACAAGTCAGTGGCACCCTCTT-AAAG
* * *
2658697 CACACAAGTTAGTGGCACCCTC
64 CCCATAAGTCAGTGGCACCCTC
* * * * * * ** * * *
2658719 TTAGAGCCTATAAGTCAGTGGCA-CCCTCTCAAAGCCCACAAGTTAGTGGTGTCCCTATCAAAAC
1 TCAAAGCCCACAAGTCAGTGGCATCCCTATCAAAGCCCACAAGTCAGTGG-CACCCTCTTAAAGC
*
2658783 CCACAAGTCAGTGGCACCCTC
65 CCATAAGTCAGTGGCACCCTC
* * * * * *
2658804 AT-AAAGCCCATAAGTCAATGGCA-CCCTCTCGAAGCCCACAAGTCGGTGGCGTCCC-CTATCAA
1 -TCAAAGCCCACAAGTCAGTGGCATCCCTATCAAAGCCCACAAGTCAGTGGC-ACCCTCT-T-AA
* * * * *
2658866 AGCCCACAAGTTAATAGCACCCTT
62 AGCCCATAAGTCAGTGGCACCCTC
* * * *
2658890 TTAAAGCCCACAAGTTAGTGGCA-CCCTCTTAAAGCCCA
1 TCAAAGCCCACAAGTCAGTGGCATCCCTATCAAAGCCCA
2658928 TAAATCAATC
Statistics
Matches: 511, Mismatches: 109, Indels: 28
0.79 0.17 0.04
Matches are distributed among these distances:
84 115 0.23
85 148 0.29
86 248 0.49
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (85 bp):
TCAAAGCCCACAAGTCAGTGGCATCCCTATCAAAGCCCACAAGTCAGTGGCACCCTCTTAAAGCC
CATAAGTCAGTGGCACCCTC
Found at i:2658668 original size:170 final size:170
Alignment explanation
Indices: 2658297--2658899 Score: 516
Period size: 170 Copynumber: 3.5 Consensus size: 170
2658287 TTCCCTATCA
* * * * * * * *
2658297 AAGCCCACAAGTCAGTGGCAT-CCTTTCAAAGCACACAAGTTAGTGGCACCCTCTTAGAGCCTAT
1 AAGCCCACAAGTCGGTGGCTTCCCTATCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCAC
* * * * * * **
2658361 AAGTCAGTGGCACCCTCTCAAAGCCCACAAGTTAGTGGTGTCCCTATCAAAACCCACAAGTCAGT
66 AAGTTAGTGGCACCCTCTTAAAGCCCATAAATCAATGGTAACCCTATCAAAACCCACAAGTCAGT
* *
2658426 GGCACCCTCATAAAGCCCATAAGTCAATGGCACCCTCTCG
131 GGCACCCTCATAAAGCCCAAAAGTCAATGACACCCTCTCG
* * *
2658466 AAGCCCACAAGTCGGTGGCATCCCCTATCAAAGCCCACAAGTTAATAGCACCCTTTTAAAGCCCA
1 AAGCCCACAAGTCGGTGGC-TTCCCTATCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCA
* * * * * *
2658531 CAAGTTAGTGGCACCCTCTTAAAGCCCATAAATCAATGG-AACCTTTTCGAAGCCCATAAGTCGG
65 CAAGTTAGTGGCACCCTCTTAAAGCCCATAAATCAATGGTAACCCTATCAAAACCCACAAGTCAG
* * * *
2658595 TGGCATCCTCTTAAAGCCCAAAAGTCAGTGACACTCTCTCG
130 TGGCACCCTCATAAAGCCCAAAAGTCAATGACACCCTCTCG
* * * * *
2658636 AAGCCCATAAGTCGGTGGCGTTCCCTATCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCACA
1 AAGCCCACAAGTCGGTGGC-TTCCCTATCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCA
* * * * * * * *
2658701 CAAGTTAGTGGCACCCTCTTAGAGCCTATAAGTCAGTGG-CACCCTCTCAAAGCCCACAAGTTAG
65 CAAGTTAGTGGCACCCTCTTAAAGCCCATAAATCAATGGTAACCCTATCAAAACCCACAAGTCAG
** * * * * *
2658765 TGGTGTCCCT-ATCAAAACCCACAAGTCAGTGGCACCCTCAT-A
130 TGG-CACCCTCAT-AAAGCCCAAAAGTCAATGACACCCTC-TCG
* ** * * * ** * * *
2658807 AAGCCCATAAGTCAATGGC-ACCCTCTCGAAGCCCACAAGTCGGTGGCGTCCCCTATCAAAGCCC
1 AAGCCCACAAGTCGGTGGCTTCCCTATCAAAGCCCACAAGTTAGTGGC--ACCCTTTTAAAGCCC
* * *
2658871 ACAAGTTAATAGCACCCTTTTAAAGCCCA
64 ACAAGTTAGTGGCACCCTCTTAAAGCCCA
2658900 CAAGTTAGTG
Statistics
Matches: 352, Mismatches: 75, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
169 42 0.12
170 165 0.47
171 144 0.41
172 1 0.00
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (170 bp):
AAGCCCACAAGTCGGTGGCTTCCCTATCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCAC
AAGTTAGTGGCACCCTCTTAAAGCCCATAAATCAATGGTAACCCTATCAAAACCCACAAGTCAGT
GGCACCCTCATAAAGCCCAAAAGTCAATGACACCCTCTCG
Found at i:2658669 original size:114 final size:112
Alignment explanation
Indices: 2658289--2658792 Score: 354
Period size: 114 Copynumber: 4.5 Consensus size: 112
2658279 CGGTGGCGTT
* * * * * * * * * *
2658289 CCCTATCAAAGCCCACAAGTCAGTGGCAT-CCTTTCAAAGCACACAAGTTAGTGGCACCCTCTTA
1 CCCTCTCAAAGCCCACAAGTTAGTGGCGTCCCTATCAAAGCCCATAAGTCAATGG-AACCT-TTC
* * * * * * * ***
2658353 G-AGCCTATAAGTCAGTGGCACCCTCTCAAAGCCCACAAGTTAGTGGTGT
64 GAAGCCCACAAGTCGGTGGCATCCTCTTAAAGCCCAAAAGTCAGT-GACA
* * * * * *
2658402 CCCTATCAAAACCCACAAGTCAGTGGC-ACCCTCAT-AAAGCCCATAAGTCAATGGCACCCTCTC
1 CCCTCTCAAAGCCCACAAGTTAGTGGCGTCCCT-ATCAAAGCCCATAAGTCAATGG-AACCTTTC
* * * *
2658465 GAAGCCCACAAGTCGGTGGCATCCCCTATCAAAGCCCACAAGTTAAT-AGCA
64 GAAGCCCACAAGTCGGTGGCATCCTCT-T-AAAGCCCAAAAGTCAGTGA-CA
* * * * * *
2658516 CCCTTTTAAAGCCCACAAGTTAGTGGC-ACCCTCTTAAAGCCCATAAATCAATGGAACCTTTTCG
1 CCCTCTCAAAGCCCACAAGTTAGTGGCGTCCCTATCAAAGCCCATAAGTCAATGGAACC-TTTCG
*
2658580 AAGCCCATAAGTCGGTGGCATCCTCTTAAAGCCCAAAAGTCAGTGACA
65 AAGCCCACAAGTCGGTGGCATCCTCTTAAAGCCCAAAAGTCAGTGACA
* * * ** * * *
2658628 CTCTCTCGAAGCCCATAAGTCGGTGGCGTTCCCTATCAAAGCCCACAAGTCAGTGGCATCCTTTC
1 CCCTCTCAAAGCCCACAAGTTAGTGGCG-TCCCTATCAAAGCCCATAAGTCAATGG-AACCTTTC
* * ** * * * * *
2658693 AAAGCACACAAGTTAGTGGCACCCTCTTAGAGCCTATAAGTCAGTGGCA
64 GAAGCCCACAAGTCGGTGGCATCCTCTTAAAGCCCAAAAGTCAGTGACA
* * *
2658742 CCCTCTCAAAGCCCACAAGTTAGTGGTGTCCCTATCAAAACCCACAAGTCA
1 CCCTCTCAAAGCCCACAAGTTAGTGGCGTCCCTATCAAAGCCCATAAGTCA
2658793 GTGGCACCCT
Statistics
Matches: 316, Mismatches: 63, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
112 38 0.12
113 98 0.31
114 161 0.51
115 19 0.06
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (112 bp):
CCCTCTCAAAGCCCACAAGTTAGTGGCGTCCCTATCAAAGCCCATAAGTCAATGGAACCTTTCGA
AGCCCACAAGTCGGTGGCATCCTCTTAAAGCCCAAAAGTCAGTGACA
Found at i:2658890 original size:369 final size:369
Alignment explanation
Indices: 2658204--2658957 Score: 1454
Period size: 369 Copynumber: 2.0 Consensus size: 369
2658194 CTCCAAATCT
*
2658204 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTCTTAAAGCCCAAAAGTCAGTGACACTCTCTCGAA
1 CTTTTCGAAGCCCACAAGTCAGTGGCATCCTCTTAAAGCCCAAAAGTCAGTGACACTCTCTCGAA
2658269 GCCCATAAGTCGGTGGCGTTCCCTATCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCACACA
66 GCCCATAAGTCGGTGGCGTTCCCTATCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCACACA
2658334 AGTTAGTGGCACCCTCTTAGAGCCTATAAGTCAGTGGCACCCTCTCAAAGCCCACAAGTTAGTGG
131 AGTTAGTGGCACCCTCTTAGAGCCTATAAGTCAGTGGCACCCTCTCAAAGCCCACAAGTTAGTGG
2658399 TGTCCCTATCAAAACCCACAAGTCAGTGGCACCCTCATAAAGCCCATAAGTCAATGGCACCCTCT
196 TGTCCCTATCAAAACCCACAAGTCAGTGGCACCCTCATAAAGCCCATAAGTCAATGGCACCCTCT
2658464 CGAAGCCCACAAGTCGGTGGCATCCCCTATCAAAGCCCACAAGTTAATAGCACCCTTTTAAAGCC
261 CGAAGCCCACAAGTCGGTGGCATCCCCTATCAAAGCCCACAAGTTAATAGCACCCTTTTAAAGCC
*
2658529 CACAAGTTAGTGGCACCCTCTTAAAGCCCATAAATCAATGGAAC
326 CACAAGTTAGTGGCACCCTCTTAAAGCCCATAAATCAATCGAAC
* *
2658573 CTTTTCGAAGCCCATAAGTCGGTGGCATCCTCTTAAAGCCCAAAAGTCAGTGACACTCTCTCGAA
1 CTTTTCGAAGCCCACAAGTCAGTGGCATCCTCTTAAAGCCCAAAAGTCAGTGACACTCTCTCGAA
2658638 GCCCATAAGTCGGTGGCGTTCCCTATCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCACACA
66 GCCCATAAGTCGGTGGCGTTCCCTATCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCACACA
2658703 AGTTAGTGGCACCCTCTTAGAGCCTATAAGTCAGTGGCACCCTCTCAAAGCCCACAAGTTAGTGG
131 AGTTAGTGGCACCCTCTTAGAGCCTATAAGTCAGTGGCACCCTCTCAAAGCCCACAAGTTAGTGG
2658768 TGTCCCTATCAAAACCCACAAGTCAGTGGCACCCTCATAAAGCCCATAAGTCAATGGCACCCTCT
196 TGTCCCTATCAAAACCCACAAGTCAGTGGCACCCTCATAAAGCCCATAAGTCAATGGCACCCTCT
*
2658833 CGAAGCCCACAAGTCGGTGGCGTCCCCTATCAAAGCCCACAAGTTAATAGCACCCTTTTAAAGCC
261 CGAAGCCCACAAGTCGGTGGCATCCCCTATCAAAGCCCACAAGTTAATAGCACCCTTTTAAAGCC
2658898 CACAAGTTAGTGGCACCCTCTTAAAGCCCATAAATCAATCGAAC
326 CACAAGTTAGTGGCACCCTCTTAAAGCCCATAAATCAATCGAAC
*
2658942 CCTTTCGAAGCCCACA
1 CTTTTCGAAGCCCACA
2658958 CGTTTTCTCA
Statistics
Matches: 378, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
369 378 1.00
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (369 bp):
CTTTTCGAAGCCCACAAGTCAGTGGCATCCTCTTAAAGCCCAAAAGTCAGTGACACTCTCTCGAA
GCCCATAAGTCGGTGGCGTTCCCTATCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCACACA
AGTTAGTGGCACCCTCTTAGAGCCTATAAGTCAGTGGCACCCTCTCAAAGCCCACAAGTTAGTGG
TGTCCCTATCAAAACCCACAAGTCAGTGGCACCCTCATAAAGCCCATAAGTCAATGGCACCCTCT
CGAAGCCCACAAGTCGGTGGCATCCCCTATCAAAGCCCACAAGTTAATAGCACCCTTTTAAAGCC
CACAAGTTAGTGGCACCCTCTTAAAGCCCATAAATCAATCGAAC
Found at i:2667575 original size:3 final size:3
Alignment explanation
Indices: 2667567--2667600 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
2667557 CGAGTCAACT
*
2667567 TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
2667601 TAATGGTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:2668655 original size:20 final size:20
Alignment explanation
Indices: 2668632--2668705 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2668622 ACAATTCAAA
2668632 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2668652 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2668673 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2668693 GTATCGATACATG
1 GTATCGATACATG
2668706 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2668676 original size:21 final size:21
Alignment explanation
Indices: 2668650--2668725 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2668640 ACATGTTGCA
2668650 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2668671 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
2668691 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
2668712 ATGTATCGATACAT
1 ATGTATCGATACAT
2668726 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2668683 original size:41 final size:41
Alignment explanation
Indices: 2668632--2668725 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
2668622 ACAATTCAAA
2668632 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
2668673 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
2668714 GTATCGATACAT
1 GTATCGATACAT
2668726 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:2668782 original size:13 final size:13
Alignment explanation
Indices: 2668764--2668789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2668754 TACAGCAAGT
2668764 ATGTATCGATACA
1 ATGTATCGATACA
2668777 ATGTATCGATACA
1 ATGTATCGATACA
2668790 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2671031 original size:21 final size:21
Alignment explanation
Indices: 2670998--2671042 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2670988 TTGCAAGTTG
*
2670998 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2671020 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2671040 AAA
1 AAA
2671043 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2674960 original size:20 final size:21
Alignment explanation
Indices: 2674891--2674968 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
2674881 AATGTCCAAA
*
2674891 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
2674911 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
2674936 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
2674956 TTGTATCGATACA
1 ATGTATCGATACA
2674969 ATGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 30 0.64
