Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 65 of 325
Found at i:17472901 original size:35 final size:35
Alignment explanation
Indices: 17472833--17472901 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
17472823 TAATTGTGTT
*
17472833 ATTAATTTATTATTTTAGATTTTAAATTTAAATTC
1 ATTAATTTATTATTTTAGATTTTAAATTAAAATTC
*
17472868 ATTAATTT-TTATATTTAGTTTTTAAGA-TAAAATT
1 ATTAATTTATTAT-TTTAGATTTTAA-ATTAAAATT
17472902 TTAAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.13
35 25 0.83
36 1 0.03
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (35 bp):
ATTAATTTATTATTTTAGATTTTAAATTAAAATTC
Found at i:17473104 original size:43 final size:43
Alignment explanation
Indices: 17473038--17473142 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 43
17473028 TTAAAAGGGG
* * *
17473038 ATGATCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAATGCC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCC
* *
17473081 TTGACCTTTAGCGGCGTTTGTGGGAATAGCGCCGCTAAAGGCC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCC
*
17473124 ATGACCTTTAACGGCGTTT
1 ATGACCTTTAGCGGCGTTT
17473143 TTTTACATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCC
Found at i:17476168 original size:3 final size:3
Alignment explanation
Indices: 17476160--17476188 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17476150 TATGTAAGTA
17476160 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
17476189 TTAAGAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:17483275 original size:46 final size:48
Alignment explanation
Indices: 17483153--17483282 Score: 171
Period size: 46 Copynumber: 2.8 Consensus size: 48
17483143 TGTAACCCGC
*
17483153 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-T-CAT
* * *
17483203 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
17483246 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17483283 TGCCCAAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 32 0.45
47 30 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
Found at i:17483301 original size:46 final size:45
Alignment explanation
Indices: 17483158--17483301 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
17483148 CCCGCCCATA
* *
17483158 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
17483206 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
17483251 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
17483297 AGTGA
1 AGTGA
17483302 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:17485713 original size:30 final size:30
Alignment explanation
Indices: 17485669--17485757 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
17485659 CAAAGATAAC
17485669 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
17485698 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
17485728 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
17485758 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:17485717 original size:15 final size:15
Alignment explanation
Indices: 17485669--17485748 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
17485659 CAAAGATAAC
*
17485669 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
17485683 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
17485698 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
17485713 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
17485728 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
17485743 AAGAAA
1 AAGAAA
17485749 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:17485757 original size:15 final size:15
Alignment explanation
Indices: 17485680--17485757 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
17485670 AGAAAACCGA
17485680 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
17485695 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
17485709 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
17485724 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
17485740 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
17485755 ATA
1 ATA
17485758 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:17488792 original size:46 final size:48
Alignment explanation
Indices: 17488670--17488799 Score: 171
Period size: 46 Copynumber: 2.8 Consensus size: 48
17488660 TGTAACCCGC
*
17488670 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-T-CAT
* * *
17488720 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
17488763 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17488800 TGCCCAAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 32 0.45
47 30 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
Found at i:17488818 original size:46 final size:45
Alignment explanation
Indices: 17488675--17488818 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
17488665 CCCGCCCATA
* *
17488675 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
17488723 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
17488768 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
17488814 AGTGA
1 AGTGA
17488819 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:17491745 original size:40 final size:40
Alignment explanation
Indices: 17491660--17491810 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
17491650 AATTGAATGA
* * * *
17491660 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
17491700 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
17491741 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
17491780 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
17491811 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:17491824 original size:40 final size:40
Alignment explanation
Indices: 17491697--17491826 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
17491687 ATGCTGGAAA
* * *
17491697 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
17491737 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
17491777 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
17491817 TTATATCCGG
1 TTATATCCGG
17491827 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:17491825 original size:80 final size:80
Alignment explanation
Indices: 17491659--17491826 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
