Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 82 of 172
Found at i:27291077 original size:150 final size:150
Alignment explanation
Indices: 27290806--27291105 Score: 591
Period size: 150 Copynumber: 2.0 Consensus size: 150
27290796 AAATTAAGTT
27290806 AATTATATTATCGGCTTCTTTATTTGCTTATGACTTACTAAGCTTTGGTAGCTTACTCCTTGTGT
1 AATTATATTATCGGCTTCTTTATTTGCTTATGACTTACTAAGCTTTGGTAGCTTACTCCTTGTGT
27290871 TATGTTTACTCTGTTTTTTTCTAGATTTTGAAGTTAAGCTACAAGCTCGGGAATCGTCAGAGAAG
66 TATGTTTACTCTGTTTTTTTCTAGATTTTGAAGTTAAGCTACAAGCTCGGGAATCGTCAGAGAAG
27290936 TTCATCACACTGTCTACTGC
131 TTCATCACACTGTCTACTGC
*
27290956 AATTATATTATCGGCTTGTTTATTTGCTTATGACTTACTAAGCTTTGGTAGCTTACTCCTTGTGT
1 AATTATATTATCGGCTTCTTTATTTGCTTATGACTTACTAAGCTTTGGTAGCTTACTCCTTGTGT
27291021 TATGTTTACTCTGTTTTTTTCTAGATTTTGAAGTTAAGCTACAAGCTCGGGAATCGTCAGAGAAG
66 TATGTTTACTCTGTTTTTTTCTAGATTTTGAAGTTAAGCTACAAGCTCGGGAATCGTCAGAGAAG
27291086 TTCATCACACTGTCTACTGC
131 TTCATCACACTGTCTACTGC
27291106 CTTGGTACCA
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (150 bp):
AATTATATTATCGGCTTCTTTATTTGCTTATGACTTACTAAGCTTTGGTAGCTTACTCCTTGTGT
TATGTTTACTCTGTTTTTTTCTAGATTTTGAAGTTAAGCTACAAGCTCGGGAATCGTCAGAGAAG
TTCATCACACTGTCTACTGC
Found at i:27301966 original size:27 final size:28
Alignment explanation
Indices: 27301936--27302025 Score: 96
Period size: 27 Copynumber: 3.3 Consensus size: 28
27301926 TTTAGTTTAC
*
27301936 TAAAATTATTGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
* * * *
27301963 TAAAAATACTAAAATGCCC-TCGATTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
* *
27301990 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
27302017 TAAAATTAC
1 TAAAATTAC
27302026 CAAAGTACCC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.08
27 48 0.92
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (28 bp):
TAAAATTACTGAAATACCCTTAGATTTG
Found at i:27302034 original size:27 final size:27
Alignment explanation
Indices: 27301960--27302034 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
27301950 TACCCTTAGT
* * * * *
27301960 TTGTAAAAATACTAAAATGCCCTCGAT
1 TTGTAAAATTACTCAAATACCTTCGAC
*
27301987 TTGTAAAATTACTGAAATACCTTCGAC
1 TTGTAAAATTACTCAAATACCTTCGAC
27302014 TTGTAAAATTAC-CAAAGTACC
1 TTGTAAAATTACTCAAA-TACC
27302035 CCCGATTTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.07
27 38 0.93
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACTCAAATACCTTCGAC
Found at i:27302041 original size:54 final size:54
Alignment explanation
Indices: 27301936--27302042 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
27301926 TTTAGTTTAC
* * * * *
27301936 TAAAATTATTGAAATACCCTTAGTTTGTAAAAATACTAAAATGCCCTCGATTTG
1 TAAAATTACTGAAATACCCTTAGCTTGTAAAAATACCAAAATACCCCCGATTTG
* * *
27301990 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTACCAAAGTACCCCCGATTT
1 TAAAATTACTGAAATACCCTTAG-CTTGTAAAAATACCAAAATACCCCCGATTT
27302043 ACATAATTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 5 0.11
54 39 0.89
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (54 bp):
TAAAATTACTGAAATACCCTTAGCTTGTAAAAATACCAAAATACCCCCGATTTG
Found at i:27302078 original size:81 final size:81
Alignment explanation
Indices: 27301979--27302187 Score: 208
Period size: 81 Copynumber: 2.6 Consensus size: 81
27301969 TACTAAAATG
** * *
27301979 CCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTA-A-AATTACCAAAGTACCCCCGATT
1 CCCTCGATTTACAGAATTACTGAAATACCCTCGA-TT-TACAGAATTACCAAAGTACCCCCGATT
*
27302042 TACATAATTACCGTTTTA
64 TACAGAATTACCGTTTTA
* *** *** *
27302060 GCCC-CGATTTACATAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTT
1 -CCCTCGATTTACAGAATTACTGAAATACCCTCGATTTACAGAATTACCAAAGTACCCCCGATTT
27302124 ACAGAATTACCGTTTTA
65 ACAGAATTACCGTTTTA
* *** *
27302141 CCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTAC
1 CCCTCGATTTACAGAATTACTGAAATACCCTCGATTTACAGAATTAC
27302188 TGTTTTACTC
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
79 2 0.02
80 6 0.06
81 98 0.90
82 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (81 bp):
CCCTCGATTTACAGAATTACTGAAATACCCTCGATTTACAGAATTACCAAAGTACCCCCGATTTA
CAGAATTACCGTTTTA
Found at i:27302215 original size:27 final size:27
Alignment explanation
Indices: 27302031--27302215 Score: 246
Period size: 27 Copynumber: 6.9 Consensus size: 27
27302021 ATTACCAAAG
* * *
27302031 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
27302058 TAGCCC-CGATTTACATAATTACTGTTT
1 TA-CCCTCGATTTACAGAATTACTGTTT
**
27302085 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
27302112 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
27302139 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
27302166 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
27302193 TACTCTCGATTTATAAAATTACT
1 TACCCTCGATTTACAGAATTACT
27302216 AAAATACCCT
Statistics
Matches: 143, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 3 0.02
27 137 0.96
28 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:27302236 original size:27 final size:27
Alignment explanation
Indices: 27302206--27302445 Score: 194
Period size: 27 Copynumber: 8.8 Consensus size: 27
27302196 TCTCGATTTA
* *
27302206 TAAAATTACTAAAATACCCTTGGTTTT
1 TAAAATTACCAAAATACCCTTGGTTTG
* *
27302233 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTG
27302260 TAAAATTACCAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTG
* * ***
27302287 TGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTTGGTTTG
* * *
27302314 TAAAATTACCAAAATACCCCTGATTTA
1 TAAAATTACCAAAATACCCTTGGTTTG
* * * *
27302341 CAAAGTTA-CAGAAATACCCTTGACTTTC
1 TAAAATTACCA-AAATACCCTTG-GTTTG
** * *
27302369 TAAAAATTATGAAAATACCATTGGTTTA
1 T-AAAATTACCAAAATACCCTTGGTTTG
* * **
27302397 CAAATTTACTGAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTG
* * * *
27302424 TAGATTTACCAAGACACCCTTG
1 TAAAATTACCAAAATACCCTTG
27302446 TAGGATGAAA
Statistics
Matches: 168, Mismatches: 41, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.01
27 143 0.85
28 6 0.04
29 16 0.10
30 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTTGGTTTG
Found at i:27302240 original size:81 final size:81
Alignment explanation
Indices: 27302064--27302241 Score: 203
Period size: 81 Copynumber: 2.2 Consensus size: 81
27302054 GTTTTAGCCC
* * *
27302064 CGATTTACATAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGA
1 CGATTTATAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAA
****
27302129 ATTACCGTTTTACCCT
66 ATTACCAAAATACCCT
* * ** * *
27302145 CGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACTCTCGATTTATAAA
1 CGATTTATAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAA
*
27302210 ATTACTAAAATACCCT
66 ATTACCAAAATACCCT
* * *
27302226 TGGTTTTTAAAATTAC
1 CGATTTATAAAATTAC
27302242 CAAAATACCC
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.42
Consensus pattern (81 bp):
CGATTTATAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAA
ATTACCAAAATACCCT
Found at i:27302562 original size:27 final size:27
Alignment explanation
Indices: 27302485--27302555 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 27
27302475 AGGTAAAAAT
*
27302485 ACCGTAAAGCCCCTGTAGGGTAAAGAG
1 ACCGTAAAGCCCCTGTAGGGTAAAGTG
*
27302512 ACCATAAAGCCCCTGTAGGGTAAAGTG
1 ACCGTAAAGCCCCTGTAGGGTAAAGTG
27302539 ACCGTAATA-CCCCTGTA
1 ACCGTAA-AGCCCCTGTA
27302556 TGATAAAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.18
Consensus pattern (27 bp):
ACCGTAAAGCCCCTGTAGGGTAAAGTG
Found at i:27302567 original size:27 final size:27
Alignment explanation
Indices: 27302480--27302567 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
27302470 CTATTAGGTA
27302480 AAAAT-ACCGTAAAGCCCCTGTAGGGT
1 AAAATGACCGTAAAGCCCCTGTAGGGT
*
27302506 AAAGA-GACCATAAAGCCCCTGTAGGGT
1 AAA-ATGACCGTAAAGCCCCTGTAGGGT
* * *
27302533 AAAGTGACCGTAATA-CCCCTGTATGAT
1 AAAATGACCGTAA-AGCCCCTGTAGGGT
27302560 AAAATGAC
1 AAAATGAC
27302568 GAATATGCCC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.06
27 48 0.92
28 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
AAAATGACCGTAAAGCCCCTGTAGGGT
Found at i:27303616 original size:42 final size:42
Alignment explanation
Indices: 27303557--27303648 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
27303547 TAGTCTCCCC
* ** *
27303557 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
27303599 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
27303641 AAATGGGC
1 AAATGGGC
27303649 CTATAGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:27303747 original size:31 final size:31
Alignment explanation
Indices: 27303672--27303750 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
27303662 TGTTTACAGT
* *
27303672 AAAGGCTTCAGCCAAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
27303703 AAAGGC-TCTGGCCCAGTGATATGATTTATTA
1 AAAGGCTTC-GGCCCAGTGAAATGATTTATGA
27303734 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
27303751 AATCGTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 2 0.05
31 38 0.90
32 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:27305358 original size:17 final size:17
Alignment explanation
Indices: 27305336--27305370 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
27305326 CCTATACATG
27305336 CCACTCACACAAATACA
1 CCACTCACACAAATACA
27305353 CCACTCACACAAATACA
1 CCACTCACACAAATACA
27305370 C
1 C
27305371 TTAAGGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.43, G:0.00, T:0.11
Consensus pattern (17 bp):
CCACTCACACAAATACA
Found at i:27308699 original size:17 final size:18
Alignment explanation
Indices: 27308668--27308702 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27308658 TTTTACTTTA
*
27308668 TTTTTTATTTATTTTAAT
1 TTTTTTATGTATTTTAAT
27308686 TTTTTTATGT-TTTTAAT
1 TTTTTTATGTATTTTAAT
27308703 CACCCTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTTTATGTATTTTAAT
Found at i:27312159 original size:30 final size:29
Alignment explanation
Indices: 27312116--27312179 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
27312106 CAAGTAACCG