24 3 0.06
25 14 0.30
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:2674975 original size:13 final size:13
Alignment explanation
Indices: 2674957--2675020 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
2674947 CATTTTTCTT
2674957 TGTATCGATACAA
1 TGTATCGATACAA
*
2674970 TGTATCGATACAC
1 TGTATCGATACAA
2674983 TGTATCGATACAA
1 TGTATCGATACAA
*
2674996 TGTATCGATACAC
1 TGTATCGATACAA
2675009 TGTATCGATACA
1 TGTATCGATACA
2675021 GGGTGATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2674993 original size:26 final size:26
Alignment explanation
Indices: 2674957--2675020 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
2674947 CATTTTTCTT
2674957 TGTATCGATACAATGTATCGATACAC
1 TGTATCGATACAATGTATCGATACAC
2674983 TGTATCGATACAATGTATCGATACAC
1 TGTATCGATACAATGTATCGATACAC
2675009 TGTATCGATACA
1 TGTATCGATACA
2675021 GGGTGATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (26 bp):
TGTATCGATACAATGTATCGATACAC
Found at i:2677508 original size:21 final size:21
Alignment explanation
Indices: 2677482--2677537 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
2677472 ACATGTTGCA
2677482 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
2677503 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
2677524 ATGTATCGATACAT
1 ATGTATCGATACAT
2677538 TTCTTGGCAG
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:0.45, C:0.11, G:0.18, T:0.27
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2677594 original size:13 final size:13
Alignment explanation
Indices: 2677576--2677601 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2677566 TACAGCAAGT
2677576 ATGTATCGATACA
1 ATGTATCGATACA
2677589 ATGTATCGATACA
1 ATGTATCGATACA
2677602 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2679331 original size:32 final size:33
Alignment explanation
Indices: 2679290--2679353 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2679280 CTTTTCAAGG
* *
2679290 TGTATCGATACT-AGGAACATGTATCGTTACAA
1 TGTATCGATACTAAGCAACATGTATCGATACAA
*
2679322 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCGATACTAAGCAACATGTATCGATACA
2679354 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (33 bp):
TGTATCGATACTAAGCAACATGTATCGATACAA
Found at i:2680369 original size:34 final size:31
Alignment explanation
Indices: 2680285--2680404 Score: 105
Period size: 34 Copynumber: 3.6 Consensus size: 31
2680275 TGAAGTGATT
** *
2680285 GAGAGGTTCTATCTTAGCCTTTAAAAAAGATA
1 GAGAGGTTCTATCTTAGCCAAT-GAAAAGATA
* *
2680317 GGGAGAAAAGTTCTATCTTATCCAATGAAAAGATA
1 --GAG--AGGTTCTATCTTAGCCAATGAAAAGATA
**
2680352 GTTAAGAGGTTCTATCTTAGCCTGTGAAAAGATA
1 G---AGAGGTTCTATCTTAGCCAATGAAAAGATA
2680386 GAGAGGTTCTATCTTAGCC
1 GAGAGGTTCTATCTTAGCC
2680405 TTCAAAAGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 13
0.77 0.10 0.14
Matches are distributed among these distances:
31 18 0.25
33 1 0.01
34 28 0.39
35 8 0.11
36 17 0.24
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (31 bp):
GAGAGGTTCTATCTTAGCCAATGAAAAGATA
Found at i:2681649 original size:19 final size:20
Alignment explanation
Indices: 2681625--2681675 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
2681615 TAGCCAAACT
*
2681625 TGTATCGATACA-CA-AAGTA
1 TGTATCGATACACCATAA-AA
2681644 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
2681664 TGTATCGATACA
1 TGTATCGATACA
2681676 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.41
20 15 0.52
21 2 0.07
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:2684757 original size:13 final size:13
Alignment explanation
Indices: 2684739--2684764 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2684729 ACATCATTCT
2684739 TTGTATCGATACA
1 TTGTATCGATACA
2684752 TTGTATCGATACA
1 TTGTATCGATACA
2684765 GGGGGATTAT
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):
TTGTATCGATACA
Found at i:2684910 original size:21 final size:19
Alignment explanation
Indices: 2684886--2684937 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
2684876 AAATCTTTTG
2684886 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCA--T
* *
2684907 CAAATTACATCGTTTTTCAT
1 CAAAATAC-TTGTTTTTCAT
2684927 CAAAATCACTT
1 CAAAAT-ACTT
2684938 TCAAAAACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
20 7 0.28
21 9 0.36
22 9 0.36
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (19 bp):
CAAAATACTTGTTTTTCAT
Found at i:2687274 original size:19 final size:20
Alignment explanation
Indices: 2687250--2687300 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
2687240 TAGCCAAACT
*
2687250 TGTATCGATACA-CA-AAGTA
1 TGTATCGATACACCATAA-AA
2687269 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
2687289 TGTATCGATACA
1 TGTATCGATACA
2687301 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.41
20 15 0.52
21 2 0.07
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:2696539 original size:42 final size:41
Alignment explanation
Indices: 2696478--2696595 Score: 182
Period size: 42 Copynumber: 2.9 Consensus size: 41
2696468 TAGCCCTCAA
* *
2696478 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACA-G
*
2696520 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAG
* *
2696561 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
2696596 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 33 0.47
42 37 0.53
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (41 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAG
Found at i:2696580 original size:41 final size:42
Alignment explanation
Indices: 2696487--2696595 Score: 184
Period size: 41 Copynumber: 2.6 Consensus size: 42
2696477 AAGAGAAAGA
*
2696487 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAGT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
2696529 AGAGATAGGAGGGATGATAGGAGGAGAGACA-GAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
2696570 AGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGAGAGGAGGGATGATAGGAGGAG
2696596 GAGAGAAGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 33 0.52
42 30 0.48
ACGTcount: A:0.41, C:0.03, G:0.47, T:0.09
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
Found at i:2702534 original size:20 final size:19
Alignment explanation
Indices: 2702479--2702534 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
2702469 AAAACCCTTA
*
2702479 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
2702499 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
2702519 AATGTATCGATACATG
1 AAAGTATCGATACATG
2702535 AAAAAGATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:2702610 original size:19 final size:20
Alignment explanation
Indices: 2702586--2702636 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
2702576 TAGCCAAACT
**
2702586 TGTATCGATACA-CAAAGTA
1 TGTATCGATACACCAAAAAA
2702605 TGTATCGATACACCAAAAAA
1 TGTATCGATACACCAAAAAA
2702625 TGTATCGATACA
1 TGTATCGATACA
2702637 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (20 bp):
TGTATCGATACACCAAAAAA
Found at i:2708814 original size:13 final size:13
Alignment explanation
Indices: 2708796--2708834 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2708786 ACATAATTCT
2708796 TTGTATCGATACA
1 TTGTATCGATACA
2708809 TTGTATCGATACA
1 TTGTATCGATACA
*
2708822 CTGTATCGATACA
1 TTGTATCGATACA
2708835 GGAGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2709003 original size:21 final size:21
Alignment explanation
Indices: 2708957--2709003 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
2708947 AAATCTTTTG
2708957 CAAAA-TACTTGTTTTTCACT
1 CAAAATTACTTGTTTTTCACT
**
2708977 TTAAATTACATTGTTTTTCA-T
1 CAAAATTAC-TTGTTTTTCACT
2708998 CAAAAT
1 CAAAAT
2709004 CACCTTCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.14
21 8 0.38
22 10 0.48
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.47
Consensus pattern (21 bp):
CAAAATTACTTGTTTTTCACT
Found at i:2710620 original size:13 final size:13
Alignment explanation
Indices: 2710602--2710627 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2710592 TACACCAAGT
2710602 ATGTATCGATACA
1 ATGTATCGATACA
2710615 ATGTATCGATACA
1 ATGTATCGATACA
2710628 CAAAAAAATT
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:2712892 original size:21 final size:21
Alignment explanation
Indices: 2712859--2712908 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2712849 TTGCAAGTTG
*
2712859 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2712881 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
2712902 AAATAAA
1 AAATAAA
2712909 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2714726 original size:15 final size:15
Alignment explanation
Indices: 2714706--2714736 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2714696 TAAAAATGTC
*
2714706 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2714721 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2714736 C
1 C
2714737 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2716827 original size:13 final size:13
Alignment explanation
Indices: 2716809--2716844 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2716799 TTTTTCTTTG
*
2716809 TATCGATACATTA
1 TATCGATACACTA
*
2716822 TATCGATACACTG
1 TATCGATACACTA
2716835 TATCGATACA
1 TATCGATACA
2716845 GGGGGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (13 bp):
TATCGATACACTA
Found at i:2719413 original size:13 final size:13
Alignment explanation
Indices: 2719395--2719420 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2719385 TACACCAAGT
2719395 ATGTATCGATACA
1 ATGTATCGATACA
2719408 ATGTATCGATACA
1 ATGTATCGATACA
2719421 CAAAAAAATT
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:2721380 original size:32 final size:33
Alignment explanation
Indices: 2721338--2721401 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2721328 TAGCCAAACT
**
2721338 TGTATCGATACACC-AAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
*
2721370 TGTATTGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
2721402 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:2723342 original size:32 final size:33
Alignment explanation
Indices: 2723300--2723363 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2723290 TAGCCAAACT
**
2723300 TGTATCGATACACC-AAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
*
2723332 TGTATTGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
2723364 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:2726224 original size:437 final size:439