17491649 AAATTGAATG
* *
17491659 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
17491724 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
17491739 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
17491802 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
17491819 ATATCCGG
1 ATATCCGG
17491827 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:17499766 original size:40 final size:40
Alignment explanation
Indices: 17499681--17499831 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
17499671 AATTGAATGA
* * * *
17499681 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
17499721 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
17499762 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
17499801 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
17499832 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:17499845 original size:40 final size:40
Alignment explanation
Indices: 17499718--17499847 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
17499708 ATGCTGGAAA
* * *
17499718 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
17499758 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
17499798 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
17499838 TTATATCCGG
1 TTATATCCGG
17499848 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:17499846 original size:80 final size:80
Alignment explanation
Indices: 17499680--17499847 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
17499670 AAATTGAATG
* *
17499680 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
17499745 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
17499760 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
17499823 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
17499840 ATATCCGG
1 ATATCCGG
17499848 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:17504756 original size:46 final size:46
Alignment explanation
Indices: 17504688--17504778 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
17504678 TATATATACA
* *
17504688 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* * *
17504734 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
17504779 ATACACTTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:17504824 original size:47 final size:47
Alignment explanation
Indices: 17504752--17505036 Score: 437
Period size: 47 Copynumber: 6.1 Consensus size: 47
17504742 ACACGTTTCG
* * * * * *
17504752 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
17504799 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
17504846 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
17504893 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
17504940 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * **
17504987 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
17505034 CAT
1 CAT
17505037 AAAATCCTAA
Statistics
Matches: 223, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 222 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:17504893 original size:25 final size:25
Alignment explanation
Indices: 17504864--17504941 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
17504854 ATTCGGCCTT
17504864 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
17504889 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
17504911 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
17504936 ATCACA
1 ATCACA
17504942 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:17508891 original size:28 final size:28
Alignment explanation
Indices: 17508860--17509016 Score: 136
Period size: 28 Copynumber: 5.5 Consensus size: 28
17508850 CTGACTGATT
*
17508860 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
17508888 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
*
17508917 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
17508945 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * **
17508974 TGGCACACATAGTGCTCGGTTGGAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
17509002 TTGCACACACAGTGC
1 TCGCACACATAGTGC
17509017 CTCATAATTC
Statistics
Matches: 101, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
27 1 0.01
28 55 0.54
29 44 0.44
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:17508920 original size:29 final size:29
Alignment explanation
Indices: 17508887--17508988 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
17508877 GATTAAAGAA
17508887 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* **
17508916 CTCGCACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* **
17508944 CTCGCACACATAGTGCCTCAACTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
17508973 CTGGCACACATAGTGC
1 CTCGCACACATAGTGC
17508989 TCGGTTGGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
28 23 0.38
29 38 0.62
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:17508927 original size:57 final size:57
Alignment explanation
Indices: 17508860--17509020 Score: 232
Period size: 57 Copynumber: 2.8 Consensus size: 57
17508850 CTGACTGATT
* * *
17508860 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
**
17508917 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * * *
17508974 TGGCACACATAGTGCTCGGTTGGAGAACTTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
17509021 TAATTCTAGC
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 94 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:17509094 original size:40 final size:40
Alignment explanation
Indices: 17509048--17509372 Score: 553
Period size: 40 Copynumber: 8.4 Consensus size: 40
17509038 CCTTCGAGGT
17509048 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
17509088 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
17509128 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
17509168 TTAGCCCGG--ATATCACTAGCACGAATGCT-TT-GGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
17509204 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG-AC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
17509243 TTAGCCCGGATATATCACTAGCACGAATGCTCTTC-GAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
17509282 TTAG-CCGGATATATCACTA-CACGAATGCTCTT-GG-AC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