27312116 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
27312145 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
27312175 AAGCT
1 AAGCT
27312180 TCTGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:27326418 original size:15 final size:15
Alignment explanation
Indices: 27326398--27326427 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27326388 TTCTTGAGGT
27326398 GAAATCCTAGGAAGC
1 GAAATCCTAGGAAGC
27326413 GAAATCCTAGGAAGC
1 GAAATCCTAGGAAGC
27326428 ATGGAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (15 bp):
GAAATCCTAGGAAGC
Found at i:27336177 original size:27 final size:27
Alignment explanation
Indices: 27335936--27336180 Score: 244
Period size: 27 Copynumber: 9.1 Consensus size: 27
27335926 GGCAAATCAA
* * * *
27335936 TCATTTTACCTTACAGGGGTGTTAT-AG
1 TCATTTTACCCTATAGGGGTATT-TCGG
* * *
27335963 TCATTTTACCCTATAGGCGTATTACAG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * * *
27335990 TCATTTTACCCTACAAGGGTATTACAG
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
27336017 TCATTTTACCTTATAGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
27336044 TCATTTTACCCTATATGTGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
27336071 TCATTTTAACCTATGGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
27336098 TCATTTTGCCCTAT-GAGGGTATTTCGA
1 TCATTTTACCCTATAG-GGGTATTTCGG
27336125 TCATTTTACCCTAT-GGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
27336151 TCATTTTACACTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
27336178 TCA
1 TCA
27336181 CCATTTCGGC
Statistics
Matches: 187, Mismatches: 28, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
26 24 0.13
27 163 0.87
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGG
Found at i:27337086 original size:27 final size:27
Alignment explanation
Indices: 27337045--27337412 Score: 459
Period size: 27 Copynumber: 13.7 Consensus size: 27
27337035 CCTAAATTAA
** * *
27337045 TAAAATGACAATTTTGCTCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
27337072 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* **
27337099 TAAATTGACTGTTTTGCCCTTATGTCG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
27337126 TAAAATGACTATTTAGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
27337153 TAAAATAACTGTTTTGCCATTGTGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * * *
27337180 TAAAATGACTATTTTTCCTTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
27337207 TAAATTGACTGTTTTGCCTTTTTGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
27337234 T-AAATGACTATTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
27337260 TAAAATGACTATTTTGCCTTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
27337287 TAAAATGGCTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
27337314 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
**
27337341 TAAAATGGTTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
27337368 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
27337395 TAAAATGATTGTTTTGCC
1 TAAAATGACTGTTTTGCC
27337413 TTTTTATTGT
Statistics
Matches: 295, Mismatches: 45, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.07
27 273 0.93
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:27337826 original size:18 final size:18
Alignment explanation
Indices: 27337767--27337826 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
27337757 TACTATTCAA
*
27337767 ACTGTTACTGCACGGATT
1 ACTGTTACTGCACTGATT
* *
27337785 ACTATTACTGCATTGATT
1 ACTGTTACTGCACTGATT
*
27337803 ATTGTTACTGCACTGATT
1 ACTGTTACTGCACTGATT
27337821 ACTGTT
1 ACTGTT
27337827 GCATGGTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:27345991 original size:41 final size:40
Alignment explanation
Indices: 27345929--27346009 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 40
27345919 AGAAAGGAAG
27345929 GGAAAGAGCTTGAGAAAATCGGCTATGGTGGTTTGCTAGA
1 GGAAAGAGCTTGAGAAAATCGGCTATGGTGGTTTGCTAGA
27345969 GGAAAGAGCTTCGAGAAAATCGGCTATGGTGGTTTGCTAGA
1 GGAAAGAGCTT-GAGAAAATCGGCTATGGTGGTTTGCTAGA
27346010 CTAAGGTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 11 0.28
41 29 0.73
ACGTcount: A:0.30, C:0.11, G:0.35, T:0.25
Consensus pattern (40 bp):
GGAAAGAGCTTGAGAAAATCGGCTATGGTGGTTTGCTAGA
Found at i:27347239 original size:40 final size:40
Alignment explanation
Indices: 27347184--27347361 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
27347174 TGGATGATAA
*
27347184 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAT
* **
27347224 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAT
27347264 CCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAT
* * * * *
27347304 CAGGGGTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTA-CTATAT
* *
27347344 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27347362 TACTTGGCTT
Statistics
Matches: 123, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 15 0.12
40 108 0.88
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAT
Found at i:27354102 original size:33 final size:32
Alignment explanation
Indices: 27354054--27354115 Score: 115
Period size: 33 Copynumber: 1.9 Consensus size: 32
27354044 AAGGAAGGGG
27354054 AAGAGCTTGAGAAAATCGGCTATGGTGGTGGA
1 AAGAGCTTGAGAAAATCGGCTATGGTGGTGGA
27354086 AAGAGCTTCGAGAAAATCGGCTATGGTGGT
1 AAGAGCTT-GAGAAAATCGGCTATGGTGGT
27354116 TTGCTAGACT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.28
33 21 0.72
ACGTcount: A:0.31, C:0.11, G:0.35, T:0.23
Consensus pattern (32 bp):
AAGAGCTTGAGAAAATCGGCTATGGTGGTGGA
Found at i:27355355 original size:40 final size:40
Alignment explanation
Indices: 27355300--27355516 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
27355290 TGGATGATAA
* * * *
27355300 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-TAT
27355340 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-TATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
*
27355379 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
*
27355419 CCAGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
* * * *
27355459 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-CTATAT
* *
27355499 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27355517 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 51 0.32
40 107 0.67
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
Found at i:27355431 original size:79 final size:79
Alignment explanation
Indices: 27355300--27355516 Score: 296
Period size: 79 Copynumber: 2.7 Consensus size: 79
27355290 TGGATGATAA
* * *
27355300 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTA-TATCC-GGCTAAGTCCCGAAGGCATTG
27355364 GTGCGAGTTA-TATAT
64 GTGCGAGTTACTATAT
* *
27355379 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATATCC-GGCTAAGTCCCGAAGGCATTGG
27355444 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
* * * *
27355459 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATATCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CTATATCCGGCTAAGTCCCGAAGG
27355517 TACTTGGCTT
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
78 1 0.01
79 84 0.67
80 40 0.32
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATATCCGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTATAT
Found at i:27361119 original size:47 final size:47
Alignment explanation
Indices: 27361065--27361349 Score: 347
Period size: 47 Copynumber: 6.1 Consensus size: 47
27361055 TTAGGATTTT
** * * * **
27361065 ATGTGATGAATGTGAATGTGTATATATGAGATAAAGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
27361112 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
27361159 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
27361206 ATCTGATGAATGAGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * **
27361253 ATGTGATGAATGAGAACATGTATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
27361300 ATGTGACGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
27361347 ATG
1 ATG
27361350 CGAAATGTGT
Statistics
Matches: 211, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
47 208 0.99
48 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:27361142 original size:25 final size:25
Alignment explanation
Indices: 27361113--27361190 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
27361103 GAATGGAAAA
27361113 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
27361138 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
27361160 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
27361185 TGTGAT
1 TGTGAT
27361191 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 8 0.20
25 15 0.38
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATATG
Found at i:27361379 original size:46 final size:46
Alignment explanation
Indices: 27361323--27361441 Score: 211
Period size: 46 Copynumber: 2.6 Consensus size: 46
27361313 GGAAGTGTAT
*
27361323 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
27361369 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
27361415 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
27361442 TGAGAGATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:27365198 original size:46 final size:46
Alignment explanation
Indices: 27365141--27365997 Score: 1599
Period size: 46 Copynumber: 18.6 Consensus size: 46
27365131 ATGAAATGTG
27365141 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365187 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365233 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365279 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365325 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365371 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365417 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365463 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365509 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365555 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365601 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365647 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365693 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365739 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365785 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * * **
27365831 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
27365877 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* *
27365923 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAA
* * * *
27365969 TAAAACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
27365998 TCACGTCAAA
Statistics
Matches: 794, Mismatches: 16, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
45 5 0.01
46 789 0.99
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.18
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
Found at i:27366671 original size:22 final size:22
Alignment explanation
Indices: 27366643--27366686 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
27366633 TCTGGCAGCG
*
27366643 GATACGGGTTAGGGGTGTTACA
1 GATACGGGATAGGGGTGTTACA
27366665 GATACGGGATAGGGGTGTTACA
1 GATACGGGATAGGGGTGTTACA
27366687 AAGCCTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.09, G:0.41, T:0.25
Consensus pattern (22 bp):
GATACGGGATAGGGGTGTTACA
Found at i:27373671 original size:8 final size:8
Alignment explanation
Indices: 27373658--27373686 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
27373648 TTGAATGAAA
27373658 TGAATGGT
1 TGAATGGT
27373666 TGAATGGT
1 TGAATGGT
27373674 TGAATGGT
1 TGAATGGT
27373682 TGAAT
1 TGAAT
27373687 TTGTATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (8 bp):
TGAATGGT
Found at i:27388610 original size:15 final size:15
Alignment explanation
Indices: 27388590--27388620 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27388580 TCATGTTTTA
*
27388590 TTTTATTTTATTAAT
1 TTTTATTTCATTAAT
27388605 TTTTATTTCATTAAT
1 TTTTATTTCATTAAT
27388620 T
1 T
27388621 ACTAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTTCATTAAT
Found at i:27388839 original size:13 final size:13
Alignment explanation
Indices: 27388821--27388845 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27388811 ACAAACGATA
27388821 AAATTTTCACACG
1 AAATTTTCACACG
27388834 AAATTTTCACAC
1 AAATTTTCACAC
27388846 ATATCACATG
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:27416702 original size:39 final size:40
Alignment explanation
Indices: 27416607--27416868 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
27416597 TTGAATGATG
*
27416607 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
27416645 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
27416686 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
27416725 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
27416764 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
27416803 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
27416842 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27416869 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:27423515 original size:21 final size:23
Alignment explanation
Indices: 27423491--27423532 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
27423481 GTACTTGAGT
27423491 ACATTTT-GTT-GCATTTTTAGG
1 ACATTTTAGTTAGCATTTTTAGG
*
27423512 ACATTTTATTTAGCATTTTTA
1 ACATTTTAGTTAGCATTTTTA
27423533 ATATTGCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.55
Consensus pattern (23 bp):
ACATTTTAGTTAGCATTTTTAGG
Found at i:27428956 original size:16 final size:16
Alignment explanation
Indices: 27428945--27428987 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
27428935 CAAAAATTCT
27428945 AAATGTCGAAAAGCTG
1 AAATGTCGAAAAGCTG
*
27428961 AAATGTCGAAAAGCCG
1 AAATGTCGAAAAGCTG
*
27428977 AAATGCCGAAA
1 AAATGTCGAAA
27428988 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.14
Consensus pattern (16 bp):
AAATGTCGAAAAGCTG
Found at i:27429297 original size:35 final size:29
Alignment explanation
Indices: 27429202--27429342 Score: 162
Period size: 28 Copynumber: 5.0 Consensus size: 29
27429192 CATGAATGTA
*
27429202 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
27429230 AATTTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* *
27429259 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * *
27429288 AATTTGA-ATGGGCTTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * * *
27429316 AAAGAGA-TTGGGCCTAGTGGGCTATAT
1 AATGTGATTTGGGCCTAATGGGCCATAT
27429343 ATATAGGTAT
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 54 0.57
29 41 0.43
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.30
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:27429300 original size:57 final size:58
Alignment explanation
Indices: 27429202--27429337 Score: 188
Period size: 57 Copynumber: 2.4 Consensus size: 58
27429192 CATGAATGTA
* * *
27429202 AATGTGATTTGGGCCTAGT-GGCCATATGAATTTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCACATAAATTTGATATGGGCCTAATGGGCCATATG
* *
27429259 AATGTGATTTGGGCCTAATGGGCCACATAAATTTGA-ATGGGCTTAATGGGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCACATAAATTTGATATGGGCCTAATGGGCCATATG
* *
27429316 AAAGAGA-TTGGGCCTAGTGGGC
1 AATGTGATTTGGGCCTAGTGGGC
27429338 TATATATATA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 14 0.20
57 42 0.60
58 14 0.20
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (58 bp):
AATGTGATTTGGGCCTAGTGGGCCACATAAATTTGATATGGGCCTAATGGGCCATATG
Found at i:27433290 original size:10 final size:10
Alignment explanation
Indices: 27433275--27433304 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
27433265 CGTGTGATAG
*
27433275 GATCTCTAAC
1 GATCTCCAAC
27433285 GATCTCCAAC
1 GATCTCCAAC
27433295 GATCTCCAAC
1 GATCTCCAAC
27433305 CCGAGCTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.30, C:0.37, G:0.10, T:0.23
Consensus pattern (10 bp):
GATCTCCAAC
Found at i:27434145 original size:42 final size:42
Alignment explanation
Indices: 27434098--27434259 Score: 198
Period size: 42 Copynumber: 3.8 Consensus size: 42
27434088 TATCGTACCA
* * * **
27434098 ATGCCATATCCCAGATATAGTCTTACATGTAATCTTGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
*** * *
27434140 ATGCCAATAAGTCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* *
27434183 ATGCCATATCCTAGATATGGTCTTACATGAAATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
*
27434225 ATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCT
27434260 TAGTAACCCT
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
42 67 0.68
43 32 0.32
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
Found at i:27439678 original size:10 final size:10
Alignment explanation
Indices: 27439663--27439692 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
27439653 CGTGTGATAG
*
27439663 GATCTCCGAC
1 GATCTCCAAC
27439673 GATCTCCAAC
1 GATCTCCAAC
27439683 GATCTCCAAC
1 GATCTCCAAC
27439693 CCAAGCTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.27, C:0.40, G:0.13, T:0.20
Consensus pattern (10 bp):
GATCTCCAAC
Found at i:27440602 original size:42 final size:42
Alignment explanation
Indices: 27440489--27440646 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
27440479 GTACCAATGA
* * * **
27440489 CATATCCCAGATATGGTCTTGCATGTAATCTTGTATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
* * * *
27440531 CAATAGCCCAGCTATGGTCGTACATGAAATCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
*
27440574 CATATTCCAGATATGGTCTTACACGAAATCTCATATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
** * *
27440616 CATATCTTAGATATGGTATTACACGTAATCT
1 CATATCCCAGATATGGTCTTACACGAAATCT
27440647 TAGTAACCCT
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
42 63 0.64
43 35 0.36
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
Found at i:27442654 original size:42 final size:42
Alignment explanation
Indices: 27442595--27442678 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
27442585 TTGTAGGTTC
* *
27442595 GTGGCTAGGGAGATCGCAGCACGTTCTATTACCAGGTGTGTA
1 GTGGCTAGAGAGATCGCAACACGTTCTATTACCAGGTGTGTA
27442637 GTGGCTAGAGAGATCGCAACACGTTCTATTACCAGGTGTGTA
1 GTGGCTAGAGAGATCGCAACACGTTCTATTACCAGGTGTGTA
27442679 CATACACTGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (42 bp):
GTGGCTAGAGAGATCGCAACACGTTCTATTACCAGGTGTGTA
Found at i:27442992 original size:29 final size:29
Alignment explanation
Indices: 27442950--27443031 Score: 114
Period size: 28 Copynumber: 2.9 Consensus size: 29
27442940 ATGATTATGG
27442950 ATGTGATTTGGGCCTAATGGGCCATACGA
1 ATGTGATTTGGGCCTAATGGGCCATACGA
* *
27442979 ATGTGATTTGGGCC-AATGGACCATATGA
1 ATGTGATTTGGGCCTAATGGGCCATACGA
* *
27443007 ATGAGA-TTGGGCCTAGTGGGCCATA
1 ATGTGATTTGGGCCTAATGGGCCATA
27443032 TACATGTATG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
27 7 0.15
28 26 0.55
29 14 0.30
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
ATGTGATTTGGGCCTAATGGGCCATACGA
Found at i:27444187 original size:17 final size:18
Alignment explanation
Indices: 27444154--27444187 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27444144 TTTAAGGAAG
27444154 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
27444172 GGTTTTCAAT-AAAACA
1 GGTTTTCAATGAAAACA
27444188 CTTCAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:27445965 original size:15 final size:14
Alignment explanation
Indices: 27445945--27445974 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
27445935 GATATGTTTC
27445945 AAATTACTGTGAATA
1 AAATTACTGT-AATA
27445960 AAATTACTGTAATA
1 AAATTACTGTAATA
27445974 A
1 A
27445975 GTCTATTACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (14 bp):
AAATTACTGTAATA
Found at i:27450520 original size:16 final size:16
Alignment explanation
Indices: 27450487--27450520 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27450477 AAATCCTGAT
*
27450487 ATGCCGAAAAGCCGAA
1 ATGCCGAAAAGCCAAA
*
27450503 ATGCCGAAAAGCTAAA
1 ATGCCGAAAAGCCAAA
27450519 AT
1 AT
27450521 TTTGGCTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.12
Consensus pattern (16 bp):
ATGCCGAAAAGCCAAA