Alignment explanation
Indices: 2725402--2726283 Score: 1174
Period size: 437 Copynumber: 2.0 Consensus size: 439
2725392 GAACTACTGA
* * * *
2725402 CCCTTCTATCCACACTCGAATGTATCTACGTAAGATGGCTGAGTACGAGAAAGACGATAAGCTTT
1 CCCTTCTATCCACACTCAAATATATCTACGTAAGATGGCTGAGTACGAGAAAGACGAGAAGCTCT
* * *
2725467 TTATCCATTGCTTCCATCACAGTCTCACTAGGGCAGCCGCTCGATGGTATATCGAGTTAGACAAC
66 TTATCCATTGCTTCCAGCACAGTCTCACTAGGGCAGCCGCTCGATGGTAGATCGAGGTAG---AC
* *
2725532 GCAAAAATTTAATCATGGGTTGACGTAGCTAAGGATTTCCTAAACCAATACCAACATTGTCAGAC
128 GC---AATTCAATCATGGGCTGACGTAGCTAAGGATTTCCTAAACCAATACCAACATTGTCAGAC
*
2725597 TGGGTGCCATATCGACTTTCTTGATGAATTTTGAGAAGAAATCTACAGAGAGTTTTAGGCAATAT
190 TGGGTGCCATATCGACTTTCTTGATGAATTTTGAGAAGAAATCTACAGAGAGTTTCAGGCAATAT
* *
2725662 GCCTAAAGGTAGAGAGAAGAGGCAGCCCTTAGTCTAGCCTCCTCTTACAGAAAAAGAGACGACGA
255 GCCCAAAGCTAGAGAGAAGAGGCAGCCCTTAGTCTAGCCTCCTCTTACAGAAAAAGAGACGACGA
*
2725727 TCACTTCATCAATACCCTGCACGCTCTTTATTACAAGAAACTTATAGGGAATGCAACCAAGAGAT
320 TCACTTCATCAATACCCTGCACGCTCTTTATTACAAGAAACTCATAGGGAATGCAACCAAGAGAT
** * *
2725792 TTGTAGACCTCATCCTCTCCGAGGAAATGATTGATGCAACCATTAAGAGTGGTAG
385 TTACAAACCTCATCCTCTCCGAAGAAATGATTGATGCAACCATTAAGAGTGGTAG
* * * * *
2725847 CCCTTCTGTCCACATTCAAATATATCTACGTAAGAT-GATCGGGTACGAGAAAGATGAGAAGCTC
1 CCCTTCTATCCACACTCAAATATATCTACGTAAGATGGCT-GAGTACGAGAAAGACGAGAAGCTC
* *
2725911 TTTATCCATTGCTTCCAGCACAGTCTCACTAGGGTAGTCGCTCGATGGTCAGA-CTG-GGT-G-C
65 TTTATCCATTGCTTCCAGCACAGTCTCACTAGGGCAGCCGCTCGATGGT-AGATC-GAGGTAGAC
*
2725972 -C-ATTCAATCATGGGCTGACTTAGCTAA-GACTTTCCTAAACCAATACCAACATGTGTCAGACT
128 GCAATTCAATCATGGGCTGACGTAGCTAAGGA-TTTCCTAAACCAATACCAACAT-TGTCAGACT
*
2726034 GGGTGCCATATCGACTTTCCTTGATGAATTTTGAGAAGAAATCTACGGAGAGTTTCAGGCAATAT
191 GGGTGCCATATCGACTTT-CTTGATGAATTTTGAGAAGAAATCTACAGAGAGTTTCAGGCAATAT
* * ** * *
2726099 GCCCAAAGCTGGAGAGAAGAGGCAGCCC-TAGTCTAGCCTTCTCTTATGGAAAAAGAGATGACGG
255 GCCCAAAGCTAGAGAGAAGAGGCAGCCCTTAGTCTAGCCTCCTCTTACAGAAAAAGAGACGACGA
* * * **
2726163 TCACTTTCATTAATACCCT--ATGCATTTCTTATTATGAGAAACTCATAGGGAATGCAACCAAGA
320 TCAC-TTCATCAATACCCTGCACGC-TCT-TTATTACAAGAAACTCATAGGGAATGCAACCAAGA
** * **
2726226 GATTTACAAACCTTGTCCTCTCTGAAGAAATGATTGATGCGGCCATTAAGAGTGGTAG
382 GATTTACAAACCTCATCCTCTCCGAAGAAATGATTGATGCAACCATTAAGAGTGGTAG
2726284 GATGTCTACC
Statistics
Matches: 386, Mismatches: 42, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
434 2 0.01
435 48 0.12
436 64 0.17
437 163 0.42
439 1 0.00
440 1 0.00
444 3 0.01
445 101 0.26
446 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (439 bp):
CCCTTCTATCCACACTCAAATATATCTACGTAAGATGGCTGAGTACGAGAAAGACGAGAAGCTCT
TTATCCATTGCTTCCAGCACAGTCTCACTAGGGCAGCCGCTCGATGGTAGATCGAGGTAGACGCA
ATTCAATCATGGGCTGACGTAGCTAAGGATTTCCTAAACCAATACCAACATTGTCAGACTGGGTG
CCATATCGACTTTCTTGATGAATTTTGAGAAGAAATCTACAGAGAGTTTCAGGCAATATGCCCAA
AGCTAGAGAGAAGAGGCAGCCCTTAGTCTAGCCTCCTCTTACAGAAAAAGAGACGACGATCACTT
CATCAATACCCTGCACGCTCTTTATTACAAGAAACTCATAGGGAATGCAACCAAGAGATTTACAA
ACCTCATCCTCTCCGAAGAAATGATTGATGCAACCATTAAGAGTGGTAG
Found at i:2732414 original size:9 final size:9
Alignment explanation
Indices: 2732383--2732477 Score: 82
Period size: 9 Copynumber: 9.9 Consensus size: 9
2732373 CATCCTCCGC
2732383 CAAAAAAAA
1 CAAAAAAAA
2732392 CATTAAATAAAA
1 CA--AAA-AAAA
*
2732404 CAACAAAAA
1 CAAAAAAAA
**
2732413 CAAAAACCA
1 CAAAAAAAA
2732422 CAAAAAAATA
1 CAAAAAAA-A
2732432 CAAAAAAAA
1 CAAAAAAAA
*
2732441 TACAAAAAAA
1 CA-AAAAAAA
* *
2732451 TAAAAAGAA
1 CAAAAAAAA
2732460 CAAAAAAAA
1 CAAAAAAAA
2732469 CAACAAAAA
1 CAA-AAAAA
2732478 GGGTCCGGAT
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
9 36 0.51
10 25 0.36
11 3 0.04
12 6 0.09
ACGTcount: A:0.79, C:0.14, G:0.01, T:0.06
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:2732434 original size:10 final size:10
Alignment explanation
Indices: 2732421--2732477 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
2732411 AACAAAAACC
2732421 ACAAAAAAAT
1 ACAAAAAAAT
2732431 ACAAAAAAAAT
1 AC-AAAAAAAT
2732442 ACAAAAAAAT
1 ACAAAAAAAT
*
2732452 --AAAAAGA-
1 ACAAAAAAAT
2732459 ACAAAAAAA-
1 ACAAAAAAAT
2732468 ACAACAAAAA
1 ACAA-AAAAA
2732478 GGGTCCGGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 6 0.15
9 10 0.24
10 15 0.37
11 10 0.24
ACGTcount: A:0.82, C:0.11, G:0.02, T:0.05
Consensus pattern (10 bp):
ACAAAAAAAT
Found at i:2732437 original size:11 final size:11
Alignment explanation
Indices: 2732423--2732450 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
2732413 CAAAAACCAC
2732423 AAAAAAATACA
1 AAAAAAATACA
2732434 AAAAAAATACA
1 AAAAAAATACA
2732445 AAAAAA
1 AAAAAA
2732451 TAAAAAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAAATACA
Found at i:2732467 original size:12 final size:12
Alignment explanation
Indices: 2732383--2732477 Score: 66
Period size: 12 Copynumber: 7.5 Consensus size: 12
2732373 CATCCTCCGC
*
2732383 CAAAAAAAACAT
1 CAAAAAAAACAA
* *
2732395 TAAATAAAACAA
1 CAAAAAAAACAA
*
2732407 CAAAAACAAAAACCA
1 C--AAA-AAAAACAA
2732422 CAAAAAAATACAA
1 CAAAAAAA-ACAA
*
2732435 -AAAAAATACAAA
1 CAAAAAAAAC-AA
* *
2732447 AAAATAAAAAGAA
1 CAAA-AAAAACAA
2732460 CAAAAAAAACAA
1 CAAAAAAAACAA
2732472 CAAAAA
1 CAAAAA
2732478 GGGTCCGGAT
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
11 2 0.03
12 34 0.53
13 14 0.22
14 7 0.11
15 7 0.11
ACGTcount: A:0.79, C:0.14, G:0.01, T:0.06
Consensus pattern (12 bp):
CAAAAAAAACAA
Found at i:2734031 original size:32 final size:32
Alignment explanation
Indices: 2733943--2734039 Score: 95
Period size: 34 Copynumber: 2.9 Consensus size: 32
2733933 TGTGGCACCT
** * * *
2733943 TTTTAAGTTGATAACTCTGTGGCACGTTTTTC
1 TTTTAAGTCCATAACTCTATGGCACCTTTTGC
* * *
2733975 TTTTCAAAGCCCACAACTCCATGGCACCTTTTGC
1 TTTT--AAGTCCATAACTCTATGGCACCTTTTGC
2734009 TTTTAAGTCCATAACTCTATGGCACCCTTTT
1 TTTTAAGTCCATAACTCTATGGCA-CCTTTT
2734040 AAGCCCATAA
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
32 21 0.41
33 6 0.12
34 24 0.47
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (32 bp):
TTTTAAGTCCATAACTCTATGGCACCTTTTGC
Found at i:2734057 original size:19 final size:19
Alignment explanation
Indices: 2734033--2734072 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2734023 CTCTATGGCA
*
2734033 CCCTTTTAAGCCCATAACT
1 CCCTTTTAAGCCCACAACT
*
2734052 CCCTTTTAAGTCCACAACT
1 CCCTTTTAAGCCCACAACT
2734071 CC
1 CC
2734073 GTAGCACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.40, G:0.05, T:0.30
Consensus pattern (19 bp):
CCCTTTTAAGCCCACAACT
Found at i:2734146 original size:33 final size:34
Alignment explanation
Indices: 2734063--2734159 Score: 133
Period size: 33 Copynumber: 2.8 Consensus size: 34
2734053 CCTTTTAAGT
* *
2734063 CCACAACTCCGTAGCACCTTTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACC--TTTTTCTTTTCAAAGC
* *
2734099 CCACAACTCTGTGGCACCTTTTT-TTTTCAAAGG
1 CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGC
2734132 CCACAACTCCGTGGCACCTTTTTCTTTT
1 CCACAACTCCGTGGCACCTTTTTCTTTT
2734160 AAGTCCACAC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
33 30 0.55
34 9 0.16
36 16 0.29
ACGTcount: A:0.20, C:0.31, G:0.11, T:0.38
Consensus pattern (34 bp):
CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGC
Found at i:2734318 original size:43 final size:44
Alignment explanation
Indices: 2734249--2734333 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 44
2734239 GATGGCATCT
*
2734249 CCTTCTAAGTCCAATGTTGCTAGCCTTGAATCAACACATTGGGA
1 CCTTCTAAGTCCAATGTCGCTAGCCTTGAATCAACACATTGGGA
* * *
2734293 CCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGG
1 CCTTCTAAGTCCAATGTCGCTAGCCTTGAATCAACACATTGG
2734334 CGCCCTTGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 33 0.89
44 4 0.11
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (44 bp):
CCTTCTAAGTCCAATGTCGCTAGCCTTGAATCAACACATTGGGA
Found at i:2734485 original size:49 final size:50
Alignment explanation
Indices: 2734294--2734698 Score: 226
Period size: 52 Copynumber: 7.9 Consensus size: 50
2734284 ACATTGGGAC
* * * *
2734294 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCCTTGTCAAT
1 CTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGC-ACC-T-TCAAT
* * * * * *
2734347 TTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTAGCATCTTCAAT
1 CTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCAAT
* * * *
2734397 ATTCCTAAG-CCTAACATCACTGGCCTTGAATTAGCACATTGGCACCATC-AT
1 CTT--TAAGTCC-AATATCACTGGCCTTGAATCAGCACATTGGCACCTTCAAT
* * *
2734448 CTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACATTGGCACCTT-TAT
1 CTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCAAT
*** * * * * *
2734497 CTTTAAGTTTGATATCGCTGGCCTTGAATAAGCATATTGGCATCTTTAA-
1 CTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCAAT
** * * * * * *
2734546 CATTCCTAAACCCAATGTCGCTGGCCTTGAATCAACACATTGGAATTCTTCTCAT
1 C-TT--TAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCA-CCTTC-AAT
* * ** * * * *
2734601 CTTCAAGTCTAAGGTCACT-GACTGTGAATCAGCACATTGACATTCTTCGCAT
1 CTTTAAGTCCAATATCACTGGCCT-TGAATCAGCACATTGGCA-CCTTC-AAT
* * * * * *
2734653 CTTTGAGCCCAATATCACTGGCTTTAAATTAGCACGTTGGCACCTT
1 CTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTT
2734699 TATCATTCTT
Statistics
Matches: 272, Mismatches: 66, Indels: 30
0.74 0.18 0.08
Matches are distributed among these distances:
49 75 0.28
50 12 0.04
51 13 0.05
52 125 0.46
53 43 0.16
54 3 0.01
55 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (50 bp):
CTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTCAAT
Found at i:2734541 original size:150 final size:153
Alignment explanation
Indices: 2734294--2734588 Score: 380
Period size: 150 Copynumber: 1.9 Consensus size: 153
2734284 ACATTGGGAC
* * * * *
2734294 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCCTTGTCAATTTTTAAGCCCAA
1 CTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACATTGGCGACCTTGT-AATCTTTAAGCCCAA
* * * *
2734359 TATCGCTGGCCTTGAATCAGCATATTAGCATCTTCAATATTCCTAAGCCTAACATCACTGGCCTT
65 TATCGCTGGCCTTGAATAAGCATATTAGCATCTTCAACATTCCTAAACCCAACATCACTGGCCTT
* *
2734424 GAATTAGCACATTGGCACCATCAT
130 GAATCAACACATTGGCACCATCAT
****
2734448 CTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACATTGGC-ACCTT-T-ATCTTTAAGTTTGAT
1 CTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACATTGGCGACCTTGTAATCTTTAAGCCCAAT
* * ** *
2734510 ATCGCTGGCCTTGAATAAGCATATTGGCATCTTTAACATTCCTAAACCCAATGTCGCTGGCCTTG
66 ATCGCTGGCCTTGAATAAGCATATTAGCATCTTCAACATTCCTAAACCCAACATCACTGGCCTTG
2734575 AATCAACACATTGG
