Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 81 of 255
Found at i:24533097 original size:53 final size:53
Alignment explanation
Indices: 24532903--24533109 Score: 166
Period size: 53 Copynumber: 3.8 Consensus size: 53
24532893 ATTAAGGTTT
* * * * * *
24532903 AAGGATACCAAGTAAGACCATGCCAAGGA-ATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAA-GACATGACAATGGTAAG-TTCATAAGGC
* * * * * * *
24532957 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGACAATGGT-AAGTTC-ATAAGGC
* * * * * *
24533012 AAAGATCCCATGTAAGACCAT-ACAAAGGCATGACAATGGTGAGTTCATAAGGT
1 AAGGATACCATGTAAGACCATGTC-AAGACATGACAATGGTAAGTTCATAAGGC
* *
24533065 AAGGATACCACGTAAGACCATGTCAAGACATGAAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGACAATGGTAAGTT
24533110 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 29, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
53 44 0.37
54 38 0.32
55 37 0.31
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGACAATGGTAAGTTCATAAGGC
Found at i:24541157 original size:26 final size:26
Alignment explanation
Indices: 24541106--24541159 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
24541096 ATTCATACAT
*
24541106 CTCGTAAGGGCATAATAGTCGTTTTAC
1 CTCGTAAGGGCATAACAGTC-TTTTAC
*
24541133 CTCGTAGGGGCATAACAGT-TATTTAC
1 CTCGTAAGGGCATAACAGTCT-TTTAC
24541159 C
1 C
24541160 AATTTTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 6 0.25
27 17 0.71
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (26 bp):
CTCGTAAGGGCATAACAGTCTTTTAC
Found at i:24544525 original size:39 final size:40
Alignment explanation
Indices: 24544428--24544525 Score: 162
Period size: 40 Copynumber: 2.5 Consensus size: 40
24544418 CGGATGATAA
24544428 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATAT
* *
24544468 CCGGGCTAAGTCTCGAAGGCAATTGTGCTAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATAT
*
24544508 CC-GGCTAATTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24544526 TACTTGGGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
39 14 0.26
40 40 0.74
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATAT
Found at i:24549813 original size:13 final size:13
Alignment explanation
Indices: 24549795--24549824 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
24549785 AATTAATCGT
24549795 ACACGGGCGTGGC
1 ACACGGGCGTGGC
24549808 ACACGGGCGTGGC
1 ACACGGGCGTGGC
24549821 ACAC
1 ACAC
24549825 CAGCGTGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.33, G:0.40, T:0.07
Consensus pattern (13 bp):
ACACGGGCGTGGC
Found at i:24566842 original size:25 final size:25
Alignment explanation
Indices: 24566800--24566848 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
24566790 CTTACCAAAA
* *
24566800 TACAAAACCGATGAATAGGAATGAC
1 TACAAAAACGATGAATAGCAATGAC
24566825 TACAAAAACGAT-AGATAGCAATGA
1 TACAAAAACGATGA-ATAGCAATGA
24566849 AGGGAAAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.51, C:0.14, G:0.18, T:0.16
Consensus pattern (25 bp):
TACAAAAACGATGAATAGCAATGAC
Found at i:24568761 original size:26 final size:27
Alignment explanation
Indices: 24568732--24568784 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
24568722 ATATCGAAAA
*
24568732 CATATTAGGAAA-GAAAGACTTTGTGG
1 CATAATAGGAAAGGAAAGACTTTGTGG
* * *
24568758 CATAATATGAAAGGAATGCCTTTGTGG
1 CATAATAGGAAAGGAAAGACTTTGTGG
24568785 AAAACTCCGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.28
Consensus pattern (27 bp):
CATAATAGGAAAGGAAAGACTTTGTGG
Found at i:24568799 original size:27 final size:27
Alignment explanation
Indices: 24568769--24568838 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
24568759 ATAATATGAA
*
24568769 AGGAATGCCTTTGTGGAAAACTCCGTT
1 AGGAATGCCTTTGTGGAAAACTCCATT
* *
24568796 AGGAATACCTTTATGGAAAACTCCATT
1 AGGAATGCCTTTGTGGAAAACTCCATT
*
24568823 AGGAATGCCTTCGTGG
1 AGGAATGCCTTTGTGG
24568839 TGTACTCTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (27 bp):
AGGAATGCCTTTGTGGAAAACTCCATT
Found at i:24572484 original size:27 final size:27
Alignment explanation
Indices: 24572451--24572657 Score: 342
Period size: 27 Copynumber: 7.6 Consensus size: 27
24572441 TAAATTGTGC
*
24572451 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
24572478 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
24572506 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
24572533 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
24572561 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
24572588 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
24572616 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
24572643 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24572658 GACTTAATAT
Statistics
Matches: 173, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
27 93 0.54
28 80 0.46
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:24572515 original size:55 final size:55
Alignment explanation
Indices: 24572451--24572657 Score: 369
Period size: 55 Copynumber: 3.8 Consensus size: 55
24572441 TAAATTGTGC
*
24572451 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
24572506 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
24572561 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
24572616 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
24572658 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:24579282 original size:27 final size:27
Alignment explanation
Indices: 24579252--24579429 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24579242 ATATTGAGTC
* * * *
24579252 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24579279 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24579306 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24579334 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24579361 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24579388 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24579415 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24579430 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24579391 original size:82 final size:81
Alignment explanation
Indices: 24579273--24579428 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24579263 TGCTATATAA
* *
24579273 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24579338 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24579355 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24579419 CACTTAGTGC
65 CACTTAGTGC
24579429 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24583026 original size:27 final size:27
Alignment explanation
Indices: 24582995--24583172 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
24582985 TAAATTGTAC
*
24582995 AGCACTAGGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24583022 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24583048 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24583076 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24583104 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24583131 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24583158 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24583173 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24583109 original size:82 final size:81
Alignment explanation
Indices: 24582996--24583151 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
24582986 AAATTGTACA
* * *
24582996 GCACTAGGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
24583060 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
24583077 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
24583142 TGCGAGTTGA
65 TGCGAATTGA
24583152 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24583163 original size:82 final size:81
Alignment explanation
Indices: 24582992--24583172 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
24582982 GATTAAATTG
* * *
24582992 TACAGCACTAGGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24583057 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
24583073 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24583137 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24583155 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24583173 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24598999 original size:27 final size:27
Alignment explanation
Indices: 24598968--24599145 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
24598958 TAAATTGTAC
24598968 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24598995 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24599021 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24599049 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
** *
24599077 AGCACTAAGTGTGCGATTTGGTTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24599104 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24599131 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24599146 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24599109 original size:82 final size:81
Alignment explanation
Indices: 24598969--24599124 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
24598959 AAATTGTACA
* *
24598969 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
24599034 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** **
24599050 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGGTTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
24599114 GTGCGAGTTGA
64 GTGCGAATTGA