Found at i:27454154 original size:14 final size:14
Alignment explanation
Indices: 27454109--27454158 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
27454099 TCATCCACAC
27454109 ATATACATA--TAT
1 ATATACATATGTAT
*
27454121 ATATACAAACTG-AT
1 ATATACATA-TGTAT
*
27454135 AAATACATATGTAT
1 ATATACATATGTAT
27454149 ATATACATAT
1 ATATACATAT
27454159 CTAATTACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 8 0.27
13 2 0.07
14 20 0.67
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (14 bp):
ATATACATATGTAT
Found at i:27460924 original size:22 final size:22
Alignment explanation
Indices: 27460886--27460930 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
27460876 TCGAGAATCG
*
27460886 ACTAAATCATAGCTCTGATACC
1 ACTAAATCATAACTCTGATACC
*
27460908 ACTAAAT-ATAACATCTGTTACC
1 ACTAAATCATAAC-TCTGATACC
27460930 A
1 A
27460931 GTATTCAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (22 bp):
ACTAAATCATAACTCTGATACC
Found at i:27464239 original size:40 final size:40
Alignment explanation
Indices: 27464162--27464302 Score: 196
Period size: 40 Copynumber: 3.5 Consensus size: 40
27464152 ACCCAAGTAT
*
27464162 CTTCGGGACTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
27464201 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
27464241 CTTTGGGATTTAGCCCGGATATAATCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
27464281 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
27464303 CATCTGAATA
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 12 0.13
40 76 0.85
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:27466241 original size:43 final size:42
Alignment explanation
Indices: 27466179--27466300 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
27466169 TATCGTACAA
* *
27466179 ATGCCATATCCCAGATATGGTCTTACATGTAATCTTGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTTATATCG
* * * *
27466221 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAATCTTATATCG
* *
27466264 ATGCCATATCCCAGATACGGTCGTACACGTAATCTTA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTTA
27466301 GTAACCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTTATATCG
Found at i:27468885 original size:16 final size:16
Alignment explanation
Indices: 27468864--27468895 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27468854 TGAGTACTTA
*
27468864 GTATTCTGTTGAATAT
1 GTATTCTATTGAATAT
27468880 GTATTCTATTGAATAT
1 GTATTCTATTGAATAT
27468896 TCACGTTAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (16 bp):
GTATTCTATTGAATAT
Found at i:27470945 original size:38 final size:38
Alignment explanation
Indices: 27470894--27471054 Score: 133
Period size: 38 Copynumber: 4.0 Consensus size: 38
27470884 TTTCAAATTA
* *
27470894 ACATGTATAACCGTGGCATATCCTCTTAGCACCACATT
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCACATT
* * *
27470932 ACATGTTTAACCGTGGTATATCCACTTAGCCCCACGTTAATGA
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCAC----AT-T
* * *
27470975 ATCAATATATGTAACCATGGCATATCCACTTAGCACCACGTT
1 A-C-ATGT-T-TAACCGTGGCATATCCACTTAGCACCACATT
* ** *
27471017 ACATGTGTAATAGTGGTATATCCACTTAGCACCACATT
1 ACATGTTTAACCGTGGCATATCCACTTAGCACCACATT
27471055 TTTTCATTCT
Statistics
Matches: 96, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
38 57 0.59
40 3 0.03
41 1 0.01
42 3 0.03
43 2 0.02
44 1 0.01
45 3 0.03
46 1 0.01
47 25 0.26
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTTTAACCGTGGCATATCCACTTAGCACCACATT
Found at i:27473322 original size:15 final size:15
Alignment explanation
Indices: 27473299--27473340 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
27473289 GAAGCCTAGA
27473299 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
27473314 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
27473329 ATAAGGAAATCC
1 ATAAGGAAATCC
27473341 CATTTACAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:27476577 original size:46 final size:47
Alignment explanation
Indices: 27476545--27476636 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
27476535 TCCACTTTTC
* *
27476545 AAATTAACATGTATAACCGTGGCATATCCACTTAGCACCACGTTAAT
1 AAATCAACATATATAACCGTGGCATATCCACTTAGCACCACGTTAAT
* * *
27476592 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTA
1 AAATCAACATATATAACCGTGGCATATCCACTTAGCACCACGTTA
27476637 CATGTTTAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (47 bp):
AAATCAACATATATAACCGTGGCATATCCACTTAGCACCACGTTAAT
Found at i:27478658 original size:56 final size:56
Alignment explanation
Indices: 27478572--27478691 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
27478562 ACAAGGGATG
27478572 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
27478628 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
27478684 ATGGGCAA
1 ATGGGCAA
27478692 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:27480050 original size:40 final size:40
Alignment explanation
Indices: 27479819--27480043 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
27479809 TCGAATGATG
* * * *
27479819 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
27479859 TCCGGAATAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27479899 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27479938 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27479978 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27480019 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27480044 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27480065 original size:119 final size:119
Alignment explanation
Indices: 27479826--27480076 Score: 278
Period size: 119 Copynumber: 2.1 Consensus size: 119
27479816 ATGTCCGGGC
*
27479826 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGAATAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGAATAAGATCCGAAGGCATTTGTGCGAG
* ** *
27479891 ATACTAATTCCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACTAAATCTGGGT
66 ATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAAATCTCGGT
* * * **
27479945 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGAATAAGAT-CCGAAGGCATTTGTGCG
* * * *
27480008 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC-CGGT
64 AGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTA-CTAAATCTCGGT
* *
27480064 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
27480077 TACGTGATTT
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 78 0.70
120 30 0.27
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGAATAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAAATCTCGGT
Found at i:27488931 original size:46 final size:47
Alignment explanation
Indices: 27488879--27489044 Score: 175
Period size: 46 Copynumber: 3.6 Consensus size: 47
27488869 ACCCGCCCAG
* *
27488879 AAGTGAACTCAGACTCAACTCAACAAGCTCAGG-CGTTCACATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCAGGACGTTCACATCCAT
*
27488925 AAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACATCTC-T
1 AAGTGAACTCGGACTCAACTCAACGAGCTCAG--GAC--GTTCACATC-CAT
* * * *
27488975 ---CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCAGGACGTTCACATCCAT
27489018 AAGTGAACTCGGACTCAACTCAACGAG
1 AAGTGAACTCGGACTCAACTCAACGAG
27489045 TTCGGATGCC
Statistics
Matches: 101, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
46 54 0.53
47 25 0.25
48 1 0.01
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (47 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCAGGACGTTCACATCCAT
Found at i:27489015 original size:93 final size:93
Alignment explanation
Indices: 27488883--27489054 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
27488873 GCCCAGAAGT
*
27488883 GAACTCAGACTCAACTCAACAAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCAGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
27488948 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* * * *
27488976 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACAAGCTCAGG-CATTCACATCCATAAGTGAACTCGGACTCAACTCA
* *
27489040 ACGAGTTCGGATGCC
65 ACGAGCTCAGATGCC
27489055 CAAATATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCAGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:27489069 original size:46 final size:44
Alignment explanation
Indices: 27488926--27489069 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
27488916 CACATCCATA
* * *
27488926 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
27488975 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
27489018 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
27489065 AGTGA
1 AGTGA
27489070 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:27493502 original size:44 final size:44
Alignment explanation
Indices: 27493453--27494336 Score: 1768
Period size: 44 Copynumber: 20.1 Consensus size: 44
27493443 TTATTAATTA
27493453 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27493497 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27493541 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27493585 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27493629 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27493673 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27493717 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27493761 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27493805 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27493849 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27493893 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27493937 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27493981 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27494025 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27494069 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27494113 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27494157 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27494201 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27494245 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27494289 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