131 AATCAACACATTGG
2734589 AATTCTTCTC
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
150 78 0.64
152 1 0.01
153 4 0.03
154 38 0.31
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (153 bp):
CTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACATTGGCGACCTTGTAATCTTTAAGCCCAAT
ATCGCTGGCCTTGAATAAGCATATTAGCATCTTCAACATTCCTAAACCCAACATCACTGGCCTTG
AATCAACACATTGGCACCATCAT
Found at i:2734777 original size:61 final size:61
Alignment explanation
Indices: 2734644--2734777 Score: 144
Period size: 61 Copynumber: 2.2 Consensus size: 61
2734634 ACATTGACAT
* * * * * *
2734644 TCTTCGCATCTTTGAGCCCAATATCACTGGCTTTAAATTAGCACGTTGGCACCTTTATCAT
1 TCTTCTCATCTTTAAGCCCAATATCACTGGCTCTAAATCAGCACATTGGCACCTTTATCAC
* * * * * *
2734705 TCTTTTTATCTTTAAGCCCAATATCGCTGG-TCCTGAATCAGCATATTGGCATCTTTATCAC
1 TCTTCTCATCTTTAAGCCCAATATCACTGGCT-CTAAATCAGCACATTGGCACCTTTATCAC
2734766 TCTTCTCATCTT
1 TCTTCTCATCTT
2734778 CATAATCTTT
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
60 1 0.02
61 57 0.98
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.40
Consensus pattern (61 bp):
TCTTCTCATCTTTAAGCCCAATATCACTGGCTCTAAATCAGCACATTGGCACCTTTATCAC
Found at i:2735415 original size:13 final size:13
Alignment explanation
Indices: 2735397--2735422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2735387 ACATAAGTTT
2735397 TGTATCGATACAA
1 TGTATCGATACAA
2735410 TGTATCGATACAA
1 TGTATCGATACAA
2735423 AGCTACCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2735484 original size:20 final size:20
Alignment explanation
Indices: 2735459--2735496 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2735449 TGTATCGATA
*
2735459 CATTATATTGATACATTTAC
1 CATTATATCGATACATTTAC
2735479 CATTATATCGATACATTT
1 CATTATATCGATACATTT
2735497 GGATATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (20 bp):
CATTATATCGATACATTTAC
Found at i:2735543 original size:50 final size:51
Alignment explanation
Indices: 2735468--2735575 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 51
2735458 ACATTATATT
* * *
2735468 GATACATTTACCATTATATCGATACATTTGGATATTTTA-CCAAATGTCTC
1 GATACATTGACCATTATATCGATACATCTGGATATTTTACCCAAATGTATC
* * * *
2735518 GATACATTGATCATTGTATCGATACATCTGGGTATTTTACCCAGATGTATC
1 GATACATTGACCATTATATCGATACATCTGGATATTTTACCCAAATGTATC
2735569 GATACAT
1 GATACAT
2735576 GCAAGCAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 34 0.68
51 16 0.32
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (51 bp):
GATACATTGACCATTATATCGATACATCTGGATATTTTACCCAAATGTATC
Found at i:2736282 original size:31 final size:30
Alignment explanation
Indices: 2736242--2736299 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
2736232 TTTTCTATTT
*
2736242 ATGTGTCCATCATCATTTTAGTGATCCTAAC
1 ATGTGTCCATCACCATTTTAG-GATCCTAAC
* * *
2736273 ATGTTTCCATGACCTTTTTAGGATCCT
1 ATGTGTCCATCACCATTTTAGGATCCT
2736300 CATGCATGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 6 0.26
31 17 0.74
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.41
Consensus pattern (30 bp):
ATGTGTCCATCACCATTTTAGGATCCTAAC
Found at i:2738819 original size:90 final size:89
Alignment explanation
Indices: 2738667--2738843 Score: 228
Period size: 90 Copynumber: 2.0 Consensus size: 89
2738657 CATATTCCTT
* * *
2738667 ATCATGCTATAAAATCCCCAATCACGAGGGATATTAAGTCGGGCGTGCCTCATTTGCCCTATCGT
1 ATCATGCTATAAAATCCCCAATCACGAGGGATATTAAGTCGGGCATACCTCATTTGCCCTATCAT
2738732 TAGGGTCGAGCGCACGTTGCAACA
66 TAGGGTCGAGCGCACGTTGCAACA
* * ** * * *
2738756 ATCATGCTATAGAAATCCCTATTCGTGAGGGATATTTAGTCGGGCATACCTTATTTTCCCTATCA
1 ATCATGCTATA-AAATCCCCAATCACGAGGGATATTAAGTCGGGCATACCTCATTTGCCCTATCA
* * *
2738821 TTGGGGTTGAGTGCACGTTGCAA
65 TTAGGGTCGAGCGCACGTTGCAA
2738844 TAGCTTGGCA
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
89 11 0.15
90 63 0.85
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (89 bp):
ATCATGCTATAAAATCCCCAATCACGAGGGATATTAAGTCGGGCATACCTCATTTGCCCTATCAT
TAGGGTCGAGCGCACGTTGCAACA
Found at i:2744319 original size:30 final size:30
Alignment explanation
Indices: 2744261--2744319 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
2744251 ATCCTTCTCC
* *
2744261 AAAGTCCACGACTCAATGGCATCTTTTTTT
1 AAAGTCCACGACTCAATGGCACCCTTTTTT
* * *
2744291 AAAGTCCACTATTCTATGGCACCCTTTTT
1 AAAGTCCACGACTCAATGGCACCCTTTTT
2744320 CTTTTTAAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (30 bp):
AAAGTCCACGACTCAATGGCACCCTTTTTT
Found at i:2744365 original size:28 final size:28
Alignment explanation
Indices: 2744320--2744394 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
2744310 CACCCTTTTT
* *
2744320 CTTTTTAAGTCCATAACTCT-GTGGTACC
1 CTTTTTAAGTCCACAACTCTCGTGGCA-C
*
2744348 CTTTTTAAGCCCACAACT-TCGTGGCAC
1 CTTTTTAAGTCCACAACTCTCGTGGCAC
2744375 CTTTTTAAGTCCACAACTCT
1 CTTTTTAAGTCCACAACTCT
2744395 TTAGCATCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 19 0.46
28 22 0.54
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.36
Consensus pattern (28 bp):
CTTTTTAAGTCCACAACTCTCGTGGCAC
Found at i:2744418 original size:33 final size:34
Alignment explanation
Indices: 2744375--2744461 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 34
2744365 TTCGTGGCAC
** *
2744375 CTTTTTAAGTCCACAACTCTTTAGCA-TCTTTTT
1 CTTTTTAAGTCCACAACTCCATAGCACCCTTTTT
* *
2744408 CTTTTAAAGTCCACAACTCCATGGCACCCTTTTT
1 CTTTTTAAGTCCACAACTCCATAGCACCCTTTTT
*
2744442 CTTTTTAAGTCCATAACTCC
1 CTTTTTAAGTCCACAACTCC
2744462 GCCATGCATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 22 0.48
34 24 0.52
ACGTcount: A:0.23, C:0.29, G:0.07, T:0.41
Consensus pattern (34 bp):
CTTTTTAAGTCCACAACTCCATAGCACCCTTTTT
Found at i:2759179 original size:41 final size:41
Alignment explanation
Indices: 2759134--2759215 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
2759124 TCCAAGAGTT
2759134 AGAGCAATCCCTTCAAGTTTATCAAGATGAATCAATAAGGC
1 AGAGCAATCCCTTCAAGTTTATCAAGATGAATCAATAAGGC
2759175 AGAGCAATCCCTTCAAGTTTATCAAGATGAATCAATAAGGC
1 AGAGCAATCCCTTCAAGTTTATCAAGATGAATCAATAAGGC
2759216 CTTCCGAGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (41 bp):
AGAGCAATCCCTTCAAGTTTATCAAGATGAATCAATAAGGC
Found at i:2766954 original size:17 final size:17
Alignment explanation
Indices: 2766934--2767024 Score: 98
Period size: 17 Copynumber: 5.4 Consensus size: 17
2766924 GCATCCTCTG
2766934 CAAAAAAACAACAAAAA
1 CAAAAAAACAACAAAAA
*
2766951 CAAAAACACAA-AAAAA
1 CAAAAAAACAACAAAAA
* *
2766967 TATAAAAATACAA-AAATA
1 CA-AAAAA-ACAACAAAAA
2766985 CAAAAAAA-AACAAAAA
1 CAAAAAAACAACAAAAA
*
2767001 CAAAAAAAAAACAAACAA
1 CAAAAAAACAACAAA-AA
2767019 CAAAAA
1 CAAAAA
2767025 GGGTTCGGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
15 2 0.03
16 19 0.30
17 25 0.40
18 17 0.27
ACGTcount: A:0.81, C:0.14, G:0.00, T:0.04
Consensus pattern (17 bp):
CAAAAAAACAACAAAAA
Found at i:2766999 original size:8 final size:8
Alignment explanation
Indices: 2766934--2767024 Score: 87
Period size: 8 Copynumber: 11.0 Consensus size: 8
2766924 GCATCCTCTG
2766934 CAAAAAAA
1 CAAAAAAA
2766942 CAACAAAAA
1 CAA-AAAAA
*
2766951 CAAAAACA
1 CAAAAAAA
2766959 CAAAAAAA
1 CAAAAAAA
*
2766967 TATAAAAATA
1 CA-AAAAA-A
*
2766977 CAAAAATA
1 CAAAAAAA
2766985 CAAAAAAA
1 CAAAAAAA
2766993 -AACAAAAA
1 CAA-AAAAA
2767001 CAAAAAAA
1 CAAAAAAA
*
2767009 -AAACAAA
1 CAAAAAAA
2767016 CAACAAAAA
1 CAA-AAAAA
2767025 GGGTTCGGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
7 8 0.12
8 35 0.51
9 23 0.34
10 2 0.03
ACGTcount: A:0.81, C:0.14, G:0.00, T:0.04
Consensus pattern (8 bp):
CAAAAAAA
Found at i:2768502 original size:31 final size:31
Alignment explanation
Indices: 2768464--2768552 Score: 142
Period size: 31 Copynumber: 2.9 Consensus size: 31
2768454 ACATTCCTCA
*
2768464 CCTTCCAAAGCCCACAAGTTAATGGCAGCAT
1 CCTTCCAAAGCCCACAAGTTAGTGGCAGCAT
* *
2768495 CCTTCCAAAGCCCACAAGTCAGTGGTAGCAT
1 CCTTCCAAAGCCCACAAGTTAGTGGCAGCAT
*
2768526 CCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCTTCCAAAGCCCACAAGTTAGTGGCA
2768553 CCTTTTTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.20
Consensus pattern (31 bp):
CCTTCCAAAGCCCACAAGTTAGTGGCAGCAT
Found at i:2768576 original size:28 final size:29
Alignment explanation
Indices: 2768528--2768624 Score: 108
Period size: 28 Copynumber: 3.3 Consensus size: 29
2768518 GGTAGCATCC
*
2768528 TTTCAAAGCCCACAAGTTAGTGGCA-CCT
1 TTTCAAAGCCCACAAGGTAGTGGCACCCT
* *
2768556 TTTTAAAGCCCACAAGGTAGTGGTACCCT
1 TTTCAAAGCCCACAAGGTAGTGGCACCCT
* * *
2768585 TTTCAAAGCCCTCAA-GTCGATGGCAACTCT
1 TTTCAAAGCCCACAAGGTAG-TGGC-ACCCT
2768615 TTTCAAAGCC
1 TTTCAAAGCC
2768625 GACATAAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 25 0.43
29 19 0.33
30 14 0.24
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGGTAGTGGCACCCT
Found at i:2768617 original size:59 final size:58
Alignment explanation
Indices: 2768462--2768624 Score: 145
Period size: 59 Copynumber: 2.7 Consensus size: 58
2768452 AGACATTCCT
* * * * *
2768462 CACCTTCCAAAGCCCACAAGTTAATGGCAGCATCCTTCCAAAGCCCACAAGTCAGTGGTAG
1 CACCTTTCAAAGCCCACAAGTGAGTGGCA-C--CTTTTCAAAGCCCACAAGTCAGTGGTAG
* *
2768523 CATCCTTTCAAAGCCCACAAGTTAGTGGCACCTTTTTAAAGCCCACAAGGT-AGTGGTA-
1 CA-CCTTTCAAAGCCCACAAGTGAGTGGCACCTTTTCAAAGCCCACAA-GTCAGTGGTAG
*
2768581 C-CCTTTTCAAAGCCCTCAAGTCGA-TGGCAACTCTTTTCAAAGCC
1 CACC-TTTCAAAGCCCACAAGT-GAGTGGC-AC-CTTTTCAAAGCC
2768625 GACATAAATT
Statistics
Matches: 88, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
56 2 0.02
57 20 0.23
58 4 0.05
59 32 0.36
60 2 0.02
61 3 0.03
62 25 0.28
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (58 bp):
CACCTTTCAAAGCCCACAAGTGAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGTAG
Found at i:2768691 original size:34 final size:34
Alignment explanation
Indices: 2768640--2768704 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
2768630 AAATTGGTGG
* **
2768640 CACCTTTTGAAGTCCACAACTTTGTGGCATCTTT
1 CACCTTTTGAAGCCCACAACTTCATGGCATCTTT
*
2768674 CACCTTTTTAAGCCCACAACTTCATGGCATC
1 CACCTTTTGAAGCCCACAACTTCATGGCATC
2768705 CTTGTAAGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.34
Consensus pattern (34 bp):
CACCTTTTGAAGCCCACAACTTCATGGCATCTTT
Found at i:2768877 original size:52 final size:49
Alignment explanation
Indices: 2768809--2768945 Score: 166
Period size: 49 Copynumber: 2.7 Consensus size: 49
2768799 CTTCTTTTAG
* * *
2768809 GTCCAATGTCGTTGGCCTTGAATCAACAAATTGGTACCTCCTTCATCTCTAA
1 GTCCAATATCGTTGGCCTTGAATCAACACATTGG---CACCTTCATCTCTAA
* * *
2768861 GTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 GTCCAATATCGTTGGCCTTGAATCAACACATTGGCACCTTCATCTCTAA