24599125 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24599136 original size:82 final size:81
Alignment explanation
Indices: 24598965--24599145 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
24598955 GATTAAATTG
* *
24598965 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24599030 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** **
24599046 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGGTTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24599110 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24599128 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24599146 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24607088 original size:27 final size:27
Alignment explanation
Indices: 24607057--24607234 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
24607047 TAAATTGTAC
24607057 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24607084 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24607110 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24607138 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
** *
24607166 AGCACTAAGTGTGCGATTTGGTTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24607193 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24607220 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24607235 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24607198 original size:82 final size:81
Alignment explanation
Indices: 24607058--24607213 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
24607048 AAATTGTACA
* *
24607058 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
24607123 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** **
24607139 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGGTTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
24607203 GTGCGAGTTGA
64 GTGCGAATTGA
24607214 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24607225 original size:82 final size:81
Alignment explanation
Indices: 24607054--24607234 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
24607044 GATTAAATTG
* *
24607054 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24607119 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** **
24607135 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGGTTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24607199 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24607217 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24607235 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24615840 original size:40 final size:40
Alignment explanation
Indices: 24615778--24616073 Score: 411
Period size: 40 Copynumber: 7.4 Consensus size: 40
24615768 AAACCAAGTA
* * *
24615778 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
24615817 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24615857 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
24615897 CCTTTGGGACTTAGCCCAGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24615937 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
24615977 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
24616017 CCTTCGGGACTTAGCGCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
24616057 CCTTTGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
24616074 CGTTATCATT
Statistics
Matches: 236, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.06
40 222 0.94
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:24624065 original size:13 final size:13
Alignment explanation
Indices: 24624049--24624073 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24624039 AACGAAGCAA
24624049 GACACGGCCGTGC
1 GACACGGCCGTGC
24624062 GACACGGCCGTG
1 GACACGGCCGTG
24624074 TGCACCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:24624424 original size:72 final size:71
Alignment explanation
Indices: 24624307--24624449 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 71
24624297 TTTCCAACGA
24624307 CTCAAGCTTCTCCCTTTTGCGTTTGTTTACTCTTTTCTCTCTATTTTCTTTAAATATTTTGCCTA
1 CTCAAGCTTCTCCCTTTTGCGTTTGTTTACTCTTTTCTCTCTATTTTCTTTAAATATTTT-CCTA
24624372 TTTCATG
65 TTTCATG
24624379 CTCAAGCTTCTCCCTTTTGCGTTTGTTTACTCTTTTCTCTCTATTTTCTTTAAATATTTTCCTAT
1 CTCAAGCTTCTCCCTTTTGCGTTTGTTTACTCTTTTCTCTCTATTTTCTTTAAATATTTTCCTAT
24624444 TTCATG
66 TTCATG
24624450 TTTTCTCTGG
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 11 0.15
72 60 0.85
ACGTcount: A:0.14, C:0.24, G:0.08, T:0.55
Consensus pattern (71 bp):
CTCAAGCTTCTCCCTTTTGCGTTTGTTTACTCTTTTCTCTCTATTTTCTTTAAATATTTTCCTAT
TTCATG
Found at i:24628022 original size:13 final size:13
Alignment explanation
Indices: 24628004--24628028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24627994 CAGCCTTGAC
24628004 CACGGGCGTGTCA
1 CACGGGCGTGTCA
24628017 CACGGGCGTGTC
1 CACGGGCGTGTC
24628029 CCTGTAGAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.32, G:0.40, T:0.16
Consensus pattern (13 bp):
CACGGGCGTGTCA
Found at i:24640507 original size:27 final size:27
Alignment explanation
Indices: 24640476--24640653 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
24640466 TAAATTGTAC
24640476 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
24640503 TGCACTAAGTGTGCAAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24640529 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24640557 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24640585 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24640612 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24640639 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24640654 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24640617 original size:82 final size:81
Alignment explanation
Indices: 24640477--24640632 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
24640467 AAATTGTACA
* *
24640477 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAAGTGT
24640542 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
24640558 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGAT-GCACTAAGT
*
24640622 GTGCGAGTTGA
64 GTGCGAATTGA
24640633 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24640644 original size:82 final size:81
Alignment explanation
Indices: 24640473--24640653 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
24640463 GATTAAATTG
* *
24640473 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAA
24640538 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
24640554 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGAT-GCACT
* **
24640618 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24640636 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24640654 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24640664 original size:27 final size:27
Alignment explanation
Indices: 24640558--24640664 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
24640548 TGACCATGCG
* * * *
24640558 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
24640586 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
24640613 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
24640640 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
24640665 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:24648640 original size:27 final size:27
Alignment explanation
Indices: 24648609--24648786 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24648599 TAAATTGTAC
24648609 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24648636 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24648662 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24648690 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24648718 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24648745 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24648772 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24648787 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24648723 original size:82 final size:81
Alignment explanation
Indices: 24648610--24648765 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24648600 AAATTGTACA
* *
24648610 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
24648674 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
24648691 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
24648756 TGCGAGTTGA
65 TGCGAATTGA
24648766 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24648777 original size:82 final size:81
Alignment explanation
Indices: 24648606--24648786 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
24648596 GATTAAATTG
* *
24648606 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24648671 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
24648687 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24648751 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24648769 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24648787 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24648797 original size:27 final size:27
Alignment explanation
Indices: 24648691--24648797 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
24648681 TGACCATGCG
* * * *
24648691 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
24648719 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
24648746 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
24648773 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
24648798 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:24656322 original size:3 final size:3