1 TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
27494333 TAAC
1 TAAC
27494337 ATTCCACTAA
Statistics
Matches: 840, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 840 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (44 bp):
TAACTTAATTAATCAATTTCCATTTTTAACCTTATTATTATCAT
Found at i:27500385 original size:29 final size:29
Alignment explanation
Indices: 27500352--27500409 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
27500342 AGTTTTTGGT
27500352 TATGCTTTTCGGATTAACAAATGCACCTA
1 TATGCTTTTCGGATTAACAAATGCACCTA
*
27500381 TATGCTTTTTGGATTAACAAATGCACCTA
1 TATGCTTTTCGGATTAACAAATGCACCTA
27500410 CTATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (29 bp):
TATGCTTTTCGGATTAACAAATGCACCTA
Found at i:27500422 original size:29 final size:28
Alignment explanation
Indices: 27500356--27500424 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
27500346 TTTGGTTATG
*
27500356 CTTTTCGGATTAACAAATGCACCTATAT
1 CTTTTTGGATTAACAAATGCACCTATAT
27500384 GCTTTTTGGATTAACAAATGCACCTACTAT
1 -CTTTTTGGATTAACAAATGCACCTA-TAT
27500414 -TTTTATGGATT
1 CTTTT-TGGATT
27500425 TGATTAATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 4 0.11
29 30 0.81
30 3 0.08
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (28 bp):
CTTTTTGGATTAACAAATGCACCTATAT
Found at i:27504747 original size:40 final size:40
Alignment explanation
Indices: 27504699--27504791 Score: 150
Period size: 40 Copynumber: 2.3 Consensus size: 40
27504689 GCAAACACAT
*
27504699 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
* * *
27504739 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
27504779 TTGCCTTCGGGTC
1 TTGCCTTCGGGTC
27504792 ACGGGTTGGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
Found at i:27504934 original size:195 final size:195
Alignment explanation
Indices: 27504598--27504961 Score: 701
Period size: 195 Copynumber: 1.9 Consensus size: 195
27504588 CCTTATCGTT
27504598 CGGGTTGGTCGAGCATATTTATTGAATTAGTTACAGCACAAAACGCTCACATTCAAACCCAAGTT
1 CGGGTTGGTCGAGCATATTTATTGAATTAGTTACAGCACAAAACGCTCACATTCAAACCCAAGTT
27504663 TCTTCGGTATTTAACCGAATATAGCCGCAAACACATTTGCCTTCGGGTCTTAACCCGGACATATC
66 TCTTCGGTATTTAACCGAATATAGCCGCAAACACATTTGCCTTCGGGTCTTAACCCGGACATATC
*
27504728 AACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGCCTTCGGGTCA
131 AACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGCCTTCGGGTCA
27504793 CGGGTTGGTCGAGCATATTTATTGAATTAGTTACAGCACAAAACGCTCACATTCAAACCCAAGTT
1 CGGGTTGGTCGAGCATATTTATTGAATTAGTTACAGCACAAAACGCTCACATTCAAACCCAAGTT
* *
27504858 TCTTCGGTATTTAACCGAATATAGCCGCAAACACATTTGCCTTCGGGTCTTAGCCCGGATATATC
66 TCTTCGGTATTTAACCGAATATAGCCGCAAACACATTTGCCTTCGGGTCTTAACCCGGACATATC
27504923 AACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
131 AACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
27504962 TCCAATGCTC
Statistics
Matches: 166, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
195 166 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (195 bp):
CGGGTTGGTCGAGCATATTTATTGAATTAGTTACAGCACAAAACGCTCACATTCAAACCCAAGTT
TCTTCGGTATTTAACCGAATATAGCCGCAAACACATTTGCCTTCGGGTCTTAACCCGGACATATC
AACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTGCCTTCGGGTCA
Found at i:27509680 original size:46 final size:46
Alignment explanation
Indices: 27509608--27509781 Score: 242
Period size: 46 Copynumber: 3.8 Consensus size: 46
27509598 TGTAACCCGC
27509608 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGATCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGATCACAT
* * * * * **
27509654 CCATGAGTGAAATCAGACTCAACTCAACGAGTTCGGAC-ATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGA-TCACAT
27509700 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGATCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGATCACAT
* * *
27509746 CCATGAGTGAACTGGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
27509782 ATGCCCAAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
45 1 0.01
46 107 0.98
47 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGATCACAT
Found at i:27509765 original size:92 final size:92
Alignment explanation
Indices: 27509608--27509782 Score: 323
Period size: 92 Copynumber: 1.9 Consensus size: 92
27509598 TGTAACCCGC
27509608 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGATCACATCCATGAGTGAAATCAGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGATCACATCCATGAGTGAAATCAGACT
27509673 CAACTCAACGAGTTCGGACATTTGCAT
66 CAACTCAACGAGTTCGGACATTTGCAT
* **
27509700 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGATCACATCCATGAGTGAACTGGGACT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGATCACATCCATGAGTGAAATCAGACT
27509765 CAACTCAACGAGTTCGGA
66 CAACTCAACGAGTTCGGA
27509783 TGCCCAAATG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (92 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGATCACATCCATGAGTGAAATCAGACT
CAACTCAACGAGTTCGGACATTTGCAT
Found at i:27511751 original size:30 final size:30
Alignment explanation
Indices: 27511706--27511794 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
27511696 AAAAGATAAC
27511706 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
27511735 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
27511765 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
27511795 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:27511754 original size:15 final size:15
Alignment explanation
Indices: 27511706--27511785 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
27511696 AAAAGATAAC
*
27511706 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
27511720 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
27511735 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
27511750 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
27511765 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
27511780 AAGAAA
1 AAGAAA
27511786 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:27511794 original size:15 final size:15
Alignment explanation
Indices: 27511717--27511794 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
27511707 AGAAAACCGA
27511717 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
27511732 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
27511746 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
27511761 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
27511777 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
27511792 ATA
1 ATA
27511795 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:27514827 original size:46 final size:46
Alignment explanation
Indices: 27514734--27514914 Score: 236
Period size: 46 Copynumber: 3.9 Consensus size: 46
27514724 TGTAACCCGC
* * * ** *
27514734 CCATAAGCGAACTCGGACTCAACGCAACGAGCTCGGGTGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACAT
* * * *
27514780 CCATGAGTGAAATTGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACAT
**
27514826 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACAT
* *
27514872 CCATAAGTGAACTGGGACTCAACTCAACGAGTTCGGATGCTCA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCA
27514915 ACCATCCTAG
Statistics
Matches: 115, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACAT
Found at i:27514891 original size:92 final size:92
Alignment explanation
Indices: 27514734--27514913 Score: 270
Period size: 92 Copynumber: 2.0 Consensus size: 92
27514724 TGTAACCCGC
*** * *
27514734 CCATAAGCGAACTCGGACTCAACGCAACGAGCTCGGGTGTTCACATCCATGAGTGAAATTGGACT
1 CCATAAGCGAACTCGGACTCAACGCAACGAGCTCGGACATTCACATCCATAAGTGAAATGGGACT
27514799 CAACTCAACGAGTTCGGACGCTCGCAT
66 CAACTCAACGAGTTCGGACGCTCGCAT
* * * *
27514826 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTGGGACT
1 CCATAAGCGAACTCGGACTCAACGCAACGAGCTCGGACATTCACATCCATAAGTGAAATGGGACT
*
27514891 CAACTCAACGAGTTCGGATGCTC
66 CAACTCAACGAGTTCGGACGCTC
27514914 AACCATCCTA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (92 bp):
CCATAAGCGAACTCGGACTCAACGCAACGAGCTCGGACATTCACATCCATAAGTGAAATGGGACT
CAACTCAACGAGTTCGGACGCTCGCAT
Found at i:27517589 original size:19 final size:19
Alignment explanation
Indices: 27517567--27517603 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27517557 CATTATACAA
27517567 TTTAAATGATTTTAAAAAT
1 TTTAAATGATTTTAAAAAT
**
27517586 TTTAAATTTTTTTAAAAA
1 TTTAAATGATTTTAAAAA
27517604 GTATGAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTAAATGATTTTAAAAAT
Found at i:27517612 original size:20 final size:19
Alignment explanation
Indices: 27517576--27517615 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
27517566 ATTTAAATGA
* *
27517576 TTTTAAAAATTTTAAATTT
1 TTTTAAAAATATGAAATTT
27517595 TTTTAAAAAGTATGAAATTT
1 TTTTAAAAA-TATGAAATTT
27517615 T
1 T
27517616 AAATAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TTTTAAAAATATGAAATTT
Found at i:27518704 original size:7 final size:7
Alignment explanation
Indices: 27518664--27518703 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
27518654 TTTTCCATTT
27518664 TCAATCC
1 TCAATCC
27518671 TCAATCC
1 TCAATCC
27518678 TCAATCC
1 TCAATCC
27518685 TCAATCC
1 TCAATCC
* *
27518692 TTAATTC
1 TCAATCC
27518699 TCAAT
1 TCAAT
27518704 TTTCAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (7 bp):
TCAATCC
Found at i:27518709 original size:21 final size:21
Alignment explanation
Indices: 27518660--27518710 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
27518650 CCAATTTTCC
27518660 ATTTTCAATCCTCAATCCTCA
1 ATTTTCAATCCTCAATCCTCA
** * *
27518681 ATCCTCAATCCTTAATTCTCA
1 ATTTTCAATCCTCAATCCTCA
27518702 ATTTTCAAT
1 ATTTTCAAT
27518711 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTTTCAATCCTCAATCCTCA
Found at i:27518711 original size:14 final size:14
Alignment explanation
Indices: 27518663--27518710 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
27518653 ATTTTCCATT
27518663 TTCAATCCTCAATC
1 TTCAATCCTCAATC
*
27518677 CTCAATCCTCAATCC
1 TTCAATCCTCAAT-C
* *