** *
2768910 GTCTGATATCGTTGGCTTTGAATCAACACATTGGCA
1 GTCCAATATCGTTGGCCTTGAATCAACACATTGGCA
2768946 TTCTTCTCAT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
49 44 0.59
52 30 0.41
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
GTCCAATATCGTTGGCCTTGAATCAACACATTGGCACCTTCATCTCTAA
Found at i:2768956 original size:101 final size:103
Alignment explanation
Indices: 2768811--2769052 Score: 242
Period size: 101 Copynumber: 2.4 Consensus size: 103
2768801 TCTTTTAGGT
* * *
2768811 CCAATGTCGTTGGCCTTGAATCAACAAATTGGTACCTCCTTCATC-TCTAAGTCCAATA-TCGCT
1 CCAATATCGTTGGCCTTGAATCAACAAATTGGCACCTCCTTCATCTTC-AAGTCCAA-AGTAGCT
* * * * *
2768874 GGCCTTGAATCAGCACATTGGCA-CCTT-CATCTTTAAGT
64 GACCATAAATCAGCACATTGACATCCTTCCATCTTTAAGC
** * * * * *
2768912 CTGATATCGTTGGCTTTGAATCAACACATTGGCA-TTCTTCTCATCTTCAAGTCTAAAGTAGCTG
1 CCAATATCGTTGGCCTTGAATCAACAAATTGGCACCTCCT-TCATCTTCAAGTCCAAAGTAGCTG
*
2768976 ACCATAAATCAGCACATTGACATTCTTCGCATCTTTAAGC
65 ACCATAAATCAGCACATTGACATCCTTC-CATCTTTAAGC
* **
2769016 CCAATATCGTTGGCCTTGAATCAGCATGTTGGCACCT
1 CCAATATCGTTGGCCTTGAATCAACAAATTGGCACCT
2769053 TTATCATTCT
Statistics
Matches: 111, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
100 4 0.04
101 63 0.57
102 5 0.05
104 38 0.34
105 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (103 bp):
CCAATATCGTTGGCCTTGAATCAACAAATTGGCACCTCCTTCATCTTCAAGTCCAAAGTAGCTGA
CCATAAATCAGCACATTGACATCCTTCCATCTTTAAGC
Found at i:2769038 original size:52 final size:50
Alignment explanation
Indices: 2768804--2769041 Score: 192
Period size: 52 Copynumber: 4.7 Consensus size: 50
2768794 GGCATCTTCT
* * * * *
2768804 TTTAGGTCCAATGTCGTTGGCCTTGAATCAACAAATTGGTACCTCCTTCATC
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATT-G-ACATCCTTCATC
* * *
2768856 TCTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTTCATC
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGACATCCTTCATC
** * * * *
2768905 TTTAAGTCTGATATCGTTGGCTTTGAATCAACACATTGGCATTCTTCTCATC
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGACA-TCCT-TCATC
* * * * * * * *
2768957 TTCAAGTCTAA-AGTAGCTGACCATAAATCAGCACATTGACATTCTTCGCATC
1 TTTAAGTCCAATA-TCGTTGGCCTTGAATCAGCACATTGACATCCTT--CATC
*
2769009 TTTAAGCCCAATATCGTTGGCCTTGAATCAGCA
1 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCA
2769042 TGTTGGCACC
Statistics
Matches: 144, Mismatches: 35, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
49 43 0.30
50 2 0.01
51 6 0.04
52 92 0.64
53 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (50 bp):
TTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGACATCCTTCATC
Found at i:2769095 original size:61 final size:61
Alignment explanation
Indices: 2768996--2769133 Score: 188
Period size: 61 Copynumber: 2.2 Consensus size: 61
2768986 AGCACATTGA
* **
2768996 CATTCTTCGCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAGCAT-GTTGGCACCTTTAT
1 CATTCTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATAG-TGGCACCTTTAT
* *
2769057 CATTCTTCTCATCTTTAAGCCCAATATCACTGGTCTTGAATCAGCATAGTGGCATCTTTAT
1 CATTCTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATAGTGGCACCTTTAT
**
2769118 CACCCCTTCTCATCTT
1 CA-TTCTTCTCATCTT
2769134 CATCATCTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 56 0.82
62 12 0.18
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.37
Consensus pattern (61 bp):
CATTCTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATAGTGGCACCTTTAT
Found at i:2769837 original size:13 final size:13
Alignment explanation
Indices: 2769819--2769844 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2769809 ACATAAATTT
2769819 TGTATCGATACAA
1 TGTATCGATACAA
2769832 TGTATCGATACAA
1 TGTATCGATACAA
2769845 AGCTACCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2769914 original size:20 final size:20
Alignment explanation
Indices: 2769869--2769923 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
2769859 CTACCAAGGA
*
2769869 AATGTATCGATATATTATTC
1 AATGTATCGATACATTATTC
2769889 AATGTATCGATACATTGA-TC
1 AATGTATCGATACATT-ATTC
* *
2769909 ATTGTATTGATACAT
1 AATGTATCGATACAT
2769924 CTGGAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:2774640 original size:166 final size:165
Alignment explanation
Indices: 2774422--2774974 Score: 420
Period size: 163 Copynumber: 3.4 Consensus size: 165
2774412 TTCCAACATC
* * ** * * * * *
2774422 AAAATTCTTCAAATATTATCATTTAACTCTTATCAAATTAGTTTTTAAAAATTCCTTTTAT-TTT
1 AAAATTCATCAAATATTATTATTTATTTCATATAAAATTAGTTTTCAAAAATTCCATTCATCTTT
* * ** * * * *
2774486 TTAAGTTATTGATTTTCATT-TGGAATTTTTCTTATTTTCAAGTTA-GGGGATTTTCTTCTCCAT
66 ATAAGTTATTCATTTT--TTCTGGAATTTTT-TTATTTTCAAAATACAGAG-TTTTCTACTACAT
*
2774549 -AAATTTTT-TTGGGAGAATTTTCATAGGTTTAGAATTTTA
127 AAAATTTTTCAT-GGAGAATTTTC-TAGGTTTAGAATTTTA
* *
2774588 AAAATTCATCAAATATTATTATTTATTTCATAAAAAATCAGTTTTCAAAAATT-CATTCATCTTT
1 AAAATTCATCAAATATTATTATTTATTTCATATAAAATTAGTTTTCAAAAATTCCATTCATCTTT
* * * **
2774652 ATGAGTTTTTCATTTTTTCTTGAATTTTTTTATTTTCAAAATACAGAGTTTTCTACTATGTAAAA
66 ATAAGTTATTCATTTTTTCTGGAATTTTTTTATTTTCAAAATACAGAGTTTTCTACTACATAAAA
* * ** *
2774717 TTTTTCATGGAGATTTTTCTTGGTTTTTAATTTTT
131 TTTTTCATGGAGAATTTTCTAGGTTTAGAATTTTA
* *
2774752 AAAATTCATAAAATATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATT-CATTCAT-TTT
1 AAAATTCATCAAATATTATTATTTATTTCATATAAAATTAGTTTTCAAAAATTCCATTCATCTTT
* * * * * * ** * **
2774815 CGTTCA-TTTTTC-TTTTTTTTTGAAATTTCCTATTTTTGAAAA-ATC-GAGTTTTCTACTATGT
66 --ATAAGTTATTCATTTTTTCTGGAATTTTTTTA-TTTTCAAAATA-CAGAGTTTTCTACTACAT
* ** *
2774876 -AAATATTTT--TGGAGAGATTTTTCTTGGTTTTTAATTTTT
127 AAAAT-TTTTCATGGAGA-A-TTTTCTAGGTTTAGAATTTTA
* *
2774915 AAAATTCATCAAATATTATTATTTATTTTATATTAAATTAGTTTT-AACAAATT-CATTCAT
1 AAAATTCATCAAATATTATTATTTATTTCATATAAAATTAGTTTTCAA-AAATTCCATTCAT
2774975 TTTTTATTTT
Statistics
Matches: 330, Mismatches: 44, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
161 6 0.02
162 6 0.02
163 116 0.35
164 106 0.32
165 36 0.11
166 60 0.18
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (165 bp):
AAAATTCATCAAATATTATTATTTATTTCATATAAAATTAGTTTTCAAAAATTCCATTCATCTTT
ATAAGTTATTCATTTTTTCTGGAATTTTTTTATTTTCAAAATACAGAGTTTTCTACTACATAAAA
TTTTTCATGGAGAATTTTCTAGGTTTAGAATTTTA
Found at i:2774921 original size:163 final size:163
Alignment explanation
Indices: 2774548--2774977 Score: 552
Period size: 163 Copynumber: 2.6 Consensus size: 163
2774538 TTCTTCTCCA
* * * ** *
2774548 TAAATTTTTTTGG-GAGAATTTTCATAGGTTTAGAATTTTAAAAATTCATCAAATATTATTATTT
1 TAAATATTTTTGGAGAGATTTTTC-TTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT
** * * *
2774612 ATTTCATAAAAAATCAGTTTTCAAAAATTCATTCATCTTTATGAGTTTTTCATTTTTTCTTGAAT
65 ATTTCATATTAAATTAGTTTTCAAAAATTCATTCAT-TTTATCAGTTTTTCATTTTTTCTTGAAA
** *
2774677 TTTTTTATTTTCAAAATACAGAGTTTTCTACTATG
129 TTTCCTATTTTAAAAATACAGAGTTTTCTACTATG
* *
2774712 TAAA-ATTTTT-CATGGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATT
1 TAAATATTTTTGGA--GAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATT
* *
2774775 TATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCGTTCA-TTTTTC-TTTTTTTTTGA
64 TATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTT--ATCAGTTTTTCATTTTTTCTTGA
2774838 AATTTCCTATTTTTGAAAAAT-C-GAGTTTTCTACTATG
127 AATTTCCTA-TTTT-AAAAATACAGAGTTTTCTACTATG
2774875 TAAATATTTTTGGAGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTA
1 TAAATATTTTTGGAGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTA
*
2774940 TTTTATATTAAATTAGTTTT-AACAAATTCATTCATTTT
66 TTTCATATTAAATTAGTTTTCAA-AAATTCATTCATTTT
2774978 TTATTTTTTT
Statistics
Matches: 235, Mismatches: 21, Indels: 21
0.85 0.08 0.08
Matches are distributed among these distances:
162 2 0.01
163 127 0.54
164 89 0.38
165 17 0.07
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (163 bp):
TAAATATTTTTGGAGAGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTA
TTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTTATCAGTTTTTCATTTTTTCTTGAAATT
TCCTATTTTAAAAATACAGAGTTTTCTACTATG
Found at i:2775194 original size:14 final size:13
Alignment explanation
Indices: 2775174--2775218 Score: 65
Period size: 14 Copynumber: 3.5 Consensus size: 13
2775164 GAAACTCAGC
2775174 AAAAAAAAATAAG
1 AAAAAAAAATAAG
*
2775187 -AGAAAAAATAAG
1 AAAAAAAAATAAG
2775199 AAAGAAAAAATAAG
1 AAA-AAAAAATAAG
2775213 AAAAAA
1 AAAAAA
2775219 TAAGAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 11 0.39
13 4 0.14
14 13 0.46
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (13 bp):
AAAAAAAAATAAG
Found at i:2775206 original size:24 final size:24
Alignment explanation
Indices: 2775177--2775225 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
2775167 ACTCAGCAAA
2775177 AAAAAATAAGAGAAAAAATAAGAAAG
1 AAAAAAT-A-AGAAAAAATAAGAAAG
2775203 AAAAAATAAGAAAAAATAAGAAA
1 AAAAAATAAGAAAAAATAAGAAA
2775226 AATAGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 15 0.65
25 1 0.04
26 7 0.30
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (24 bp):
AAAAAATAAGAAAAAATAAGAAAG
Found at i:2775240 original size:10 final size:10
Alignment explanation
Indices: 2775200--2775239 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
2775190 AAAAATAAGA
2775200 AAGAAAAAAT
1 AAGAAAAAAT
2775210 AAGAAAAAAT
1 AAGAAAAAAT
2775220 AAG-AAAAAT
1 AAGAAAAAAT
*
2775229 AGGAAAAAAT
1 AAGAAAAAAT
2775239 A
1 A
2775240 GTTAAGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (10 bp):
AAGAAAAAAT
Found at i:2776183 original size:145 final size:140
Alignment explanation
Indices: 2775971--2776351 Score: 401
Period size: 141 Copynumber: 2.7 Consensus size: 140
2775961 TTTTAAATCA
* * * * *
2775971 TTTTCAAGGCTTTTAATATTCCTATGGATATCTTAGGGGTATA-AAAGTC-TCTAAAACTTTTCG
1 TTTTCAA-GATTTTAATATTCCTATGGTTTTCATAGGGGTATAGAAA-TCTTC-AAAACTTTTCA
*
2776034 TATCTTTTCAAG-TCTCCATTAAGGTACGAAATAAATTTTCTTAAAAATAAAAATAAAATAAAAT
63 TATCTTTT-AAGTTCTCCATTAAGGTACGAAATAAATATT-TTAAAAATAAAAAT---ATAAAAT
2776098 AAAAATTATT-ACTTAAT
123 AAAAATTATTGACTTAAT
2776115 TTTTCAAGATTTCTAATATTCCTATGGTTTTCCATAGGGGTATAGAAATCTTCAAAACTTTTCAT
1 TTTTCAAGATTT-TAATATTCCTATGGTTTT-CATAGGGGTATAGAAATCTTCAAAACTTTTCAT
** * * * ** * * **
2776180 ATCTTTTTGGTTCTCTATTAAGGTATGAAATGAATATTTTGGAAATTAAAATTTTGAATAAAAAT
64 ATCTTTTAAGTTCTCCATTAAGGTACGAAATAAATATTTTAAAAATAAAAATATAAAATAAAAAT
*
2776245 TATTGTCTTAAT
129 TATTGACTTAAT
* * * *
2776257 TTTTCAAGATTTTTATATTCTTATGGTTTTTCGTAGGGGTATAGAAATCTTCAAAACTTTTCCTA