Alignment explanation
Indices: 24656314--24656352 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
24656304 TTCAATTGTT
*
24656314 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24656353 CTGTTCTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:24657961 original size:17 final size:17
Alignment explanation
Indices: 24657915--24657961 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
24657905 TTTGAGTCTA
*
24657915 TTTA-TTTTACTTTGTT
1 TTTATTTTTATTTTGTT
* **
24657931 TTTCTTTTCCTTTTGTT
1 TTTATTTTTATTTTGTT
24657948 TTTATTTTTATTTT
1 TTTATTTTTATTTT
24657962 AATTTCATGT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTTGTT
Found at i:24661802 original size:47 final size:47
Alignment explanation
Indices: 24661751--24661855 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
24661741 TAGTATTAAT
*
24661751 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
24661798 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
24661845 AATGTGATAAG
1 TATGTGATAAG
24661856 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:24667601 original size:40 final size:39
Alignment explanation
Indices: 24667564--24667741 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
24667554 ATATCCGGAC
24667564 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
24667604 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
24667644 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
24667684 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
24667723 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
24667742 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:24667654 original size:80 final size:79
Alignment explanation
Indices: 24667570--24667741 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
24667560 GGACTAAGAT
*
24667570 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
24667634 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
24667650 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
24667715 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
24667729 CCGAAGGCATTTG
1 CCGAAGGCATTTG
24667742 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:24667759 original size:79 final size:80
Alignment explanation
Indices: 24667597--24667774 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
24667587 AGATACAAAT
* * * *
24667597 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
24667662 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
24667677 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
24667741 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
24667756 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
24667775 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:24674949 original size:40 final size:39
Alignment explanation
Indices: 24674912--24675089 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
24674902 ATATCCGGAC
24674912 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
24674952 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
24674992 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
24675032 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
24675071 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
24675090 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:24675002 original size:80 final size:79
Alignment explanation
Indices: 24674918--24675089 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
24674908 GGACTAAGAT
*
24674918 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
24674982 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
24674998 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
24675063 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
24675077 CCGAAGGCATTTG
1 CCGAAGGCATTTG
24675090 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:24675107 original size:79 final size:80
Alignment explanation
Indices: 24674945--24675122 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
24674935 AGATACAAAT
* * * *
24674945 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
24675010 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
24675025 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
24675089 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
24675104 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
24675123 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:24683717 original size:15 final size:15
Alignment explanation
Indices: 24683697--24683730 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24683687 TATTATATGT
*
24683697 AAGAAAAATAAATAA
1 AAGAAAAAGAAATAA
*
24683712 AAGAAAAAGAAATAG
1 AAGAAAAAGAAATAA
24683727 AAGA
1 AAGA
24683731 GTGGGTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (15 bp):
AAGAAAAAGAAATAA
Found at i:24686068 original size:35 final size:35
Alignment explanation
Indices: 24685902--24686231 Score: 130
Period size: 35 Copynumber: 9.3 Consensus size: 35
24685892 TTGACTAGCA
* * *
24685902 CTGGGAGCAACTTTCGCCAGTTTATCTGACTAGTG
1 CTGGGCGCAACTTTCGTCAGTTTATCCGACTAGTG
* * * ** * *
24685937 TTGGGCAC-ACATTCGTTGGTTTATCTGACTAGCG
1 CTGGGCGCAACTTTCGTCAGTTTATCCGACTAGTG
* * * ** * *
24685971 CTAGGCGTAAATATT-GTTGGTTTATCCAACTAGAG
1 CTGGGCGCAACT-TTCGTCAGTTTATCCGACTAGTG
* * * * *
24686006 CTAGGCTCACTAATTATCGTCGGTTTATCCAACTAGTG
1 CTGGGCGCA--ACTT-TCGTCAGTTTATCCGACTAGTG
* * * *
24686044 TTGGGTGCAACTTTCGTCAGTTTATTCGACTAGCG
1 CTGGGCGCAACTTTCGTCAGTTTATCCGACTAGTG
* * *
24686079 CTAGGCGCAACTTTCGTCAATTTATCTGACTAGTG
1 CTGGGCGCAACTTTCGTCAGTTTATCCGACTAGTG
* * * ***
24686114 CTGGGCAC-ACATTT-GTCTGTTTATCTGACTAACA
1 CTGGGCGCAAC-TTTCGTCAGTTTATCCGACTAGTG
* * * * *
24686148 CTGGGTGCAAATATT-GTTAGTTTATCCAACTAGAG
1 CTGGGCGCAACT-TTCGTCAGTTTATCCGACTAGTG
* * * * *
24686183 CTGGGCTCAGTAATTATTTGTCGGTTTATCCGACTAGCG
1 CTGGG--C-GCAACT-TTCGTCAGTTTATCCGACTAGTG
24686222 CTGGGCGCAA
1 CTGGGCGCAA
24686232 ATTCTTTTGC
Statistics
Matches: 220, Mismatches: 62, Indels: 25
0.72 0.20 0.08
Matches are distributed among these distances:
34 49 0.22
35 106 0.48
36 9 0.04
37 5 0.02
38 30 0.14
39 21 0.10
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (35 bp):
CTGGGCGCAACTTTCGTCAGTTTATCCGACTAGTG
Found at i:24686199 original size:177 final size:178
Alignment explanation
Indices: 24685894--24686219 Score: 476
Period size: 177 Copynumber: 1.8 Consensus size: 178
24685884 CGATTCATTT
* * *
24685894 GACTAGCACTGGGAGCAACTTTCGCCAGTTTATCTGACTAGTGTTGGGCACACATTCGTTGGTTT
1 GACTAGCACTAGGAGCAACTTTCGCCAATTTATCTGACTAGTGCTGGGCACACATTCGTTGGTTT
* * * *
24685959 ATCTGACTAGCGCTAGGCGTAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTCACTAATTA-T
66 ATCTGACTAACACTAGGCGCAAATATTGTTAGTTTATCCAACTAGAGCTAGGCTCACTAATTATT
24686023 CGTCGGTTTATCCAACTAGTGTTGGGTGCAACTTTCGTCAGTTTATTC
131 CGTCGGTTTATCCAACTAGTGTTGGGTGCAACTTTCGTCAGTTTATTC
* * * *
24686071 GACTAGCGCTAGGCGCAACTTTCGTCAATTTATCTGACTAGTGCTGGGCACACATTTGTCT-GTT
1 GACTAGCACTAGGAGCAACTTTCGCCAATTTATCTGACTAGTGCTGGGCACACATTCGT-TGGTT
* * * *
24686135 TATCTGACTAACACTGGGTGCAAATATTGTTAGTTTATCCAACTAGAGCTGGGCTCAGTAATTAT
65 TATCTGACTAACACTAGGCGCAAATATTGTTAGTTTATCCAACTAGAGCTAGGCTCACTAATTAT
* *
24686200 TTGTCGGTTTATCCGACTAG
130 TCGTCGGTTTATCCAACTAG
24686220 CGCTGGGCGC
Statistics
Matches: 130, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
177 111 0.85
178 19 0.15
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (178 bp):
GACTAGCACTAGGAGCAACTTTCGCCAATTTATCTGACTAGTGCTGGGCACACATTCGTTGGTTT
ATCTGACTAACACTAGGCGCAAATATTGTTAGTTTATCCAACTAGAGCTAGGCTCACTAATTATT
CGTCGGTTTATCCAACTAGTGTTGGGTGCAACTTTCGTCAGTTTATTC
Found at i:24689483 original size:21 final size:22
Alignment explanation
Indices: 24689431--24689483 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
24689421 AAATAAAGCC
*
24689431 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
24689452 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
24689474 CATGTATCAT
1 CATGTATCAT
24689484 CATTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:24695313 original size:40 final size:40
Alignment explanation
Indices: 24695234--24695447 Score: 294
Period size: 40 Copynumber: 5.4 Consensus size: 40
24695224 ACCCAAGTAT
* * * *
24695234 CTTCGGGATTTAG-CCGAATATAACT-ACTTGCTCAAATGC
1 CTTCGGGACTTAGCCCGGATAT-AGTAACTTGCACAAATGC
*
24695273 CTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
24695313 CTTCGGGACTTAGCCCGGATATAGTAAC-TGCAACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGC-ACAAATGC
*
24695353 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
* *
24695393 CTTCGGGACTTAG-CCGGA-ATTAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTTGCACAAATGC
24695432 CTTCGGGACTTAGCCC
1 CTTCGGGACTTAGCCC
24695448 AGTTATCATC
Statistics
Matches: 160, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
38 1 0.01
39 52 0.32
40 105 0.66
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
Found at i:24703360 original size:38 final size:39
Alignment explanation
Indices: 24703252--24703461 Score: 284
Period size: 40 Copynumber: 5.4 Consensus size: 39
24703242 ACCCAAGCAT
* * * * *
24703252 CTTCGGGATTTAGCCGAATATAACT-ACTTGCTCAAATGC
1 CTTCGGGACTTAGCCGGATAT-AGTAACTCGCACAAATGC
*
24703291 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATGC
24703331 CTTC-GGACTTAGCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATGC
24703369 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATGC
* *