27518692 TT-AATTCTCAATT
1 TTCAATCCTCAATC
27518705 TTCAAT
1 TTCAAT
27518711 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (14 bp):
TTCAATCCTCAATC
Found at i:27518770 original size:20 final size:20
Alignment explanation
Indices: 27518732--27518770 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
27518722 CAGTTTTTGA
*
27518732 ATTTTATTCTCTTTGATTTT
1 ATTTTATTCTCTTTCATTTT
27518752 ATTTTATTC-CTTATCATTT
1 ATTTTATTCTCTT-TCATTT
27518771 GTAAAATGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.67
Consensus pattern (20 bp):
ATTTTATTCTCTTTCATTTT
Found at i:27521459 original size:27 final size:27
Alignment explanation
Indices: 27521427--27521481 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
27521417 AGCTTGAAAA
27521427 CCCTAGCAATGGAAATCCTTGAAGTTT
1 CCCTAGCAATGGAAATCCTTGAAGTTT
27521454 CCCTAGCAATGGAAATCCTTGAAGTTT
1 CCCTAGCAATGGAAATCCTTGAAGTTT
27521481 C
1 C
27521482 GGCTGGATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (27 bp):
CCCTAGCAATGGAAATCCTTGAAGTTT
Found at i:27524435 original size:27 final size:27
Alignment explanation
Indices: 27524416--27524515 Score: 112
Period size: 27 Copynumber: 3.6 Consensus size: 27
27524406 ATATATTAAG
*
27524416 TCCGCACACTCAGTGCTATATAATCAA
1 TCCGCACACTTAGTGCTATATAATCAA
27524443 -CTCGCACACTTAGTGCTATATAATCAA
1 TC-CGCACACTTAGTGCTATATAATCAA
* * *
27524470 ACTCGCACACTTAGTGCTATACAATTTAAA
1 TC-CGCACACTTAGTGCTATATAA--TCAA
*
27524500 CCCGCACACTTAGTGC
1 TCCGCACACTTAGTGC
27524516 CAATCTCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
26 1 0.02
27 24 0.37
28 22 0.34
29 14 0.22
30 4 0.06
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (27 bp):
TCCGCACACTTAGTGCTATATAATCAA
Found at i:27524481 original size:28 final size:28
Alignment explanation
Indices: 27524418--27524515 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
27524408 ATATTAAGTC
*
27524418 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
27524445 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
27524473 CGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
27524502 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27524516 CAATCTCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 22 0.34
28 24 0.37
29 19 0.29
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:27552951 original size:46 final size:46
Alignment explanation
Indices: 27552831--27553682 Score: 1605
Period size: 46 Copynumber: 18.5 Consensus size: 46
27552821 GCACAAATGT
* * **
27552831 CCTTCGGGACTTATCACATATATACACTTTCCCATTCATCACATCGG
1 CCTTC-GGCCTTATCACATATATACACTTTCACATTCATCACATTTG
*
27552878 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CC-TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27552925 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27552971 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553017 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553063 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553109 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553155 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553201 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553247 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553293 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553339 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553385 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553431 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553477 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553523 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
27553569 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
**
27553615 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
*
27553661 CCATTAGGCCTTATCACATATA
1 CC-TTCGGCCTTATCACATATA
27553683 CATATCTTGT
Statistics
Matches: 794, Mismatches: 9, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
46 733 0.92
47 59 0.07
48 2 0.00
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.36
Consensus pattern (46 bp):
CCTTCGGCCTTATCACATATATACACTTTCACATTCATCACATTTG
Found at i:27555552 original size:13 final size:13
Alignment explanation
Indices: 27555534--27555558 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27555524 TACTAAATTT
27555534 TCATGGATTCAAA
1 TCATGGATTCAAA
27555547 TCATGGATTCAA
1 TCATGGATTCAA
27555559 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:27560694 original size:68 final size:69
Alignment explanation
Indices: 27560547--27560702 Score: 160
Period size: 68 Copynumber: 2.2 Consensus size: 69
27560537 TAGCCGATTT
* * * *
27560547 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGGAATCACACATGCGACCTAGCTACATA
*
27560612 TATC
66 TATA
* *
27560616 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-T-GTATCACACATGTGACCTAGCTAC
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTTGGAATCACACATGCGACCTAGCTAC
27560677 TATATAGTA
63 -ATATA-TA
27560686 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
27560703 ACACATGATG
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (69 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGGAATCACACATGCGACCTAGCTACATA
TATA
Found at i:27567579 original size:13 final size:13
Alignment explanation
Indices: 27567561--27567600 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
27567551 GCTCGGCAGG
27567561 GACACGCCTGTGT
1 GACACGCCTGTGT
*
27567574 GACACGCCCGTGT
1 GACACGCCTGTGT
*
27567587 GACACGCTTGTGT
1 GACACGCCTGTGT
27567600 G
1 G
27567601 CGATTACTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.23
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:27575644 original size:15 final size:15
Alignment explanation
Indices: 27575607--27575686 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
27575597 GTATCTTGGG
*
27575607 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
27575622 -TCCTTTTATTCTGGA
1 TTTC-TTTATTCTGGA
*
27575637 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
27575652 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
27575667 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
27575681 TTTCTT
1 TTTCTT
27575687 ATTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
14 12 0.23
15 37 0.70
16 4 0.08
ACGTcount: A:0.10, C:0.17, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:27580548 original size:40 final size:40
Alignment explanation
Indices: 27580466--27580685 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
27580456 ACCCAAGTAT
** * *
27580466 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
27580504 CTTCGGGTCTTAGCCCAGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
27580544 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
27580584 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * * *
27580624 CTTCGGATCTTAGTCTGGATATAGTCACTAGTATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
27580664 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
27580686 CATTCAAATA
Statistics
Matches: 149, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 121 0.81
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:27583363 original size:38 final size:38
Alignment explanation
Indices: 27583320--27583395 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
27583310 TTCATCCTTT
27583320 TTCATTTCTTTTGGCCGAAAATTCTAAGAAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGAAAGGAGGAA
*
27583358 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGAAAGGAGGAA
27583396 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGAAAGGAGGAA
Found at i:27584678 original size:40 final size:39
Alignment explanation
Indices: 27584584--27584728 Score: 155
Period size: 40 Copynumber: 3.6 Consensus size: 39
27584574 TAATCGAATG
*
27584584 ATATCCGGGCTAAGTCTCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTC-CGAAGGCATTTGTGCT-AGCGACT
* * * *
27584625 ACATCCAGACTAAGATCCTAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACT
* * *
27584665 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGCGACT
* *
27584705 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
27584729 CTTGTGCGAG
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 59 0.68
41 25 0.29
42 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACT
Found at i:27592447 original size:40 final size:40
Alignment explanation
Indices: 27592353--27592497 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
27592343 TACTCGAATG
* *
27592353 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
27592394 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
27592434 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
27592474 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
27592498 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:27594515 original size:22 final size:22
Alignment explanation
Indices: 27594470--27594515 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
27594460 ATAATTCATA
**
27594470 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAAAAC
*
27594492 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGCATTTAAAAC
27594514 AT
1 AT
27594516 ACTCCCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAAAAC
Found at i:27596084 original size:312 final size:312
Alignment explanation
Indices: 27595519--27596143 Score: 1250
Period size: 312 Copynumber: 2.0 Consensus size: 312
27595509 CTTAGATTTG
27595519 TGGTCTTAAAACCACTGTTCCGTCTAGACTCTAATTCGAGATGTTACATGTCTTCCAATATCTGC
1 TGGTCTTAAAACCACTGTTCCGTCTAGACTCTAATTCGAGATGTTACATGTCTTCCAATATCTGC
27595584 ATTACCAATTCAAATTGACCATCTGTCTGGGGATGAAATACAGTACTAAAGTGTAATTGAGTCCC
66 ATTACCAATTCAAATTGACCATCTGTCTGGGGATGAAATACAGTACTAAAGTGTAATTGAGTCCC
27595649 AAAGCTTCTTGCAATTTGCTCTAGAATCGAGATGTAAACCGAGGGTCTCTATCCGAAATAATGAA
131 AAAGCTTCTTGCAATTTGCTCTAGAATCGAGATGTAAACCGAGGGTCTCTATCCGAAATAATGAA
27595714 GACAGGCAATCCATGTAATCTGACAATCTCAGAGACATATAATTCAGCCAATCTGTCCAAAGAAT
196 GACAGGCAATCCATGTAATCTGACAATCTCAGAGACATATAATTCAGCCAATCTGTCCAAAGAAT