1 TTTTCAAGATTTTAATATTCCTATGG-TTTTCATAGGGGTATAGAAATCTTCAAAACTTTTCATA
** * *
2776322 TCTTTTTGGTTCTCCATTAAAGTATGAAAT
65 TCTTTTAAGTTCTCCATTAAGGTACGAAAT
2776352 GAGATTTTGA
Statistics
Matches: 206, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
141 86 0.42
142 22 0.11
143 4 0.02
144 35 0.17
145 54 0.26
146 5 0.02
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (140 bp):
TTTTCAAGATTTTAATATTCCTATGGTTTTCATAGGGGTATAGAAATCTTCAAAACTTTTCATAT
CTTTTAAGTTCTCCATTAAGGTACGAAATAAATATTTTAAAAATAAAAATATAAAATAAAAATTA
TTGACTTAAT
Found at i:2776303 original size:141 final size:140
Alignment explanation
Indices: 2776095--2776366 Score: 429
Period size: 141 Copynumber: 1.9 Consensus size: 140
2776085 AATAAAATAA
2776095 AATAAAAATTATTACTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCCATAGGGGTATAG
1 AATAAAAATTATTACTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCCATAGGGGTATAG
* * * *
2776160 AAATCTTCAAAACTTTTCATATCTTTTTGGTTCTCTATTAAGGTATGAAATGAATATTTTGGAAA
66 AAATCTTCAAAACTTTTCATATCTTTTTGGTTCTCCATTAAAGTATGAAATG-AGATTTTGAAAA
2776225 TTAAAATTTTG
130 TTAAAATTTTG
* * * * *
2776236 AATAAAAATTATTGTCTTAATTTTTCAAGATTT-TTATATTCTTATGGTTTTTCGTAGGGGTATA
1 AATAAAAATTATT-ACTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCCATAGGGGTATA
*
2776300 GAAATCTTCAAAACTTTTCCTATCTTTTTGGTTCTCCATTAAAGTATGAAATGAGATTTTGAAAA
65 GAAATCTTCAAAACTTTTCATATCTTTTTGGTTCTCCATTAAAGTATGAAATGAGATTTTGAAAA
2776365 TT
130 TT
2776367 TACAACATAT
Statistics
Matches: 120, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
140 12 0.10
141 90 0.75
142 18 0.15
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (140 bp):
AATAAAAATTATTACTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCCATAGGGGTATAG
AAATCTTCAAAACTTTTCATATCTTTTTGGTTCTCCATTAAAGTATGAAATGAGATTTTGAAAAT
TAAAATTTTG
Found at i:2784694 original size:19 final size:20
Alignment explanation
Indices: 2784651--2784703 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
2784641 CACACCCAGA
* *
2784651 TGTATCGATACATGCTGCTT
1 TGTATCAATACATGCTGCAT
*
2784671 TGTATCAATACATG-TTCAT
1 TGTATCAATACATGCTGCAT
2784690 TGTATCAATACATG
1 TGTATCAATACATG
2784704 GACAAATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCAATACATGCTGCAT
Found at i:2784714 original size:21 final size:19
Alignment explanation
Indices: 2784670--2784724 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
2784660 ACATGCTGCT
**
2784670 TTGTATCAATACATGTTCA
1 TTGTATCAATACATGGACA
2784689 TTGTATCAATACATGGACAAA
1 TTGTATCAATACATGGAC--A
*
2784710 TTGTATCGATACATG
1 TTGTATCAATACATG
2784725 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 16 0.52
21 15 0.48
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (19 bp):
TTGTATCAATACATGGACA
Found at i:2784779 original size:20 final size:20
Alignment explanation
Indices: 2784754--2784806 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2784744 TATCACTATT
*
2784754 TGTATCGATACATGATA-CAA
1 TGTATCGATACATGA-AGAAA
*
2784774 TGTATCGATGCATGAAGAAA
1 TGTATCGATACATGAAGAAA
2784794 TGTATCGATACAT
1 TGTATCGATACAT
2784807 AGCTTGTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAA
Found at i:2792465 original size:13 final size:13
Alignment explanation
Indices: 2792447--2792472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2792437 GTAGCTAAAC
2792447 TTGTATCGATACA
1 TTGTATCGATACA
2792460 TTGTATCGATACA
1 TTGTATCGATACA
2792473 CCATAAAACG
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):
TTGTATCGATACA
Found at i:2796132 original size:198 final size:191
Alignment explanation
Indices: 2795786--2796169 Score: 517
Period size: 198 Copynumber: 2.0 Consensus size: 191
2795776 GCACAAGCAA
** *
2795786 TCAAAATTTAATTACTAATGGACAGCAAACTTCTTATTCTGTAGATTCATATAAAATGAAAAAAA
1 TCAAAATTTAATTACTAATGGACAGCAAACTTCTTATTCCATAGATTAATATAAAATGAAAAAAA
* *
2795851 ACAAAAAGAAATGCAGCACTTAATTATGAAAATAAACCTTTAATTAATACCAAAACAAGACAAAC
66 AAAAAAAGAAATGCAGCACTTAATTATGAAAATAAACCCTTAATTAATACCAAAACAAGACAAAC
* *
2795916 ACTAGGACCAAAATTGCAAACAAAGAA-GTA-ATATTGAGGATTAAAAAGGAAAATCAATC
131 ACTAGGACAAAAATTGCAAACAAAGAATGTATATATTGAAGATTAAAAAGGAAAATCAATC
*
2795975 TCAAAATTTAATTTAC-AAGTGGATAGCAAACTTCTTATTCCATAGATTAATATAAAATGAAAGA
1 TCAAAATTTAA-TTACTAA-TGGACAGCAAACTTCTTATTCCATAGATTAATATAAAAT----G-
2796039 AATAAAAATTAAAAAAAAGAAATGCAGCACTTAATTATGAAAAT-AACCCTTAATTAATACCAAA
59 -A-AAAAA--AAAAAAAAGAAATGCAGCACTTAATTATGAAAATAAACCCTTAATTAATACCAAA
* * * *
2796103 CCAAGACAAATACTAGG-CAAGAAATTGCAAACAAAGAATTTATATATTGAAGATTCAAAAGGAA
120 ACAAGACAAACACTAGGACAA-AAATTGCAAACAAAGAATGTATATATTGAAGATTAAAAAGGAA
2796167 AAT
184 AAT
2796170 TATTCTGCTT
Statistics
Matches: 169, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
189 13 0.08
190 39 0.23
194 1 0.01
196 1 0.01
197 7 0.04
198 51 0.30
199 35 0.21
200 22 0.13
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.25
Consensus pattern (191 bp):
TCAAAATTTAATTACTAATGGACAGCAAACTTCTTATTCCATAGATTAATATAAAATGAAAAAAA
AAAAAAAGAAATGCAGCACTTAATTATGAAAATAAACCCTTAATTAATACCAAAACAAGACAAAC
ACTAGGACAAAAATTGCAAACAAAGAATGTATATATTGAAGATTAAAAAGGAAAATCAATC
Found at i:2798579 original size:15 final size:16
Alignment explanation
Indices: 2798559--2798599 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
2798549 GTTATATAAT
2798559 TATTTAATTTATT-AA
1 TATTTAATTTATTAAA
*
2798574 TATTTATTTTATTAAA
1 TATTTAATTTATTAAA
*
2798590 TAATTAATTT
1 TATTTAATTT
2798600 TAATTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTAATTTATTAAA
Found at i:2798605 original size:27 final size:27
Alignment explanation
Indices: 2798575--2798662 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 27
2798565 ATTTATTAAT
2798575 ATTTATTTTATTAAATAATTAATTTTA
1 ATTTATTTTATTAAATAATTAATTTTA
* *
2798602 ATTTATAAAATTT-TTGAATAAATTATTTATTA
1 ATTTAT----TTTATTAAAT-AATTAATT-TTA
*
2798634 CTTT-TTTTATTAAATAATT-ATTTTA
1 ATTTATTTTATTAAATAATTAATTTTA
2798659 ATTT
1 ATTT
2798663 TAAATTGAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
25 6 0.12
26 2 0.04
27 13 0.27
28 5 0.10
30 5 0.10
31 11 0.23
32 6 0.12
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
ATTTATTTTATTAAATAATTAATTTTA
Found at i:2798606 original size:22 final size:23
Alignment explanation
Indices: 2798569--2798612 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2798559 TATTTAATTT
* *
2798569 ATTAATATTTATTTTATTAAATA
1 ATTAATATTTAATTTATAAAATA
2798592 ATTAAT-TTTAATTTATAAAAT
1 ATTAATATTTAATTTATAAAAT
2798613 TTTTGAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAATATTTAATTTATAAAATA
Found at i:2798699 original size:19 final size:18
Alignment explanation
Indices: 2798684--2798725 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
2798674 TAAAATTATC
2798684 TTTA-AAAAATTTAATTT
1 TTTACAAAAATTTAATTT
*
2798701 TTTATCAAAAATTTAA-AT
1 TTTA-CAAAAATTTAATTT
2798719 TTTACAA
1 TTTACAA
2798726 TATTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 5 0.23
19 10 0.45
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTACAAAAATTTAATTT
Found at i:2804445 original size:13 final size:13
Alignment explanation
Indices: 2804427--2804465 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2804417 ACATCATTCT
2804427 TTGTATCGATACA
1 TTGTATCGATACA
2804440 TTGTATCGATACA
1 TTGTATCGATACA
*
2804453 CTGTATCGATACA
1 TTGTATCGATACA
2804466 GGAGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2806251 original size:13 final size:13
Alignment explanation
Indices: 2806233--2806258 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2806223 TACACCAAGT
2806233 ATGTATCGATACA
1 ATGTATCGATACA
2806246 ATGTATCGATACA
1 ATGTATCGATACA
2806259 CAAAAAAAAT
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:2808514 original size:21 final size:21
Alignment explanation
Indices: 2808490--2808538 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2808480 TTGCAAGTTG
2808490 AAATAAAGAAGTT-GCTAATG-A
1 AAATAAAG-AGTTAGCTAA-GAA
*
2808511 AAATAACGAGTTAGCTAAGAA
1 AAATAAAGAGTTAGCTAAGAA
2808532 AAATAAA
1 AAATAAA
2808539 AACTTGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.20
Consensus pattern (21 bp):
AAATAAAGAGTTAGCTAAGAA
Found at i:2810356 original size:15 final size:15
Alignment explanation
Indices: 2810336--2810366 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2810326 TAAAAATGTC
*
2810336 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2810351 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2810366 C
1 C
2810367 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2812454 original size:13 final size:13
Alignment explanation
Indices: 2812436--2812474 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2812426 ACATTTTTCT
2812436 TTGTATCGATACA
1 TTGTATCGATACA
2812449 TTGTATCGATACA
1 TTGTATCGATACA
*
2812462 CTGTATCGATACA
1 TTGTATCGATACA
2812475 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2815043 original size:13 final size:13
Alignment explanation
Indices: 2815025--2815050 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2815015 TACACCAAGT
2815025 ATGTATCGATACA
1 ATGTATCGATACA
2815038 ATGTATCGATACA
1 ATGTATCGATACA
2815051 CAAAAAAATT
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:2817009 original size:32 final size:33
Alignment explanation
Indices: 2816967--2817030 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2816957 TAGCCAAACT
**
2816967 TGTATCGATACACC-AAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
*
2816999 TGTATTGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
2817031 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:2826115 original size:10 final size:9
Alignment explanation
Indices: 2826061--2826145 Score: 71
Period size: 9 Copynumber: 8.9 Consensus size: 9
2826051 CATCCTCCGC
2826061 CAAAAAAAA
1 CAAAAAAAA
2826070 CATTAAATAAAA
1 CA--AAA-AAAA
*
2826082 CAACAAAAA
1 CAAAAAAAA
**
2826091 CAAAAACCA
1 CAAAAAAAA
2826100 CAAAAAAAA
1 CAAAAAAAA
*
2826109 TACAAAAAAA
1 CA-AAAAAAA
* *
2826119 TAAAAAGAA
1 CAAAAAAAA
2826128 CAAAAAAAA
1 CAAAAAAAA
2826137 CAACAAAAA
1 CAA-AAAAA
2826146 GGGTCCGGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
9 36 0.59
10 16 0.26
11 3 0.05
12 6 0.10
ACGTcount: A:0.79, C:0.14, G:0.01, T:0.06
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:2826117 original size:28 final size:29
Alignment explanation
Indices: 2826080--2826145 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
2826070 CATTAAATAA
*
2826080 AACAACAAAAACAAAAACCACAAAAAAAA-
1 AACAA-AAAAACAAAAACAACAAAAAAAAC
* * *