24703409 CTTCGGGACTTAGCCGGA-ATTAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCGGATA-TAGTAACTCGCACAAATGC
24703448 CTT-GGGACTTAGCC
1 CTTCGGGACTTAGCC
24703462 CGGTTATCAT
Statistics
Matches: 157, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
38 41 0.26
39 55 0.35
40 61 0.39
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
CTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATGC
Found at i:24703392 original size:78 final size:79
Alignment explanation
Indices: 24703284--24703464 Score: 305
Period size: 78 Copynumber: 2.3 Consensus size: 79
24703274 ACTACTTGCT
*
24703284 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTC-GGACTTAGCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGGA
*
24703347 ATATAGTAACTCGCA
66 AT-TAGTAACTAGCA
24703362 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGGA
*
24703427 ATTAGTCACTAGCA
66 ATTAGTAACTAGCA
24703441 CAAATGCCTT-GGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
24703465 TTATCATCCG
Statistics
Matches: 98, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
78 64 0.65
79 32 0.33
80 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGGA
ATTAGTAACTAGCA
Found at i:24703398 original size:40 final size:40
Alignment explanation
Indices: 24703284--24703464 Score: 291
Period size: 40 Copynumber: 4.6 Consensus size: 40
24703274 ACTACTTGCT
*
24703284 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
24703324 CAAATGCCTTC-GGACTTAG-CCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
24703362 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
24703402 CAAATGCCTTCGGGACTTAG-CCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
24703441 CAAATGCCTT-GGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
24703465 TTATCATCCG
Statistics
Matches: 134, Mismatches: 3, Indels: 9
0.92 0.02 0.06
Matches are distributed among these distances:
38 39 0.29
39 45 0.34
40 50 0.37
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:24711344 original size:39 final size:38
Alignment explanation
Indices: 24711271--24711403 Score: 190
Period size: 39 Copynumber: 3.7 Consensus size: 38
24711261 TCGGCGGTTT
24711271 CAAATGCCTT-GGGACTTAGCCCGTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGTATAGTAACTCGCA
24711308 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GTATAGTAACTCGCA
* *
24711347 CAAATGCCTTC-GGAC-TAG-CCGAATAG-CACT-GC-
1 CAAATGCCTTCGGGACTTAGCCCGTATAGTAACTCGCA
24711379 CAAATGCCTTCGGGACTTAGCCCGT
1 CAAATGCCTTCGGGACTTAGCCCGT
24711404 TATCATCCGA
Statistics
Matches: 88, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.12
33 6 0.07
34 6 0.07
35 8 0.09
36 2 0.02
37 13 0.15
38 16 0.18
39 26 0.30
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTAGCCCGTATAGTAACTCGCA
Found at i:24711436 original size:18 final size:16
Alignment explanation
Indices: 24711413--24711447 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
24711403 TTATCATCCG
24711413 AAATCATGCACATATCAT
1 AAATCATG-ACA-ATCAT
24711431 AAATCATGACAATCAT
1 AAATCATGACAATCAT
24711447 A
1 A
24711448 TTCATTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.26
Consensus pattern (16 bp):
AAATCATGACAATCAT
Found at i:24713339 original size:52 final size:53
Alignment explanation
Indices: 24713282--24713386 Score: 160
Period size: 55 Copynumber: 2.0 Consensus size: 53
24713272 ACTAAAAATT
* *
24713282 AATTATC-TTTCATAT-GGATTCGAATGATGTTCTTGTTTGTTTCTTTTGAAAG
1 AATTATCTTTTCATATGGGATTCAAATGATGTTCCTGTTTGTTTC-TTTGAAAG
24713334 AATTATCTTTTTCATATGGGATTCAAATGATGTTCCTGTTTGTTTCTTTGAAA
1 AATTATC-TTTTCATATGGGATTCAAATGATGTTCCTGTTTGTTTCTTTGAAA
24713387 ATATACTCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
52 7 0.15
54 15 0.31
55 26 0.54
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.50
Consensus pattern (53 bp):
AATTATCTTTTCATATGGGATTCAAATGATGTTCCTGTTTGTTTCTTTGAAAG
Found at i:24714289 original size:34 final size:34
Alignment explanation
Indices: 24714128--24714289 Score: 216
Period size: 34 Copynumber: 4.7 Consensus size: 34
24714118 GGTTTTCCTC
* * * *
24714128 ATGGAAAATGCCATACCTATGTTTCATAACTCAGT
1 ATGG-AAATACCATACCTACGTTTCATAGCTCGGT
* * *
24714163 ATGGAAAAACCAGACCTACGTATCATAGCTCGGT
1 ATGGAAATACCATACCTACGTTTCATAGCTCGGT
* *
24714197 GTGGAAATACCATACCTACGTATCATAGCTCGGT
1 ATGGAAATACCATACCTACGTTTCATAGCTCGGT
* *
24714231 ATGGAAATACCATACCTACATTTCATAGCTTGGT
1 ATGGAAATACCATACCTACGTTTCATAGCTCGGT
24714265 ATGGAAATACCATACCTACGTTTCA
1 ATGGAAATACCATACCTACGTTTCA
24714290 CATTTTTCAT
Statistics
Matches: 112, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
34 108 0.96
35 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (34 bp):
ATGGAAATACCATACCTACGTTTCATAGCTCGGT
Found at i:24714629 original size:16 final size:18
Alignment explanation
Indices: 24714608--24714640 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
24714598 CCATTCATTA
24714608 TAATTCA-TTC-CAATTC
1 TAATTCACTTCACAATTC
24714624 TAATTCACTTCACAATT
1 TAATTCACTTCACAATT
24714641 TATGCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATTCACTTCACAATTC
Found at i:24718671 original size:38 final size:39
Alignment explanation
Indices: 24718629--24718732 Score: 104
Period size: 38 Copynumber: 2.7 Consensus size: 39
24718619 TCGGATAGTT
*
24718629 CGAAGCAAAGTTGACACCCAGTGTCTCATCG-ACCTAGC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
* ** ** * *
24718667 CGAAGTAAAGTAG-TGCCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
24718705 CGAAGTAACAGTATGACACCCAGTGTCT
1 CGAAGTAA-AGT-TGACACCCAGTGTCT
24718733 TATCAACTCG
Statistics
Matches: 49, Mismatches: 13, Indels: 5
0.73 0.19 0.07
Matches are distributed among these distances:
37 13 0.27
38 24 0.49
39 3 0.06
40 1 0.02
41 8 0.16
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (39 bp):
CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:24719854 original size:17 final size:18
Alignment explanation
Indices: 24719827--24719870 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
24719817 CCTTCATTTC
24719827 TTTCTTTTATTCTTTTA-G
1 TTTC-TTTATTCTTTTATG
24719845 TTTCTTTATTCTTTTATG
1 TTTCTTTATTCTTTTATG
*
24719863 TTTATTTA
1 TTTCTTTA
24719871 CTTTGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTCTTTATTCTTTTATG
Found at i:24723100 original size:3 final size:3
Alignment explanation
Indices: 24723092--24723148 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
24723082 CATTTAACCC
24723092 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24723138 TAT TAT TAT TA
1 TAT TAT TAT TA
24723149 ACAGTTAGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:24723558 original size:19 final size:19
Alignment explanation
Indices: 24723534--24723572 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
24723524 TACTCTTTTG
24723534 ATTGTTATAATATTAATTA
1 ATTGTTATAATATTAATTA
24723553 ATTGTTATAATATTAATTA
1 ATTGTTATAATATTAATTA
24723572 A
1 A
24723573 ATTATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
ATTGTTATAATATTAATTA
Found at i:24723582 original size:19 final size:19
Alignment explanation
Indices: 24723538--24723582 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
24723528 CTTTTGATTG
*
24723538 TTATAATATTAATTAATTG
1 TTATAATATTAATTAATTA
24723557 TTATAATATTAATTAAATTA
1 TTATAATATTAATT-AATTA
24723577 TT-TAAT
1 TTATAAT
24723583 TCGTTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTATAATATTAATTAATTA
Found at i:24740997 original size:40 final size:40
Alignment explanation
Indices: 24740944--24741126 Score: 300
Period size: 40 Copynumber: 4.6 Consensus size: 40
24740934 ACTACTTGCT
*
24740944 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
24740984 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
24741024 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
24741064 CAAATGCCTTC-GGACTTAG-CCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
*
24741102 CAAATGCCTTGGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
24741127 TTATCATCCG
Statistics
Matches: 136, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
37 1 0.01
38 25 0.18
39 16 0.12
40 94 0.69
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:24746681 original size:20 final size:20
Alignment explanation
Indices: 24746630--24746681 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
24746620 TTAAACCCAG
*
24746630 TAATTATTTTAATATTTAAT
1 TAATTATTTTATTATTTAAT
**
24746650 T-ATTACCATTATTATTTAAT
1 TAATTA-TTTTATTATTTAAT
24746670 TAATTATTTTAT
1 TAATTATTTTAT
24746682 CCTATTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
19 4 0.16
20 17 0.68
21 4 0.16
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTATTTTATTATTTAAT
Found at i:24748273 original size:56 final size:56
Alignment explanation
Indices: 24748187--24748321 Score: 191
Period size: 56 Copynumber: 2.4 Consensus size: 56
24748177 CCATGGCATT
* * *
24748187 GATATATTTGTGCGAGTAAGACCACCTTTTATACATTGGCATCGATATGTGACAT-C
1 GATATATGTGTGCGAGTAAGACCACCTTTTATACATCGGCATCAATATGTGAC-TCC
* **
24748243 GATATATGTGTGAGAGTAAGACCATGTTTTATACATCGGCATCAATATGTGACTCC
1 GATATATGTGTGCGAGTAAGACCACCTTTTATACATCGGCATCAATATGTGACTCC
*
24748299 AATATATGTGTGCGAGTAAGACC
1 GATATATGTGTGCGAGTAAGACC
24748322 CTATCTGGGA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
55 1 0.01
56 69 0.99
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACCTTTTATACATCGGCATCAATATGTGACTCC
Found at i:24748339 original size:56 final size:56
Alignment explanation
Indices: 24748224--24748347 Score: 142
Period size: 56 Copynumber: 2.2 Consensus size: 56