27595779 AATCCATATGTACAAAAATAAATTGTGCAGACTTTGTCTACCGATCAACAGT
261 AATCCATATGTACAAAAATAAATTGTGCAGACTTTGTCTACCGATCAACAGT
27595831 TGGTCTTAAAACCACTGTTCCGTCTAGACTCTAATTCGAGATGTTACATGTCTTCCAATATCTGC
1 TGGTCTTAAAACCACTGTTCCGTCTAGACTCTAATTCGAGATGTTACATGTCTTCCAATATCTGC
27595896 ATTACCAATTCAAATTGACCATCTGTCTGGGGATGAAATACAGTACTAAAGTGTAATTGAGTCCC
66 ATTACCAATTCAAATTGACCATCTGTCTGGGGATGAAATACAGTACTAAAGTGTAATTGAGTCCC
27595961 AAAGCTTCTTGCAATTTGCTCTAGAATCGAGATGTAAACCGAGGGTCTCTATCCGAAATAATGAA
131 AAAGCTTCTTGCAATTTGCTCTAGAATCGAGATGTAAACCGAGGGTCTCTATCCGAAATAATGAA
27596026 GACAGGCAATCCATGTAATCTGACAATCTCAGAGACATATAATTCAGCCAATCTGTCCAAAGAAT
196 GACAGGCAATCCATGTAATCTGACAATCTCAGAGACATATAATTCAGCCAATCTGTCCAAAGAAT
27596091 AATCCATATGTACAAAAATAAATTGTGCAGACTTTGTCTACCGATCAACAGT
261 AATCCATATGTACAAAAATAAATTGTGCAGACTTTGTCTACCGATCAACAGT
27596143 T
1 T
27596144 ACCCAAATGG
Statistics
Matches: 313, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
312 313 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (312 bp):
TGGTCTTAAAACCACTGTTCCGTCTAGACTCTAATTCGAGATGTTACATGTCTTCCAATATCTGC
ATTACCAATTCAAATTGACCATCTGTCTGGGGATGAAATACAGTACTAAAGTGTAATTGAGTCCC
AAAGCTTCTTGCAATTTGCTCTAGAATCGAGATGTAAACCGAGGGTCTCTATCCGAAATAATGAA
GACAGGCAATCCATGTAATCTGACAATCTCAGAGACATATAATTCAGCCAATCTGTCCAAAGAAT
AATCCATATGTACAAAAATAAATTGTGCAGACTTTGTCTACCGATCAACAGT
Found at i:27603003 original size:46 final size:46
Alignment explanation
Indices: 27602901--27603029 Score: 168
Period size: 46 Copynumber: 2.8 Consensus size: 46
27602891 TATGAGGCAT
* * * * *
27602901 CCGAACTCGTTGAGTTGCATTCCGATTTCACCTATGGATGCAAGCAT
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAAACAC
* *
27602948 CCAAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCAAACAC
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAACAC
* *
27602994 CCGAGCTCGTTGAGTTGCGTTCCAAGTTCATTATGG
1 CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
27603030 GTGAGATTAT
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 45 0.63
47 26 0.37
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAACAC
Found at i:27603961 original size:40 final size:40
Alignment explanation
Indices: 27603917--27604178 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
27603907 GCTCCTCGTT
* *
27603917 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
27603957 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27603997 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27604036 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
27604075 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
27604114 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
27604155 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27604179 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:27616766 original size:18 final size:18
Alignment explanation
Indices: 27616743--27616781 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27616733 TTTCGGGTAA
*
27616743 AATCAAATT-AATTCTGTT
1 AATC-AATTGAATTCGGTT
27616761 AATCAATTGAATTCGGTT
1 AATCAATTGAATTCGGTT
27616779 AAT
1 AAT
27616782 TGGTCGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (18 bp):
AATCAATTGAATTCGGTT
Found at i:27619924 original size:19 final size:20
Alignment explanation
Indices: 27619880--27619925 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
27619870 AAAATTAGAC
27619880 TTTAAAT-TATAAAAATTTT
1 TTTAAATGTATAAAAATTTT
** *
27619899 TAAAAATGTAT-ATAATTTT
1 TTTAAATGTATAAAAATTTT
27619918 TTTAAATG
1 TTTAAATG
27619926 ATTTAGGTGC
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTAAATGTATAAAAATTTT
Found at i:27620457 original size:17 final size:17
Alignment explanation
Indices: 27620411--27620459 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
27620401 AATTTTGGTT
27620411 TTTTAAAAAATA-TAT-
1 TTTTAAAAAATATTATA
* * *
27620426 TTTT-TAATATTTTATA
1 TTTTAAAAAATATTATA
27620442 TTTTAAAAAATATTATA
1 TTTTAAAAAATATTATA
27620459 T
1 T
27620460 GTTTGTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 7 0.28
16 4 0.16
17 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTAAAAAATATTATA
Found at i:27620653 original size:18 final size:18
Alignment explanation
Indices: 27620632--27620666 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27620622 TTTATAATTT
27620632 ATAAAAATTCTAATTTAG
1 ATAAAAATTCTAATTTAG
**
27620650 ATAAATTTTCTAATTTA
1 ATAAAAATTCTAATTTA
27620667 AATTGTTTTT
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:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
ATAAAAATTCTAATTTAG
Found at i:27622386 original size:15 final size:16
Alignment explanation
Indices: 27622368--27622403 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
27622358 CTCTCTCTGG
27622368 TTTTCTTTTTCTTTT-T
1 TTTTC-TTTTCTTTTGT
27622384 TTTTCTTTTCTTTTGT
1 TTTTCTTTTCTTTTGT
27622400 TTTT
1 TTTT
27622404 GGAAAACGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTTCTTTTCTTTTGT
Found at i:27627529 original size:42 final size:42
Alignment explanation
Indices: 27627473--27627590 Score: 130
Period size: 44 Copynumber: 2.8 Consensus size: 42
27627463 CTTGCCACTA
* * *
27627473 TCCCAGACAGGGTCTTACATGAAATCATATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCATATACGATGCCAACG
*
27627515 TCCCAGACATGGTCTTACACGTAAATC-TCAAATCGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAATCAT-ATA-CGATGCCAACG
* * * *
27627559 TCCTAGACGTGGTCCTACACGAAATCACATAC
1 TCCCAGACATGGTCTTACACGAAATCATATAC
27627591 TGGGATCCTA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 21 0.33
43 14 0.22
44 28 0.44
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCATATACGATGCCAACG
Found at i:27627731 original size:79 final size:80
Alignment explanation
Indices: 27627599--27627758 Score: 277
Period size: 79 Copynumber: 2.0 Consensus size: 80
27627589 ACTGGGATCC
* **
27627599 TATGTCATATGTATCCTAACTATTTCCTATGGTACTTACGGGGCTTTCGGACGCCATAATTTGAT
1 TATGTCATATGTATCCTAACTATTTCCTATGGTACGTACGGGGCTTTCGGACGCCATAATTCAAT
27627664 CGATGTTTTCTCAAT
66 CGATGTTTTCTCAAT
*
27627679 TATGTCATATGTATCCTAACTA-TTCCTATGGTTCGTACGGGGCTTTCGGACGCCATAATTCAAT
1 TATGTCATATGTATCCTAACTATTTCCTATGGTACGTACGGGGCTTTCGGACGCCATAATTCAAT
27627743 CGATGTTTTCTCAAT
66 CGATGTTTTCTCAAT
27627758 T
1 T
27627759 TCACATATTC
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 54 0.71
80 22 0.29
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (80 bp):
TATGTCATATGTATCCTAACTATTTCCTATGGTACGTACGGGGCTTTCGGACGCCATAATTCAAT
CGATGTTTTCTCAAT
Found at i:27642506 original size:39 final size:39
Alignment explanation
Indices: 27642392--27642617 Score: 202
Period size: 39 Copynumber: 5.7 Consensus size: 39
27642382 ATATTTGATG
* ** *
27642392 TGTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAAT
1 TGTATCCGGACTT-AAGGTCCGCAGGCT-TCGTGCTGGAAT
* * * *
27642432 TATATCCGGGCTTAAAGACCTGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGACTTAAGGTCC-GCAGGCTTCGTGCTGGAAT
* *
27642472 TGTATCCAGACCTAAGGTCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
* * * *
27642511 TGTATCCGGACTTGAGATCCGCAGGCTTCGTGCTGGTAC
1 TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
* * * * *
27642550 TATATCCGGACTTAAGGTCCACAGGCTTCGTACTGGTAC
1 TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
* * * *
27642589 TATATCCGGGCTTAAAGTCCCGTAGGCTT
1 TGTATCCGGACTTAAGGT-CCGCAGGCTT
27642618 TGTTTTGGTG
Statistics
Matches: 157, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
39 107 0.68
40 50 0.32
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.27
Consensus pattern (39 bp):
TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
Found at i:27642566 original size:78 final size:79
Alignment explanation
Indices: 27642423--27642605 Score: 226
Period size: 78 Copynumber: 2.3 Consensus size: 79
27642413 GCAGGCTATA
* * *
27642423 TGCTGGAATTATATCCGGGCTTAAAGACCTGCAGGCTTCGTGCTGGAATTGTATCCAGACCTAAG
1 TGCTGGAATTATATCCGGACTTAAAGACCTGCAGGCTTCGTGCTGGAACTATATCCAGACCTAAG
*
27642488 GTCCGCAGGCTTCG
66 GTCCACAGGCTTCG
* * * * *
27642502 TGCTGGAATTGTATCCGGACTT-GAGATCC-GCAGGCTTCGTGCTGGTACTATATCCGGACTTAA
1 TGCTGGAATTATATCCGGACTTAAAGA-CCTGCAGGCTTCGTGCTGGAACTATATCCAGACCTAA
27642565 GGTCCACAGGCTTCG
65 GGTCCACAGGCTTCG
* * * *
27642580 TACTGGTACTATATCCGGGCTTAAAG
1 TGCTGGAATTATATCCGGACTTAAAG
27642606 TCCCGTAGGC
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 63 0.72
79 24 0.28
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (79 bp):
TGCTGGAATTATATCCGGACTTAAAGACCTGCAGGCTTCGTGCTGGAACTATATCCAGACCTAAG
GTCCACAGGCTTCG
Found at i:27648977 original size:43 final size:42
Alignment explanation
Indices: 27648911--27649075 Score: 127
Period size: 43 Copynumber: 3.9 Consensus size: 42
27648901 AACTCGTACA
* * * **
27648911 ATGCCAACGTCCTAGAC-GTGGTCTTACATGTTATCAAATACCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACAAGAAATCAAATA-CG
* **
27648954 ATGCCACTGTCCCAGACAGGGTCTTACAAGAAATCATGTACG
1 ATGCCAATGTCCCAGACAGGGTCTTACAAGAAATCAAATACG
* *
27648996 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACAAG-AAA--TCAAATACG
** *** *
27649040 ATGCCAACATCCCAGATTTGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGACAGGGTCTTACAAGAAATCA
27649076 CGTACCGGAA
Statistics
Matches: 101, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.03
42 29 0.29
43 36 0.36
44 29 0.29
45 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACAAGAAATCAAATACG
Found at i:27665171 original size:18 final size:18
Alignment explanation
Indices: 27665148--27665186 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
27665138 ATATCACAAA
27665148 ATGACCAAGTTCCTATAC
1 ATGACCAAGTTCCTATAC
27665166 ATGACCAAGTTCCTATAC
1 ATGACCAAGTTCCTATAC
27665184 ATG
1 ATG
27665187 CCATACTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (18 bp):
ATGACCAAGTTCCTATAC
Found at i:27665727 original size:51 final size:51
Alignment explanation
Indices: 27665672--27665771 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
27665662 GCTACCAATA
*