2826109 TACAAAAAAATAAAAAGAACAAAAAAAAC
1 AACAAAAAAACAAAAACAACAAAAAAAAC
2826138 AACAAAAA
1 AACAAAAA
2826146 GGGTCCGGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.80, C:0.15, G:0.02, T:0.03
Consensus pattern (29 bp):
AACAAAAAAACAAAAACAACAAAAAAAAC
Found at i:2826135 original size:12 final size:12
Alignment explanation
Indices: 2826061--2826145 Score: 53
Period size: 12 Copynumber: 6.5 Consensus size: 12
2826051 CATCCTCCGC
*
2826061 CAAAAAAAACAT
1 CAAAAAAAACAA
* *
2826073 TAAATAAAACAA
1 CAAAAAAAACAA
*
2826085 CAAAAACAAAAACCA
1 C--AAA-AAAAACAA
2826100 CAAAAAAAATACAAA
1 C-AAAAAAA-AC-AA
* *
2826115 AAAATAAAAAGAA
1 CAAA-AAAAACAA
2826128 CAAAAAAAACAA
1 CAAAAAAAACAA
2826140 CAAAAA
1 CAAAAA
2826146 GGGTCCGGAT
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
12 22 0.39
13 9 0.16
14 13 0.23
15 12 0.21
ACGTcount: A:0.79, C:0.14, G:0.01, T:0.06
Consensus pattern (12 bp):
CAAAAAAAACAA
Found at i:2827661 original size:34 final size:32
Alignment explanation
Indices: 2827623--2827707 Score: 89
Period size: 34 Copynumber: 2.6 Consensus size: 32
2827613 TTAAGTTGAT
* *
2827623 AACTCCGTGGCACGTTTTTCTTTTCAAAGCCCAC
1 AACTCCGTGGCACCTTTTGCTTTT--AAGCCCAC
* * *
2827657 AACTCCATGGCACCTTTTGCTTTTAAGTCCAT
1 AACTCCGTGGCACCTTTTGCTTTTAAGCCCAC
*
2827689 AACTCTGTGGCACCCTTTT
1 AACTCCGTGGCA-CCTTTT
2827708 AAGCCTATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 16 0.37
33 6 0.14
34 21 0.49
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.35
Consensus pattern (32 bp):
AACTCCGTGGCACCTTTTGCTTTTAAGCCCAC
Found at i:2827738 original size:19 final size:19
Alignment explanation
Indices: 2827701--2827740 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2827691 CTCTGTGGCA
*
2827701 CCCTTTTAAGCCTATAACT
1 CCCTTTTAAGCCTACAACT
2827720 CCCTTTTAAGTCC-ACAACT
1 CCCTTTTAAG-CCTACAACT
2827739 CC
1 CC
2827741 GTAGCACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.25, C:0.38, G:0.05, T:0.33
Consensus pattern (19 bp):
CCCTTTTAAGCCTACAACT
Found at i:2827804 original size:33 final size:34
Alignment explanation
Indices: 2827731--2827827 Score: 142
Period size: 33 Copynumber: 2.8 Consensus size: 34
2827721 CCTTTTAAGT
*
2827731 CCACAACTCCGTAGCACCTTTTTTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACC--TTTTTCTTTTCAAAGC
* *
2827767 CCACAACTCTGTGGCACCTTTTT-TTTTCAAAGG
1 CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGC
2827800 CCACAACTCCGTGGCACCTTTTTCTTTT
1 CCACAACTCCGTGGCACCTTTTTCTTTT
2827828 AAGTCCACAC
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
33 31 0.55
34 9 0.16
36 16 0.29
ACGTcount: A:0.20, C:0.32, G:0.11, T:0.37
Consensus pattern (34 bp):
CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGC
Found at i:2827913 original size:32 final size:33
Alignment explanation
Indices: 2827849--2827913 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
2827839 AGCTGGTGGT
* *
2827849 ACCCTTTCTTAAAGCCCACTCAAGTCGGTGGCA
1 ACCCTTTCTGAAAGCCCACTCAAGTCGATGGCA
*
2827882 ACCCTTTC-GAAAGCCCACAT-AAGTTGATGGCA
1 ACCCTTTCTGAAAGCCCAC-TCAAGTCGATGGCA
2827914 TCTCCTTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (33 bp):
ACCCTTTCTGAAAGCCCACTCAAGTCGATGGCA
Found at i:2827983 original size:43 final size:44
Alignment explanation
Indices: 2827917--2828001 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 44
2827907 GATGGCATCT
*
2827917 CCTTCTAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGGGA
1 CCTTCTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGGA
* *
2827961 CCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGG
1 CCTTCTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGG
2828002 CGCCCTTGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 34 0.89
44 4 0.11
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (44 bp):
CCTTCTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGGA
Found at i:2828212 original size:49 final size:49
Alignment explanation
Indices: 2827962--2828258 Score: 234
Period size: 49 Copynumber: 5.9 Consensus size: 49
2827952 ACATTGGGAC
* * *
2827962 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCCTTGTCAAT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACCTT-T--AT
* * * * *
2828015 TTTTAAGCCCAATATTGCTGGCCTTGAATCAGCATATTAGCATCTTCAAT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TAT
* * * * * * * *
2828065 ATTCCTAAGCCTAACATCACTGGCCTTGAATTAGCACATTGGCACCATCAT
1 CTT--TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * *
2828116 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTAT
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
**** * *
2828165 CTTTAAGTTTGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAA
1 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * *
2828214 CATTCCTAAACCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA
1 C-TT--TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
2828259 TTCTTCTCAT
Statistics
Matches: 195, Mismatches: 44, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
49 81 0.42
50 6 0.03
51 4 0.02
52 68 0.35
53 36 0.18
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (49 bp):
CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
Found at i:2828219 original size:150 final size:153
Alignment explanation
Indices: 2827962--2828258 Score: 393
Period size: 150 Copynumber: 2.0 Consensus size: 153
2827952 ACATTGGGAC
* * * *
2827962 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCCTTGTCAATTTTTAAGCCCAA
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCGACCTTGT-AATCTTTAAGCCCAA
* * * * *
2828027 TATTGCTGGCCTTGAATCAGCATATTAGCATCTTCAATATTCCTAAGCCTAACATCACTGGCCTT
65 TATCGCTGGCCTTGAATCAGCATATTAGCATCTTCAACATTCCTAAACCCAACATCACTAGCCTT
*
2828092 GAATTAGCACATTGGCACCATCAT
130 GAATCAGCACATTGGCACCATCAT
****
2828116 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGC-ACCTT-T-ATCTTTAAGTTTGAT
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCGACCTTGTAATCTTTAAGCCCAAT
* * ** *
2828178 ATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAACCCAATGTCGCTAGCCTTG
66 ATCGCTGGCCTTGAATCAGCATATTAGCATCTTCAACATTCCTAAACCCAACATCACTAGCCTTG
2828243 AATCAGCACATTGGCA
131 AATCAGCACATTGGCA
2828259 TTCTTCTCAT
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
150 80 0.65
152 1 0.01
153 4 0.03
154 39 0.31
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (153 bp):
CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCGACCTTGTAATCTTTAAGCCCAAT
ATCGCTGGCCTTGAATCAGCATATTAGCATCTTCAACATTCCTAAACCCAACATCACTAGCCTTG
AATCAGCACATTGGCACCATCAT
Found at i:2828286 original size:52 final size:51
Alignment explanation
Indices: 2827966--2828323 Score: 223
Period size: 52 Copynumber: 7.0 Consensus size: 51
2827956 TGGGACCTTT
* ** * * *
2827966 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCCTTGTCAATTTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-ATCTTCTC-ATCTTC
* * * * * * *
2828019 AAGCCCAATATTGCTGGCCTTGAATCAGCATATTAGCATCTTC-AATATTCC
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCTCATCTT-C
** * * *
2828070 TAAG-CCTAACATCACTGGCCTTGAATTAGCACATTGGCA-C--CATCATCTTT
1 -AAGTCC-AATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTC-TCATCTTC
* * *
2828120 AAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTT-T-ATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCTCATCTTC
*** * * *
2828169 AAGTTTGATATCGCTGGCCTTGAATCAGCATATTGGCATCTT-TAACAT-TCC
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCT--CATCTTC
** *
2828220 TAAACCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTC
1 -AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTCTCATCTTC
* * * * *
2828273 AAGTCTAAGGTCGCT-GACTGTGAATCAGCACATTGACATTCTTCGCATCTT
1 AAGTCCAATGTCGCTGGCCT-TGAATCAGCACATTGGCA-TCTTCTCATCTT
2828324 TGAGCCCAAT
Statistics
Matches: 241, Mismatches: 47, Indels: 35
0.75 0.15 0.11
Matches are distributed among these distances:
49 75 0.31
50 8 0.03
51 11 0.05
52 107 0.44
53 39 0.16
54 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (51 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCTCATCTTC
Found at i:2828326 original size:150 final size:150
Alignment explanation
Indices: 2828026--2828307 Score: 325
Period size: 150 Copynumber: 1.9 Consensus size: 150
2828016 TTTAAGCCCA
* * * * *
2828026 ATATTGCTGGCCTTGAATCAGCATATTAGCATCTTCAATATTCCTAAGCCTAACATCACTGGCCT
1 ATATCGCTGGCCTTGAATCAGCATATTAGCATCTTCAACATTCCTAAACCCAACATCACTAGCCT
* * * *
2828091 TGAATTAGCACATTGGCACCATCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGG
66 TGAATCAGCACATTGGCACCATCATCTTCAAGTCCAAGGTCACTGGACTTGAATCAGCACATTGG
* ** *
2828156 CACCTTTATCTTTAAGTTTG
131 CACATTTATCTGCAACTTTG
* * ** *
2828176 ATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAACCCAATGTCGCTAGCCT
1 ATATCGCTGGCCTTGAATCAGCATATTAGCATCTTCAACATTCCTAAACCCAACATCACTAGCCT
* *
2828241 TGAATCAGCACATTGGCATTCTTC-TCATCTTCAAGTCTAAGGTCGCT-GACTGTGAATCAGCAC
66 TGAATCAGCACATTGGCA--C--CATCATCTTCAAGTCCAAGGTCACTGGACT-TGAATCAGCAC
2828304 ATTG
126 ATTG
2828308 ACATTCTTCG
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
150 72 0.65
152 4 0.04
153 34 0.31
154 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (150 bp):
ATATCGCTGGCCTTGAATCAGCATATTAGCATCTTCAACATTCCTAAACCCAACATCACTAGCCT
TGAATCAGCACATTGGCACCATCATCTTCAAGTCCAAGGTCACTGGACTTGAATCAGCACATTGG
CACATTTATCTGCAACTTTG
Found at i:2828445 original size:61 final size:61
Alignment explanation
Indices: 2828312--2828445 Score: 144
Period size: 61 Copynumber: 2.2 Consensus size: 61
2828302 ACATTGACAT
* * * * * *
2828312 TCTTCGCATCTTTGAGCCCAATATCACTGGCTTTAAATTAGCACGTTGGCACCTTTATCAT
1 TCTTCTCATCTTTAAGCCCAATATCACTGGCTCTAAATCAGCACATTGGCACCTTTATCAC
* * * * * *
2828373 TCTTTTTATCTTTAAGCCCAATATCGCTGG-TCCTGAATCAGCATATTGGCATCTTTATCAC
1 TCTTCTCATCTTTAAGCCCAATATCACTGGCT-CTAAATCAGCACATTGGCACCTTTATCAC
2828434 TCTTCTCATCTT
1 TCTTCTCATCTT
2828446 CATAATCTTT
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
60 1 0.02
61 57 0.98
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.40
Consensus pattern (61 bp):
TCTTCTCATCTTTAAGCCCAATATCACTGGCTCTAAATCAGCACATTGGCACCTTTATCAC
Found at i:2830424 original size:13 final size:13
Alignment explanation
Indices: 2830406--2830431 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2830396 TACAGCAAGT
2830406 ATGTATCGATACA
1 ATGTATCGATACA
2830419 ATGTATCGATACA
1 ATGTATCGATACA
2830432 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2832683 original size:21 final size:21