24748214 TTTATACATT
* * * * * *
24748224 GGCATCGATATGTGACATCGATATATGTGTGAGAGTAAGACCATGTTTTATACATC
1 GGCATCGATATGTGACATCAATATATGTGTGAGAGTAAGACCATATCTGAGACAGC
* * * *
24748280 GGCATCAATATGTGAC-TCCAATATATGTGTGCGAGTAAGACCCTATCTGGGACAGC
1 GGCATCGATATGTGACAT-CAATATATGTGTGAGAGTAAGACCATATCTGAGACAGC
24748336 GGCATCGATATG
1 GGCATCGATATG
24748348 CGATTACATG
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
55 1 0.02
56 55 0.98
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (56 bp):
GGCATCGATATGTGACATCAATATATGTGTGAGAGTAAGACCATATCTGAGACAGC
Found at i:24754715 original size:20 final size:21
Alignment explanation
Indices: 24754674--24754715 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
24754664 GAATGGACGG
*
24754674 AAGAATGTCAACAGAGTTTTA
1 AAGAATGTCAACAAAGTTTTA
24754695 AAGAAT-TCAA-AAAGTTATTA
1 AAGAATGTCAACAAAGTT-TTA
24754715 A
1 A
24754716 CTGAAGCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (21 bp):
AAGAATGTCAACAAAGTTTTA
Found at i:24766708 original size:56 final size:56
Alignment explanation
Indices: 24766642--24766778 Score: 220
Period size: 56 Copynumber: 2.4 Consensus size: 56
24766632 GACCATGGCA
* *
24766642 TCGATATATGTATGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATATGACT
* *
24766698 TCGATATATGTGTGCAAGTAAGACCACGTTTTATACGTTGGCATCGATCTATGACT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATATGACT
* *
24766754 CCGATATATGTGTGTGAGTAAGACC
1 TCGATATATGTGTGCGAGTAAGACC
24766779 CTGTCCGGGA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATATGACT
Found at i:24769942 original size:12 final size:12
Alignment explanation
Indices: 24769925--24769957 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24769915 CAGCCCACCC
24769925 ATATTAATTTTT
1 ATATTAATTTTT
*
24769937 ATATTATTTTTT
1 ATATTAATTTTT
24769949 ATA-TAATTT
1 ATATTAATTT
24769958 AAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:24770119 original size:30 final size:30
Alignment explanation
Indices: 24770083--24770145 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
24770073 ACTTAACAAT
24770083 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
24770113 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
24770143 CAA
1 CAA
24770146 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:24774304 original size:14 final size:15
Alignment explanation
Indices: 24774267--24774378 Score: 76
Period size: 14 Copynumber: 7.7 Consensus size: 15
24774257 TATAATTAGT
*
24774267 TAATATATATTTATCA
1 TAATATA-ATTTACCA
24774283 TAAT-TAATTTA-CA
1 TAATATAATTTACCA
24774296 TAATATAATTTACCA
1 TAATATAATTTACCA
*
24774311 TAAT-TAGTTTA-CA
1 TAATATAATTTACCA
* *
24774324 TAATATAAAGTCACCA
1 TAATAT-AATTTACCA
* *
24774340 TAAT-TAGTTTA-AA
1 TAATATAATTTACCA
* *
24774353 TGATATAAATTCACCA
1 TAATAT-AATTTACCA
24774369 TAAT-TAATTT
1 TAATATAATTT
24774379 GCATATTTAT
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
13 16 0.22
14 27 0.36
15 17 0.23
16 14 0.19
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.42
Consensus pattern (15 bp):
TAATATAATTTACCA
Found at i:24774349 original size:29 final size:29
Alignment explanation
Indices: 24774267--24774383 Score: 137
Period size: 29 Copynumber: 4.1 Consensus size: 29
24774257 TATAATTAGT
* * *
24774267 TAATATATATTTATCATAATTAATTTACA
1 TAATATAAATTCACCATAATTAATTTACA
* *
24774296 TAATAT-AATTTACCATAATTAGTTTACA
1 TAATATAAATTCACCATAATTAATTTACA
* * *
24774324 TAATATAAAGTCACCATAATTAGTTTAAA
1 TAATATAAATTCACCATAATTAATTTACA
* *
24774353 TGATATAAATTCACCATAATTAATTTGCA
1 TAATATAAATTCACCATAATTAATTTACA
24774382 TA
1 TA
24774384 TTTATGTTTC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
28 25 0.33
29 50 0.67
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.41
Consensus pattern (29 bp):
TAATATAAATTCACCATAATTAATTTACA
Found at i:24774818 original size:14 final size:14
Alignment explanation
Indices: 24774799--24774829 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
24774789 TAGCATTGAA
24774799 CACCTCCAAACAAT
1 CACCTCCAAACAAT
24774813 CACCTCCAAACAAT
1 CACCTCCAAACAAT
24774827 CAC
1 CAC
24774830 ATTGACCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.13
Consensus pattern (14 bp):
CACCTCCAAACAAT
Found at i:24777626 original size:29 final size:29
Alignment explanation
Indices: 24777560--24777618 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
24777550 AAAGGTTTGA
24777560 AGCACAAAATGAGTAAATAAAACCAAGTT
1 AGCACAAAATGAGTAAATAAAACCAAGTT
24777589 AGCACAAAATGAGTAAATAAAACCAAGTT
1 AGCACAAAATGAGTAAATAAAACCAAGTT
24777618 A
1 A
24777619 CGATAAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.17
Consensus pattern (29 bp):
AGCACAAAATGAGTAAATAAAACCAAGTT
Found at i:24779394 original size:27 final size:27
Alignment explanation
Indices: 24779364--24779540 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
24779354 ATATTGAGTC
* *
24779364 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
24779391 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24779418 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
24779446 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
24779473 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
24779500 CGCACACTTAGTGCAACATAGT-AAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24779526 CGCACACATAGTGCT
1 CGCACACTTAGTGCT
24779541 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 15 0.12
27 88 0.69
28 24 0.19
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24779456 original size:55 final size:54
Alignment explanation
Indices: 24779364--24779540 Score: 196
Period size: 55 Copynumber: 3.3 Consensus size: 54
24779354 ATATTGAGTC
* * * * *
24779364 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
24779418 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
24779473 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGT-AAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
*
24779526 CGCACACATAGTGCT
1 CGCACACTTAGTGCT
24779541 GTACAATTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 16 0.16
54 42 0.41
55 45 0.44
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:24779503 original size:82 final size:80
Alignment explanation
Indices: 24779385--24779539 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
24779375 TGCTATATAA
* *
24779385 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-AAA-TCGCA
*
24779450 CACTTAGTGCCGCATGG
64 CACATAGTGCCGCATGG
* * **
24779467 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTAAATCGCAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTAAATCGCAC
24779531 ACATAGTGC
65 ACATAGTGC
24779540 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 14 0.22
81 4 0.06
82 47 0.72
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTAAATCGCACA
CATAGTGCCGCATGG
Found at i:24787501 original size:27 final size:27
Alignment explanation
Indices: 24787471--24787647 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
24787461 ATATTGAGTC
* *
24787471 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
24787498 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24787525 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
24787553 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
24787580 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
24787607 CGCACACTTAGTGCAACATAGT-AAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24787633 CGCACACATAGTGCT
1 CGCACACTTAGTGCT
24787648 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 15 0.12
27 88 0.69
28 24 0.19
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24787563 original size:55 final size:54
Alignment explanation
Indices: 24787471--24787647 Score: 196
Period size: 55 Copynumber: 3.3 Consensus size: 54
24787461 ATATTGAGTC
* * * * *
24787471 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
24787525 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
24787580 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGT-AAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
*
24787633 CGCACACATAGTGCT
1 CGCACACTTAGTGCT
24787648 GTACAATTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 16 0.16
54 42 0.41
55 45 0.44
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:24787610 original size:82 final size:80
Alignment explanation
Indices: 24787492--24787646 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
24787482 TGCTATATAA
* *
24787492 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGT-AAA-TCGCA
*
24787557 CACTTAGTGCCGCATGG
64 CACATAGTGCCGCATGG
* * **
24787574 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTAAATCGCAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTAAATCGCAC
24787638 ACATAGTGC
65 ACATAGTGC
24787647 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 14 0.22
81 4 0.06
82 47 0.72
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTAAATCGCACA
CATAGTGCCGCATGG
Found at i:24789653 original size:19 final size:19
Alignment explanation
Indices: 24789629--24789676 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
24789619 TTTTTCATTT
24789629 ACTAAAGCAAAAA-ATGAAA
1 ACTAAA-CAAAAATATGAAA
*
24789648 ACTAAATAAAAATATGAAA
1 ACTAAACAAAAATATGAAA
*
24789667 A-AAAACAAAA
1 ACTAAACAAAA
24789677 TGTAACGGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.73, C:0.08, G:0.06, T:0.12
Consensus pattern (19 bp):
ACTAAACAAAAATATGAAA
Found at i:24795958 original size:16 final size:18
Alignment explanation