27665672 ACATGTAA-CACATCCATAATGAAA-TCAGACCTCTAAATGAGCTCGGATGTT
1 ACATG-AATCACATCCATAAT-AAACTCAGACCACTAAATGAGCTCGGATGTT
* * *
27665723 ACATGAATCACATCCATCATAAACTTAGACCACTCAATGAGCTCGGATG
1 ACATGAATCACATCCATAATAAACTCAGACCACTAAATGAGCTCGGATG
27665772 CTCGCATCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 5 0.12
51 38 0.88
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (51 bp):
ACATGAATCACATCCATAATAAACTCAGACCACTAAATGAGCTCGGATGTT
Found at i:27665802 original size:43 final size:43
Alignment explanation
Indices: 27665733--27665816 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
27665723 ACATGAATCA
* *
27665733 CATCCATCATAAACTTAGACCACTCAATGAGCTCGGATGCTCG
1 CATCCATAATAAACTTAGACCACTCAACGAGCTCGGATGCTCG
* * *
27665776 CATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGCT
1 CATCCATAATAAACTTAGACCACTCAACGAGCTCGGATGCT
27665817 ATATACCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
CATCCATAATAAACTTAGACCACTCAACGAGCTCGGATGCTCG
Found at i:27676708 original size:13 final size:13
Alignment explanation
Indices: 27676690--27676714 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27676680 TGCAAGTTCA
27676690 CACGACCGTGTCG
1 CACGACCGTGTCG
27676703 CACGACCGTGTC
1 CACGACCGTGTC
27676715 TAGCTTCATT
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:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
CACGACCGTGTCG
Found at i:27682166 original size:14 final size:14
Alignment explanation
Indices: 27682147--27682180 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
27682137 CTGTGTTTAT
27682147 GGATCTAATGAATA
1 GGATCTAATGAATA
27682161 GGATCTAATGAATA
1 GGATCTAATGAATA
27682175 GGATCT
1 GGATCT
27682181 TTTAGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (14 bp):
GGATCTAATGAATA
Found at i:27697798 original size:54 final size:54
Alignment explanation
Indices: 27697742--27698071 Score: 419
Period size: 54 Copynumber: 6.1 Consensus size: 54
27697732 GGGCAAAATG
* * * * * * *
27697742 GTAATTTTACCCCATAAGGGTATCTCGGTAATTCTATCTTATAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
* * *
27697796 GTATTTCTATCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGATATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
* * * *
27697850 GTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
* * *
27697904 GTAATTCTACCCTA-TAGAGGTATTTCGATAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAG-GGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
* * *
27697958 GTAATTCTACCCTGCAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
* ** * *
27698012 GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
27698066 GTAATT
1 GTAATT
27698072 TTACAAACTA
Statistics
Matches: 242, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
53 1 0.00
54 240 0.99
55 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
Found at i:27698064 original size:27 final size:27
Alignment explanation
Indices: 27697769--27698125 Score: 362
Period size: 27 Copynumber: 13.2 Consensus size: 27
27697759 GGGTATCTCG
* * * *
27697769 GTAATTCTATCTTATAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTTA
* * * **
27697796 GTATTTCTATCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
27697823 GTAATTCTACCTTACAGGGATATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* **
27697850 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* * *
27697877 GTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
* * *
27697904 GTAATTCTACCCTATAGAGGTA-TTTC
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
27697930 GATAATTCTACCTTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTTA
* *
27697958 GTAATTCTACCCTGCAGGGGTA-TTTC
1 GTAATTCTACCCTACAGGGGTATTTTA
*
27697984 GATAATTCTACCTTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTTA
27698012 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
*
27698039 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* **
27698066 GTAATTTTA-CAAACTAGGGGTATTTTA
1 GTAATTCTACCCTAC-AGGGGTATTTTA
* **
27698093 GTAATTTTA-CAAACCAGGGGTATTTTA
1 GTAATTCTACCCTA-CAGGGGTATTTTA
27698120 GTAATT
1 GTAATT
27698126 TTACTGATTG
Statistics
Matches: 285, Mismatches: 39, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.03
27 269 0.94
28 8 0.03
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:27698140 original size:27 final size:28
Alignment explanation
Indices: 27698000--27698154 Score: 126
Period size: 27 Copynumber: 5.7 Consensus size: 28
27697990 TCTACCTTAC
* ** **
27698000 AGGGGTATTTTAGTAATTCTAC-CCTAC
1 AGGGGTATTTTAGTAATTTTACTAATTG
*
27698027 AGGGGTATTTTAGTAATTCTACCCT-A-T-
1 AGGGGTATTTTAGTAATTTTA--CTAATTG
* *
27698054 AGGGGTATTTTAGTAATTTTACAAACT-
1 AGGGGTATTTTAGTAATTTTACTAATTG
***
27698081 AGGGGTATTTTAGTAATTTTAC-AAACC
1 AGGGGTATTTTAGTAATTTTACTAATTG
*
27698108 AGGGGTATTTTAGTAATTTTACTGATTG
1 AGGGGTATTTTAGTAATTTTACTAATTG
*
27698136 A-GGGTATTTTGGTAATTTT
1 AGGGGTATTTTAGTAATTTT
27698155 GTAAATCGAG
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
25 1 0.01
26 3 0.03
27 103 0.94
28 2 0.02
29 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.42
Consensus pattern (28 bp):
AGGGGTATTTTAGTAATTTTACTAATTG
Found at i:27700038 original size:21 final size:21
Alignment explanation
Indices: 27700012--27700072 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
27700002 CACAGCCTGT
27700012 TCACACGGCCGTGT-CC-CAGG
1 TCACACGGCCGTGTGCCTCA-G
* *
27700032 CTCACACGGGCATGTGCCTCAG
1 -TCACACGGCCGTGTGCCTCAG
*
27700054 TCACACGGCCGTGTACCTC
1 TCACACGGCCGTGTGCCTC
27700073 CCTCCACATG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 28 0.85
22 3 0.09
23 2 0.06
ACGTcount: A:0.16, C:0.39, G:0.26, T:0.18
Consensus pattern (21 bp):
TCACACGGCCGTGTGCCTCAG
Found at i:27703167 original size:40 final size:38
Alignment explanation
Indices: 27703076--27703298 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 38
27703066 TCCTCGTTCA
* * * * **
27703076 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTTACAC
1 AATGCCTTCGGGACTTAACCCGGATTTA-TTACTCGCAC
27703115 AATGCCTTCGGGACTTAACCCGGATTTAATTACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTT-ATTACTCGCAC
*
27703154 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTATTA-CTCGCAC
* * *
27703194 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTATTA-CTCGCAC
** * *
27703234 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTATT-AC-TCGCAC
* *
27703275 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
27703299 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 104 0.67
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAACCCGGATTTATTACTCGCAC
Found at i:27703239 original size:80 final size:79
Alignment explanation
Indices: 27703074--27703298 Score: 213
Period size: 80 Copynumber: 2.8 Consensus size: 79
27703064 GCTCCTCGTT
* * * *
27703074 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTTACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGA
27703139 TTTAATTACTCGCA
66 TTTAATTACTCGCA
* * * * *
27703153 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACTTAACCCGG
*
27703218 AATTT--GTATCTCGCA
65 -ATTTAATTA-CTCGCA
* ** * * * * * *
27703233 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGACTTAACCCG
27703297 GA
64 GA
27703299 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
79 40 0.34
80 72 0.61
81 7 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGA
TTTAATTACTCGCA
Found at i:27703307 original size:41 final size:41
Alignment explanation
Indices: 27703230--27703307 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
27703220 TTTGTATCTC
* * *
27703230 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
27703271 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
27703308 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:27705679 original size:40 final size:40
Alignment explanation
Indices: 27705635--27705794 Score: 198
Period size: 40 Copynumber: 4.0 Consensus size: 40
27705625 CTCGATATAT
*
27705635 TGTATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
27705675 TGTATATCCAGGTTAAATCCTGCAGGCTTCGTGCTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * *
27705715 AGTATATCCGGGTTAAATCCCGCAGGCTTAGTGTTGGT-A
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * * *
27705754 -CTATATCCGGGCCTAAAGTCCCGCAGGCTTTGTGCTAGTAA
1 TGTATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAA
27705795 CTGGATTCAG
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
38 10 0.10
39 5 0.05
40 88 0.85
41 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (40 bp):
TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:27709231 original size:24 final size:26
Alignment explanation
Indices: 27709169--27709236 Score: 95
Period size: 24 Copynumber: 2.7 Consensus size: 26
27709159 GACTCACCGT
27709169 AGCTCATATGAGCTTACTGATATATC
1 AGCTCATATGAGCTTACTGATATATC
* * *
27709195 AGCTCGTACGAGCTTACTG-T-TCTC
1 AGCTCATATGAGCTTACTGATATATC
27709219 AGCTCATATGAGCTTACT
1 AGCTCATATGAGCTTACT
27709237 ATTTAGCACG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 19 0.51
25 1 0.03
26 17 0.46
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (26 bp):
AGCTCATATGAGCTTACTGATATATC
Found at i:27716349 original size:14 final size:13
Alignment explanation
Indices: 27716326--27716356 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
27716316 TCAACACCCA
27716326 TTGGGTATGATCC
1 TTGGGTATGATCC
27716339 TTGGAGTATGATCC
1 TTGG-GTATGATCC
27716353 TTGG
1 TTGG
27716357 TGTACTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.16, C:0.13, G:0.32, T:0.39
Consensus pattern (13 bp):
TTGGGTATGATCC
Found at i:27717475 original size:19 final size:19
Alignment explanation
Indices: 27717451--27717488 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27717441 CGAAAGTTTT
27717451 ACTTAGAATCCAAAACCAA
1 ACTTAGAATCCAAAACCAA
27717470 ACTTAGAATCCAAAACCAA
1 ACTTAGAATCCAAAACCAA
27717489 CTTTGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (19 bp):
ACTTAGAATCCAAAACCAA
Done.