Alignment explanation
Indices: 2832650--2832694 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2832640 TTGCAAGTTG
*
2832650 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2832672 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2832692 AAA
1 AAA
2832695 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2834518 original size:15 final size:15
Alignment explanation
Indices: 2834498--2834528 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2834488 TAAAAATGTC
*
2834498 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2834513 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2834528 C
1 C
2834529 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2836625 original size:13 final size:13
Alignment explanation
Indices: 2836607--2836645 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2836597 ACATTTTTCT
2836607 TTGTATCGATACA
1 TTGTATCGATACA
2836620 TTGTATCGATACA
1 TTGTATCGATACA
2836633 TTGTATCGATACA
1 TTGTATCGATACA
2836646 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2839210 original size:13 final size:13
Alignment explanation
Indices: 2839192--2839217 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2839182 TACAGCAAGT
2839192 ATGTATCGATACA
1 ATGTATCGATACA
2839205 ATGTATCGATACA
1 ATGTATCGATACA
2839218 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2842718 original size:27 final size:27
Alignment explanation
Indices: 2842679--2842738 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
2842669 ATATCAAAAT
* *
2842679 TTATTCATTGGGGATACTCCAACCCCA
1 TTATTTATCGGGGATACTCCAACCCCA
2842706 TTATTTATCGGGGATACTCCAACCCCA
1 TTATTTATCGGGGATACTCCAACCCCA
2842733 TT-TTTA
1 TTATTTA
2842739 AACTTGTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (27 bp):
TTATTTATCGGGGATACTCCAACCCCA
Found at i:2847364 original size:41 final size:41
Alignment explanation
Indices: 2847319--2847400 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
2847309 TCCAAGAGTT
2847319 AGAGCAATCCCTTCAAGTTTATCAAGATGAATCAATAAGGC
1 AGAGCAATCCCTTCAAGTTTATCAAGATGAATCAATAAGGC
2847360 AGAGCAATCCCTTCAAGTTTATCAAGATGAATCAATAAGGC
1 AGAGCAATCCCTTCAAGTTTATCAAGATGAATCAATAAGGC
2847401 CTTCCGAGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (41 bp):
AGAGCAATCCCTTCAAGTTTATCAAGATGAATCAATAAGGC
Found at i:2855141 original size:17 final size:17
Alignment explanation
Indices: 2855121--2855209 Score: 89
Period size: 16 Copynumber: 5.4 Consensus size: 17
2855111 GCATCCTCTG
2855121 CAAAAAAACAACAAAAA
1 CAAAAAAACAACAAAAA
*
2855138 CAAAAACACAA-AAAAA
1 CAAAAAAACAACAAAAA
* *
2855154 TATAAAAATACAA-AAATA
1 CA-AAAAA-ACAACAAAAA
2855172 C-AAAAAA-AACAAAAA
1 CAAAAAAACAACAAAAA
2855187 CAAAAAAA-AACAAACAA
1 CAAAAAAACAACAAA-AA
2855204 CAAAAA
1 CAAAAA
2855210 GGGTTCGGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
14 2 0.03
15 6 0.10
16 23 0.38
17 22 0.36
18 8 0.13
ACGTcount: A:0.81, C:0.15, G:0.00, T:0.04
Consensus pattern (17 bp):
CAAAAAAACAACAAAAA
Found at i:2855142 original size:16 final size:16
Alignment explanation
Indices: 2855123--2855209 Score: 88
Period size: 17 Copynumber: 5.3 Consensus size: 16
2855113 ATCCTCTGCA
2855123 AAAAAACAACAAAAAC
1 AAAAAACAACAAAAAC
* *
2855139 AAAAACACAAAAAAATAT
1 AAAAA-ACAACAAAA-AC
*
2855157 AAAAATACAA-AAATAC
1 AAAAA-ACAACAAAAAC
2855173 AAAAAA-AACAAAAAC
1 AAAAAACAACAAAAAC
*
2855188 AAAAAAAAACAAACAAC
1 AAAAAACAACAAA-AAC
2855205 AAAAA
1 AAAAA
2855210 GGGTTCGGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
14 2 0.03
15 12 0.20
16 17 0.28
17 19 0.32
18 10 0.17
ACGTcount: A:0.82, C:0.14, G:0.00, T:0.05
Consensus pattern (16 bp):
AAAAAACAACAAAAAC
Found at i:2855148 original size:8 final size:8
Alignment explanation
Indices: 2855124--2855209 Score: 50
Period size: 8 Copynumber: 10.5 Consensus size: 8
2855114 TCCTCTGCAA
2855124 AAAAACAAC
1 AAAAAC-AC
2855133 AAAAACA-
1 AAAAACAC
*
2855140 AAAACACAA
1 AAAA-ACAC
* *
2855149 AAAAATAT
1 AAAAACAC
*
2855157 AAAAATAC
1 AAAAACAC
*
2855165 AAAAATAC
1 AAAAACAC
*
2855173 AAAAAAAAC
1 -AAAAACAC
*
2855182 AAAAACAA
1 AAAAACAC
*
2855190 AAAAAAAC
1 AAAAACAC
2855198 AAACAACA-
1 AAA-AACAC
2855206 AAAA
1 AAAA
2855210 GGGTTCGGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
7 5 0.08
8 39 0.61
9 20 0.31
ACGTcount: A:0.81, C:0.14, G:0.00, T:0.05
Consensus pattern (8 bp):
AAAAACAC
Found at i:2856687 original size:31 final size:31
Alignment explanation
Indices: 2856649--2856737 Score: 133
Period size: 31 Copynumber: 2.9 Consensus size: 31
2856639 ACATTCCTCA
*
2856649 CCTTCCAAAGCCCACAAGTTAATGGCAGCAT
1 CCTTCCAAAGCCCACAAGTCAATGGCAGCAT
* *
2856680 CCTTCCAAAGCCCACAAGTCAGTGGTAGCAT
1 CCTTCCAAAGCCCACAAGTCAATGGCAGCAT
* *
2856711 CCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCTTCCAAAGCCCACAAGTCAATGGCA
2856738 CCTTTTTAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (31 bp):
CCTTCCAAAGCCCACAAGTCAATGGCAGCAT
Found at i:2856762 original size:28 final size:30
Alignment explanation
Indices: 2856685--2856809 Score: 111
Period size: 28 Copynumber: 4.2 Consensus size: 30
2856675 AGCATCCTTC
*
2856685 CAAAGCCCACAA-GTCAGTGGTAGCATCC-TTT
1 CAAAGCCCACAAGGTCAGT-G--GCACCCTTTT
2856716 CAAAGCCCACAA-GTCAGTGGCA-CCTTTT
1 CAAAGCCCACAAGGTCAGTGGCACCCTTTT
* *
2856744 TAAAGCCCACAAGGT-AGTGGTACCCTTTT
1 CAAAGCCCACAAGGTCAGTGGCACCCTTTT
* *
2856773 CAAAGCCCTCAA-GTC-GATGGCAACTCTTTT
1 CAAAGCCCACAAGGTCAG-TGGC-ACCCTTTT
2856803 CAAAGCC
1 CAAAGCC
2856810 GACATAAATT
Statistics
Matches: 82, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
27 2 0.02
28 26 0.32
29 21 0.26
30 15 0.18
31 18 0.22
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (30 bp):
CAAAGCCCACAAGGTCAGTGGCACCCTTTT
Found at i:2856765 original size:59 final size:59
Alignment explanation
Indices: 2856654--2856809 Score: 160
Period size: 59 Copynumber: 2.6 Consensus size: 59
2856644 CCTCACCTTC
** * * *
2856654 CAAAGCCCACAAGTTAATGGCAGCATCCTTCCAAAGCCCACAAGTCAGTGGTAGCATCC-TTT
1 CAAAGCCCACAAGTCGATGGCAAC-TCTTTTCAAAGCCCACAAGTCAGTGGTA-C--CCTTTT
*
2856716 CAAAGCCCACAAGTC-AGTGGC-AC-CTTTTTAAAGCCCACAAGGT-AGTGGTACCCTTTT
1 CAAAGCCCACAAGTCGA-TGGCAACTCTTTTCAAAGCCCACAA-GTCAGTGGTACCCTTTT
*
2856773 CAAAGCCCTCAAGTCGATGGCAACTCTTTTCAAAGCC
1 CAAAGCCCACAAGTCGATGGCAACTCTTTTCAAAGCC
2856810 GACATAAATT
Statistics
Matches: 81, Mismatches: 7, Indels: 15
0.79 0.07 0.15
Matches are distributed among these distances:
56 2 0.02
57 21 0.26
58 4 0.05
59 32 0.40
60 2 0.02
61 2 0.02
62 18 0.22
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (59 bp):
CAAAGCCCACAAGTCGATGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGTACCCTTTT
Found at i:2857105 original size:49 final size:49
Alignment explanation
Indices: 2856994--2857130 Score: 175
Period size: 49 Copynumber: 2.7 Consensus size: 49
2856984 CTCCTTTTAC
* * *
2856994 GTCCAATGTCGCTGGCCTTGAATCAACAAATTGGTACCTCCTTCATCTCTAA
1 GTCCAATATCGCTGGCCTTGAATCAACACATTGG---CACCTTCATCTCTAA
* *
2857046 GTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 GTCCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTCTAA
** *
2857095 GTCTGATATCGTTGGCCTTGAATCAACACATTGGCA
1 GTCCAATATCGCTGGCCTTGAATCAACACATTGGCA
2857131 TTCTTCTCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
49 45 0.59
52 31 0.41
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (49 bp):
GTCCAATATCGCTGGCCTTGAATCAACACATTGGCACCTTCATCTCTAA
Found at i:2857141 original size:101 final size:103
Alignment explanation
Indices: 2856996--2857223 Score: 232
Period size: 101 Copynumber: 2.2 Consensus size: 103
2856986 CCTTTTACGT
* * * *
2856996 CCAATGTCGCTGGCCTTGAATCAACAAATTGGTACCTCCTTCATC-TCTAAGTCCAATA-TCGCT
1 CCAATATCGTTGGCCTTGAATCAACAAATTGGCACCTCCTTCATCTTC-AAGTCCAA-AGTAGCT
* * * * *
2857059 GGCCTTGAATCAGCACATTGGCA-CCTT-CATCTTTAAGT
64 GACCATAAATCAGCACATTGACATCCTTCCATCTTTAAGC
** * * * *
2857097 CTGATATCGTTGGCCTTGAATCAACACATTGGCA-TTCTTCTCATCTTCAAGTCTAAAGTAGCTG
1 CCAATATCGTTGGCCTTGAATCAACAAATTGGCACCTCCT-TCATCTTCAAGTCCAAAGTAGCTG
* *
2857161 ACCATAAATCAGCACATTGATATTCTTCGCATCTTTAAGC
65 ACCATAAATCAGCACATTGACATCCTTC-CATCTTTAAGC
2857201 CCAATATCGTTGGCCTTGAATCA
1 CCAATATCGTTGGCCTTGAATCA
2857224 GCATGTTGGC
Statistics
Matches: 102, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
100 4 0.04
101 62 0.61
102 5 0.05
104 31 0.30
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (103 bp):
CCAATATCGTTGGCCTTGAATCAACAAATTGGCACCTCCTTCATCTTCAAGTCCAAAGTAGCTGA
CCATAAATCAGCACATTGACATCCTTCCATCTTTAAGC
Found at i:2857223 original size:52 final size:51
Alignment explanation
Indices: 2856989--2857226 Score: 205
Period size: 52 Copynumber: 4.6 Consensus size: 51
2856979 GGCATCTCCT
* * * * * *
2856989 TTTACGTCCAATGTCGCTGGCCTTGAATCAACAAATTGGTACCTCCTT-CATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG--CATTCTTCCATC
* *
2857041 TCTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTT-CATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATTCTTCCATC
** * *
2857090 TTTAAGTCTGATATCGTTGGCCTTGAATCAACACATTGGCATTCTTCTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATTCTTC-CATC
* * * * * * **
2857142 TTCAAGTCTAA-AGTAGCTGACCATAAATCAGCACATTGATATTCTTCGCATC
1 TTTAAGTCCAATA-TCGCTGGCCTTGAATCAGCACATTGGCATTCTTC-CATC
* *
2857194 TTTAAGCCCAATATCGTTGGCCTTGAATCAGCA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
2857227 TGTTGGCACA
Statistics
Matches: 150, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 44 0.29
50 4 0.03
51 1 0.01
52 100 0.67
53 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (51 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATTCTTCCATC
Found at i:2857266 original size:61 final size:61
Alignment explanation
Indices: 2857172--2857318 Score: 183
Period size: 61 Copynumber: 2.4 Consensus size: 61
2857162 CCATAAATCA
* * **
2857172 GCACATTGAT-ATTCTTCGCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAGCAT-GTTG
1 GCACATTTATCATTCTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATAG-TG
*
2857232 GCACATTTATCATTCTTCTCATCTTTAAGCCCAATATCACTGGTCTTGAATCAGCATAGTG
1 GCACATTTATCATTCTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATAGTG
**
2857293 GCATC-TTTATCACCCCTTCTCATCTT
1 GCA-CATTTATCA-TTCTTCTCATCTT
2857319 CATCATCTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
60 9 0.12
61 54 0.71
62 13 0.17
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.37
Consensus pattern (61 bp):
GCACATTTATCATTCTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAGCATAGTG
Done.