Indices: 24795922--24795962 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
24795912 TTTCTTTTAT
24795922 TTAATTTTTCATATCTAA
1 TTAATTTTTCATATCTAA
*
24795940 TTAATTTTTTA-AT-TAA
1 TTAATTTTTCATATCTAA
24795956 TTAATTT
1 TTAATTT
24795963 ATGATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 2 0.09
18 10 0.45
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAATTTTTCATATCTAA
Found at i:24799012 original size:46 final size:46
Alignment explanation
Indices: 24798907--24799125 Score: 176
Period size: 46 Copynumber: 4.7 Consensus size: 46
24798897 TGGGTAAGGT
* *
24798907 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTTATATCTCAA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCAA
** * * *
24798954 GTTGATGCCATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AA
* * * * * *
24799001 GCCGATG-CATGTCCCAGACATGTTTTACATTAGCTCT-TATCTTATT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCA-A
* * * ***
24799047 GCCGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCT-CATAATGTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCAA
24799095 GCCGATG-CATGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
24799126 AGTCCACAAA
Statistics
Matches: 137, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 64 0.47
47 49 0.36
48 22 0.16
49 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAA
Found at i:24803537 original size:18 final size:18
Alignment explanation
Indices: 24803506--24803540 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24803496 GGGAGTAACT
* *
24803506 TCGAGCATATCTTGGTGA
1 TCGAGAATAACTTGGTGA
24803524 TCGAGAATAACTTGGTG
1 TCGAGAATAACTTGGTG
24803541 GAGAGCGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (18 bp):
TCGAGAATAACTTGGTGA
Found at i:24804303 original size:33 final size:34
Alignment explanation
Indices: 24804266--24804345 Score: 126
Period size: 34 Copynumber: 2.4 Consensus size: 34
24804256 TTAGTTGAAA
*
24804266 GTGTCTTCAACAGAGTACTC-TAATACTTCATTG
1 GTGTCTTCAACACAGTACTCTTAATACTTCATTG
* *
24804299 GTGTCTTCAACACAGTACTCTTATTACTTCGTTG
1 GTGTCTTCAACACAGTACTCTTAATACTTCATTG
24804333 GTGTCTTCAACAC
1 GTGTCTTCAACAC
24804346 TTTCAATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
33 19 0.44
34 24 0.56
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (34 bp):
GTGTCTTCAACACAGTACTCTTAATACTTCATTG
Found at i:24813180 original size:13 final size:13
Alignment explanation
Indices: 24813162--24813186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24813152 TATATTAGAT
24813162 TTGATTATGTAAA
1 TTGATTATGTAAA
24813175 TTGATTATGTAA
1 TTGATTATGTAA
24813187 TCTTGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:24815501 original size:27 final size:27
Alignment explanation
Indices: 24815467--24815643 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
24815457 TAAATTGTAC
24815467 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24815494 TGCACTAAGT-TGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24815519 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24815547 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24815575 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24815602 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24815629 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24815644 GACTCAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 21 0.17
27 83 0.65
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24815589 original size:55 final size:54
Alignment explanation
Indices: 24815467--24815643 Score: 205
Period size: 55 Copynumber: 3.3 Consensus size: 54
24815457 TAAATTGTAC
* **
24815467 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGT-TGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGT
* * ** *
24815519 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAG-TTGAATATGT
* * * *
24815575 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGT
*
24815629 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24815644 GACTCAATAT
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
52 1 0.01
53 32 0.30
54 27 0.26
55 44 0.42
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGT
Found at i:24815634 original size:82 final size:80
Alignment explanation
Indices: 24815464--24815643 Score: 218
Period size: 82 Copynumber: 2.2 Consensus size: 80
24815454 AATTAAATTG
* *
24815464 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTTGCGAAATGAATATGATGCACTAAG
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTTGCGAAATGAATACGATGCACTAAG
24815529 TGTGCGAATTGACCA
66 TGTGCGAATTGACCA
* * ** *
24815544 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGT-TGCGAAATGAATACGAT-GCACT
* **
24815608 AAGTGTGCGAGTTGATTA
63 AAGTGTGCGAATTGACCA
* *
24815626 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24815644 GACTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 17 0.20
81 21 0.25
82 45 0.54
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (80 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTTGCGAAATGAATACGATGCACTAAG
TGTGCGAATTGACCA
Found at i:24823353 original size:39 final size:40
Alignment explanation
Indices: 24823149--24823371 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
24823139 TTGAATGCTG
* * * * * *
24823149 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
24823189 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
24823229 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
24823269 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
24823309 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
24823348 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
24823372 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:24823391 original size:79 final size:80
Alignment explanation
Indices: 24823224--24823406 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
24823214 GTGCGAGATA
* * *
24823224 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
24823289 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
24823304 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
24823368 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
24823383 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
24823407 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:24837174 original size:40 final size:39
Alignment explanation
Indices: 24837007--24837209 Score: 329
Period size: 39 Copynumber: 5.2 Consensus size: 39
24836997 GGACTAAGAT
24837007 CCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTC
*
24837046 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGT-
1 CCGAAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGTC
24837085 CCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTC
*
24837124 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGTC
* *
24837164 CCGAAAGCATTTGTGCTAGTTG-CTATATCCGGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGCTAAGTC
24837203 CCGAAGG
1 CCGAAGG
24837210 TACTTCGGTT
Statistics
Matches: 153, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
38 8 0.05
39 101 0.66
40 42 0.27
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTC
Found at i:24838774 original size:31 final size:31
Alignment explanation
Indices: 24838733--24838816 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
24838723 CTAGTCTTGA
24838733 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
* * *
24838763 CATATCACTGGGTCGCAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
24838794 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
24838817 ATGTAAACGG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:24838886 original size:42 final size:42
Alignment explanation
Indices: 24838839--24838930 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
24838829 TAGCCCTTAG
*
24838839 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
24838881 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
24838923 GCCCATTT
1 GCCCATTT
24838931 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:24839111 original size:26 final size:25
Alignment explanation
Indices: 24839078--24839147 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 25
24839068 CTCTTTTAAT
*
24839078 AACTGGGGCAAAGCCCTTTTCTGTTA
1 AACTGGGGCAAAGCCCTTTTC-GGTA
*
24839104 AATTGGGGCAAAGCCC-TTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
24839128 AACTGGGGCAGATCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
24839148 AGCACTTCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
24 16 0.42
25 7 0.18
26 15 0.39
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:24839983 original size:27 final size:26
Alignment explanation
Indices: 24839953--24840030 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
24839943 GGGCATATTC
*
24839953 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TATAAGGGTATTACG
* *
24839980 GTCACTTTACCCTATAGGGGCT-TTACG
1 GTCATTTTA-CCTATAAGGG-TATTACG
*
24840007 GTCTTTTTACCTATTAAGGGTATT
1 GTCATTTTACCTA-TAAGGGTATT
24840031 TTAGTTACGG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 5 0.12
27 33 0.80
28 3 0.07
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTATAAGGGTATTACG
Found at i:24840039 original size:33 final size:33
Alignment explanation
Indices: 24840002--24840068 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
24839992 TATAGGGGCT
24840002 TTACGGTCTTTTTACCTATTAAGGGTATTTTAG
1 TTACGGTCTTTTTACCTATTAAGGGTATTTTAG
*
24840035 TTACGGTCTTTTTACCTATTAGGGGTATTTTAG
1 TTACGGTCTTTTTACCTATTAAGGGTATTTTAG
24840068 T
1 T
24840069 CATTTCATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.49
Consensus pattern (33 bp):
TTACGGTCTTTTTACCTATTAAGGGTATTTTAG
Found at i:24840242 original size:27 final size:27
Alignment explanation
Indices: 24840082--24840317 Score: 208
Period size: 27 Copynumber: 8.7 Consensus size: 27
24840072 TTCATCCTAC
* * * * *
24840082 AAGGGTGTTTTCGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* **
24840109 AAGGGTATTTTAGTAATTTTGTAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
24840136 AATGGTATTTCT-ATAATTTTTAGAAAGTT
1 AAGGGTATTT-TGGTAA-TTTTACAAA-CT
** *
24840165 AAGGGTATTTCT-GTAATTTTGTAAACC
1 AAGGGTATTT-TGGTAATTTTACAAACT
* *
24840192 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
24840219 AAGGGTATTTCGGTAATTTCACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
24840246 -AGTGGTATTTCGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
*
24840273 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
24840300 AGGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
24840318 CTATCCTATA
Statistics
Matches: 173, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 139 0.80
28 16 0.09
29 15 0.09
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:24840253 original size:54 final size:54
Alignment explanation
Indices: 24840153--24840350 Score: 218
Period size: 54 Copynumber: 3.6 Consensus size: 54
24840143 TTTCTATAAT
* * *** *
24840153 TTTTAGAAAGTTAAGGGTATTTCTGTAATTTTGTAAACCAGGGGTATTTTGGTAA
1 TTTTACAAA-TTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAA
* *
24840208 TTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTCGGTAA
1 TTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAA
* * * *
24840262 TTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAA
1 TTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAA
* ** * *
24840316 TTCTATCCTA-TAGGGGTATTTCAGTAATTTCACAA
1 TTTTA-CAAATTAAGGGTATTTCGGTAATTTCACAA
24840351 TCGAGGGTAA
Statistics
Matches: 122, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
54 112 0.92
55 10 0.08
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
TTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAA
Found at i:24840285 original size:81 final size:81
Alignment explanation
Indices: 24840101--24840317 Score: 247
Period size: 81 Copynumber: 2.7 Consensus size: 81
24840091 TTCGTAAATC
* * ** * ** * * *
24840101 TACAAACCAAGGGTATTTTAGTAATTTTGTAAACTAATGGTATTTCTATAATTTTTAGAAAGTTA
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAA-TTTCACAAA-CT-
*
24840166 AG-GGTATTTCTGTAATTT
63 AGTGGTATTTCGGTAATTT
** *
24840184 TGTAAACCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGT
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACTAGT
24840249 GGTATTTCGGTAATTT
66 GGTATTTCGGTAATTT
* * *
24840265 TACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATT
24840318 CTATCCTATA
Statistics
Matches: 113, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 2 0.02
81 63 0.56
82 7 0.06
83 41 0.36
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.41
Consensus pattern (81 bp):
TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACTAGT
GGTATTTCGGTAATTT
Found at i:24840334 original size:81 final size:81
Alignment explanation
Indices: 24840101--24840350 Score: 243
Period size: 81 Copynumber: 3.1 Consensus size: 81
24840091 TTCGTAAATC
* * ** * ** * * *
24840101 TACAAACCAAGGGTATTTTAGTAATTTTGTAAACTAATGGTATTTCTATAATTTTTAGAAAGTTA
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAA-TTTCACAAA-CTA
* *
24840166 AGGGTATTTCTGTAATTT
64 GGGGTATTTCAGTAATTT
** * *
24840184 TGTAAACCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGT
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACTAGG
*
24840249 GGTATTTCGGTAATTT
66 GGTATTTCAGTAATTT
* * * **
24840265 TACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAA-TTCTATCCTA-TA
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTC-A-CAAACTA
24840328 GGGGTATTTCAGTAATTT
64 GGGGTATTTCAGTAATTT
*
24840346 CACAA
1 TACAA
24840351 TCGAGGGTAA
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
80 3 0.02
81 85 0.62
82 9 0.07
83 41 0.30
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (81 bp):
TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACTAGG
GGTATTTCAGTAATTT
Found at i:24840357 original size:27 final size:27
Alignment explanation
Indices: 24840167--24840350 Score: 183
Period size: 27 Copynumber: 6.8 Consensus size: 27
24840157 AGAAAGTTAA
* *** *
24840167 GGGTATTTCTGTAATTTTGTAAACCAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* * * *
24840194 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTCGGTAATTTCACAAACTAG
24840221 GGGTATTTCGGTAATTTCACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* *
24840248 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* *
24840275 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* **
24840302 GGGTATTTTGGTAA-TTCTATCCTA-TAG
1 GGGTATTTCGGTAATTTC-A-CAAACTAG
*
24840329 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTCACAA
24840351 TCGAGGGTAA
Statistics
Matches: 132, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.02
27 124 0.94
28 5 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTCACAAACTAG
Found at i:24840369 original size:26 final size:25
Alignment explanation
Indices: 24840340--24840440 Score: 87
Period size: 27 Copynumber: 3.8 Consensus size: 25
24840330 GGTATTTCAG
*
24840340 TAATTTCACAATCGAGGGTAAAACGA
1 TAATTTTA-AATCGAGGGTAAAACGA
* *
24840366 TAATTTTGTAAA-CTGAGGGTAAAATGG
1 TAA-TTT-TAAATC-GAGGGTAAAACGA
24840393 TAATTTTGTAAATCGAGGGTAAAACGA
1 TAA-TTT-TAAATCGAGGGTAAAACGA
*
24840420 TAATTCTATAAATTGAGGGTA
1 TAATT-T-TAAATCGAGGGTA
24840441 CTTTGGTAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
26 6 0.10
27 55 0.87
28 2 0.03
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (25 bp):
TAATTTTAAATCGAGGGTAAAACGA
Found at i:24840383 original size:27 final size:26
Alignment explanation
Indices: 24840353--24840440 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
24840343 TTTCACAATC
24840353 GAGGGTAAAACGATAATTTTGTAAACT
1 GAGGGTAAAACGATAATTTTGTAAA-T
* *
24840380 GAGGGTAAAATGGTAATTTTGTAAAT
1 GAGGGTAAAACGATAATTTTGTAAAT
* *
24840406 CGAGGGTAAAACGATAATTCTATAAATT
1 -GAGGGTAAAACGATAATTTTGTAAA-T
24840434 GAGGGTA
1 GAGGGTA
24840441 CTTTGGTAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.30
Consensus pattern (26 bp):
GAGGGTAAAACGATAATTTTGTAAAT
Found at i:24840463 original size:54 final size:53
Alignment explanation
Indices: 24840339--24840465 Score: 157
Period size: 54 Copynumber: 2.4 Consensus size: 53
24840329 GGGTATTTCA
* * *
24840339 GTAATTTCACAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAATG
1 GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
* ***
24840392 GTAATTTTGTA-AATCGAGGGTAAAACGATAATTCTATAAATTGAGGGTACTTTG
1 GTAA-TTT-TACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
24840446 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAA-TCGAGGG
24840466 CATTTCAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
52 2 0.03
53 9 0.14
54 51 0.81
55 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (53 bp):
GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
Found at i:24857181 original size:50 final size:49
Alignment explanation
Indices: 24857007--24857248 Score: 195
Period size: 50 Copynumber: 4.9 Consensus size: 49
24856997 ATTGTGAGTA
* ** * *
24857007 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTGCCATACTGTTAAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGT-AGAT
* * * * *
24857058 GCA--TGTGTAGTACTAAGTGCATGCTACTATGCGTATTCA-ATGACTTCGAT
1 -CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG--GTAGAT
* *
24857108 CACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTATCAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT-AGAT
* * *
24857158 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGGATTGTTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-GATGGTAGAT
* * * * * *
24857207 CGCATGTGTACTACTAAGTGCAGGCTACCATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
24857249 AGCTTCGGCT
Statistics
Matches: 158, Mismatches: 23, Indels: 21
0.78 0.11 0.10
Matches are distributed among these distances:
49 43 0.27
50 78 0.49
51 35 0.22
52 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAGAT
Found at i:24864549 original size:50 final size:50
Alignment explanation
Indices: 24864474--24864710 Score: 221
Period size: 50 Copynumber: 4.7 Consensus size: 50
24864464 TGAGTACACG
* *
24864474 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * * **
24864524 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATTCAATGACT-TCGA-TCACA
1 TGTGTAGTACTAAGTGCAGGCTACTA--CGTGTACCA-GACTGTTAAGTCACA
* * * * * **
24864575 TGTGTAGTACTAACTGCAGGCTACTACATGTATCAGA-TGGTGAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * * *
24864625 TGTGTAGTATTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* *
24864674 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
24864711 TAGCTTCGGC
Statistics
Matches: 149, Mismatches: 31, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 42 0.28
50 63 0.42
51 30 0.20
52 8 0.05
53 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:24870157 original size:48 final size:48
Alignment explanation
Indices: 24870086--24870457 Score: 507
Period size: 48 Copynumber: 7.8 Consensus size: 48
24870076 ACTGTATTAA
**
24870086 ATGTGCCTA-TGTAAGACCATGTCTGGGACATGGCATCAACGATGATAT
1 ATGTGCC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
24870134 ATGTGCCAGTGTAAGACTATGTCTAGGACATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
24870182 ATGTGCCTGTGTAAGACCATGTCTGGGGCATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
24870230 GTGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
24870278 ATGTTCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
24870326 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGACAATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
24870374 GTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
24870422 GTG-GATTCA-TGTAAGACCATGTCGGGGATATGGCAT
1 ATGTG--CCAGTGTAAGACCATGTCTGGGACATGGCAT
24870458 TGGTACTTTA
Statistics
Matches: 290, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
47 2 0.01
48 287 0.99
49 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:24874494 original size:27 final size:27
Alignment explanation
Indices: 24874464--24874641 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24874454 ATATTGAGTC
* * * *
24874464 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24874491 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24874518 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24874546 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24874573 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24874600 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24874627 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24874642 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24874603 original size:82 final size:81
Alignment explanation
Indices: 24874485--24874640 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24874475 TGCTATATAA
* *
24874485 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24874550 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24874567 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24874631 CACTTAGTGC
65 CACTTAGTGC
24874641 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24890688 original size:46 final size:46
Alignment explanation
Indices: 24890638--24890810 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
24890628 TGGTTGAGCA
* *
24890638 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGATTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGATCG
* * * * *
24890684 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGA-T---CG
* *
24890731 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGATCG
* *
24890777 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24890811 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.59
47 28 0.27
48 2 0.02
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGATCG
Found at i:24890794 original size:93 final size:93
Alignment explanation
Indices: 24890635--24890805 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
24890625 GGATGGTTGA
** *
24890635 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGATTGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24890700 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
24890728 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24890793 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
24890806 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:24894530 original size:30 final size:30
Alignment explanation
Indices: 24894495--24894552 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
24894485 TAGGAACTTC
* *
24894495 CACACGGGT-GATCTACACGTCCGTGTGTGA
1 CACACGGGTAGA-CCACACGCCCGTGTGTGA
24894525 CACACGGGTAGACCACACGCCCGTGTGT
1 CACACGGGTAGACCACACGCCCGTGTGT
24894553 CATGGCCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.19
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCGTGTGTGA
Found at i:24909067 original size:39 final size:40
Alignment explanation
Indices: 24909041--24909118 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 40
24909031 GGGACTTTAG
*
24909041 GCCCGGATAT-ATTCCAGCACGTAGCCTGC-GAACCTCAA
1 GCCCAGATATGATTCCAGCACGTAGCCTGCGGAACCTCAA
* *
24909079 GTCCAGATATGTTTCCAGCACGTAGCCTGCGG-ACCTCAA
1 GCCCAGATATGATTCCAGCACGTAGCCTGCGGAACCTCAA
24909118 G
1 G
24909119 TTTGGATATG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 8 0.23
39 26 0.74
40 1 0.03
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (40 bp):
GCCCAGATATGATTCCAGCACGTAGCCTGCGGAACCTCAA
Found at i:24909119 original size:39 final size:39
Alignment explanation
Indices: 24909052--24909134 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
24909042 CCCGGATATA
24909052 TTCCAGCACGTAGCCTGCGAACCTCAAGTCCAGATATGT
1 TTCCAGCACGTAGCCTGCGAACCTCAAGTCCAGATATGT
* ***
24909091 TTCCAGCACGTAGCCTGCGGACCTCAAGTTTGGATATGT
1 TTCCAGCACGTAGCCTGCGAACCTCAAGTCCAGATATGT
24909130 TTCCA
1 TTCCA
24909135 AATATCATGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (39 bp):
TTCCAGCACGTAGCCTGCGAACCTCAAGTCCAGATATGT
Found at i:24909803 original size:21 final size:21
Alignment explanation
Indices: 24909779--24909819 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
24909769 TGCATATTTT
*
24909779 AATTTCATAAACTAATTTACG
1 AATTTCATAAAATAATTTACG
24909800 AATTTCATAAAATAATTTAC
1 AATTTCATAAAATAATTTAC
24909820 TAAATCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCATAAAATAATTTACG
Found at i:24911816 original size:18 final size:18
Alignment explanation
Indices: 24911779--24911817 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24911769 TTGGAAATCA
*
24911779 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
24911797 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
24911815 AAA
1 AAA
24911818 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:24916341 original size:28 final size:28
Alignment explanation
Indices: 24916276--24916399 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
24916266 GAGATTGGCG
* * * *
24916276 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
24916305 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
24916333 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
24916361 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
24916389 CTGAGTGTGCG
1 CTAAGTGTGCG
24916400 GACTTAATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 74 0.83
29 15 0.17
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:24924055 original size:28 final size:28
Alignment explanation
Indices: 24923988--24924111 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
24923978 GAGATTGGCG
* * * * *
24923988 CTAAGTGTGCGGGTTTAAATTGTACATCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
24924017 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
24924045 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
24924073 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
24924101 CTGAGTGTGCG
1 CTAAGTGTGCG
24924112 GACTTAATAT
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 73 0.83
29 15 0.17
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:24925690 original size:18 final size:18
Alignment explanation
Indices: 24925664--24925753 Score: 94
Period size: 18 Copynumber: 5.1 Consensus size: 18
24925654 ATTGTCCCAT
* *
24925664 TGCAATAACAGTAAATAG
1 TGCAGTAACAGTAAACAG
*
24925682 TGCAGTAACAAT-AACAG
1 TGCAGTAACAGTAAACAG
* *
24925699 TGCAGTAACAGTTAATAG
1 TGCAGTAACAGTAAACAG
24925717 TGTC-GTAACAGTAAACAG
1 TG-CAGTAACAGTAAACAG
* *
24925735 TACAATAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
24925753 T
1 T
24925754 ATTCAAGTCC
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
17 16 0.27
18 43 0.72
19 1 0.02
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:24925716 original size:35 final size:36
Alignment explanation
Indices: 24925664--24925749 Score: 113
Period size: 35 Copynumber: 2.4 Consensus size: 36
24925654 ATTGTCCCAT
24925664 TGCAATAACAGTAAATAGTG-CAGTAACAAT-AACAG
1 TGCAATAACAGTAAATAGTGTC-GTAACAATAAACAG
* * *
24925699 TGCAGTAACAGTTAATAGTGTCGTAACAGTAAACAG
1 TGCAATAACAGTAAATAGTGTCGTAACAATAAACAG
*
24925735 TACAATAACAGTAAA
1 TGCAATAACAGTAAA
24925750 CAGTATTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
35 25 0.58
36 18 0.42
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (36 bp):
TGCAATAACAGTAAATAGTGTCGTAACAATAAACAG
Found at i:24926073 original size:27 final size:27
Alignment explanation
Indices: 24926055--24926158 Score: 163
Period size: 27 Copynumber: 3.9 Consensus size: 27
24926045 ATCTTACCAT
24926055 ATAAGGGCAAAACAATCATTTTACCTC
1 ATAAGGGCAAAACAATCATTTTACCTC
* * *
24926082 ATAAGGGCGAAACAGTCATTTTACCCC
1 ATAAGGGCAAAACAATCATTTTACCTC
* *
24926109 ATAAGGGCAAAATAGTCATTTTACCTC
1 ATAAGGGCAAAACAATCATTTTACCTC
24926136 ATAAGGGCAAAACAATCATTTTA
1 ATAAGGGCAAAACAATCATTTTA
24926159 TCAATTAAGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (27 bp):
ATAAGGGCAAAACAATCATTTTACCTC
Found at i:24926106 original size:54 final size:54
Alignment explanation
Indices: 24926027--24926158 Score: 174
Period size: 54 Copynumber: 2.4 Consensus size: 54
24926017 ACATACATCA
* * * * *
24926027 CATAGGGGTAAAATAGTCATCTTACCATATAAGGGCAAAACAATCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCT
* * * *
24926081 CATAAGGGCGAAACAGTCATTTTACCCCATAAGGGCAAAATAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCT
*
24926135 CATAAGGGCAAAACAATCATTTTA
1 CATAAGGGCAAAACAGTCATTTTA
24926159 TCAATTAAGG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
CATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCT
Done.