17509318 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
17509358 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
17509373 ATAACTCTCA
Statistics
Matches: 272, Mismatches: 3, Indels: 20
0.92 0.01 0.07
Matches are distributed among these distances:
36 19 0.07
37 31 0.11
38 68 0.25
39 46 0.17
40 108 0.40
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:17509296 original size:115 final size:117
Alignment explanation
Indices: 17509026--17509372 Score: 555
Period size: 115 Copynumber: 3.0 Consensus size: 117
17509016 CCTCATAATT
* ** *
17509026 CTAGCATGAATGC-CTTCGAGGTTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTT
1 CTAGCACGAATGCTCTTCGA-ACTTAGCCCGGATATATCACTAGCACGAATGCTCTT-GGGACTT
17509090 AGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATCA
64 AGCCCGGATATATCACTAGCACGAATGCTCTTCGG-ACTTAGCCCGGATATATCA
17509145 CTAGCACGAATGCTCTTCGGAACTTAGCCCGG--ATATCACTAGCACGAATGCT-TTGGGACTTA
1 CTAGCACGAATGCTCTTC-GAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTGGGACTTA
*
17509207 GCCCGGATACATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCA
65 GCCCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCA
17509260 CTAGCACGAATGCTCTTCGAACTTAG-CCGGATATATCACTA-CACGAATGCTCTT-GGACTTAG
1 CTAGCACGAATGCTCTTCGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTGGGACTTAG
17509322 CCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
66 CCCGGATATATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATATAT
17509373 ATAACTCTCA
Statistics
Matches: 216, Mismatches: 6, Indels: 16
0.91 0.03 0.07
Matches are distributed among these distances:
113 4 0.02
114 56 0.26
115 67 0.31
116 40 0.19
117 2 0.01
118 20 0.09
119 12 0.06
120 13 0.06
121 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (117 bp):
CTAGCACGAATGCTCTTCGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTGGGACTTAG
CCCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCA
Found at i:17510986 original size:47 final size:47
Alignment explanation
Indices: 17510955--17511199 Score: 418
Period size: 47 Copynumber: 5.2 Consensus size: 47
17510945 CACTTCCACG
* *
17510955 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
17511002 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
17511049 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
17511096 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCAAA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* * * **
17511143 TTCATCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
17511190 TTCATCACAT
1 TTCATCACAT
17511200 AAAATCCTAA
Statistics
Matches: 189, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 189 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
Found at i:17511056 original size:25 final size:25
Alignment explanation
Indices: 17511027--17511104 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
17511017 ATTCGGCCTT
17511027 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
17511052 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
17511074 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
17511099 ATCACA
1 ATCACA
17511105 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:17511079 original size:22 final size:22
Alignment explanation
Indices: 17511005--17511126 Score: 58
Period size: 23 Copynumber: 5.3 Consensus size: 22
17510995 GTTCACATTC
17511005 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
17511027 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
17511051 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
17511074 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
17511098 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
17511121 ATCACA
1 ATCACA
17511127 CATATGCATG
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 18 0.24
23 22 0.30
24 22 0.30
25 12 0.16
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:17514914 original size:30 final size:30
Alignment explanation
Indices: 17514880--17514940 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
17514870 TTCCCGAGCC
17514880 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
17514910 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
17514940 T
1 T
17514941 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:17520988 original size:21 final size:21
Alignment explanation
Indices: 17520962--17521005 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
17520952 AGAGATCAAG
*
17520962 AATATATTTGTTCATTGTGAC
1 AATATATTTGTTCATTATGAC
17520983 AATATATTTGTTCATTATGAC
1 AATATATTTGTTCATTATGAC
17521004 AA
1 AA
17521006 ACATGTCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (21 bp):
AATATATTTGTTCATTATGAC
Found at i:17530380 original size:43 final size:43
Alignment explanation
Indices: 17530328--17530498 Score: 261
Period size: 43 Copynumber: 4.0 Consensus size: 43
17530318 ATATCGTACA
* *
17530328 ATGCCAACGTCCTAGACGAGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
*
17530371 ATGCCAACGTCCCAGACGTGGTCTTACAAGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * *
17530414 ATGCCAACGTCTCAGACGTGGTCTTACACGTAATCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * *
17530457 ATGCCAACGTCCCAGATGTGGTCTTCCATGTAACCACATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATC
17530499 TCATTTTAAC
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 116 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:17531572 original size:25 final size:25
Alignment explanation
Indices: 17531526--17531573 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
17531516 ACAAAACTCG
* *
17531526 ATTCATCAATGACATAACTCAAAAT
1 ATTCATCAATGACAAAAATCAAAAT
17531551 ATTCATCAAT-ATCAAAAATCAAA
1 ATTCATCAATGA-CAAAAATCAAA
17531574 GCATGGGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.27
Consensus pattern (25 bp):
ATTCATCAATGACAAAAATCAAAAT
Found at i:17532510 original size:15 final size:15
Alignment explanation
Indices: 17532486--17532516 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17532476 TGTGCATGCA
*
17532486 AAATATAAAAGACAT
1 AAATACAAAAGACAT
17532501 AAATACAAAAGACAT
1 AAATACAAAAGACAT
17532516 A
1 A
17532517 GTAGTGAAAT
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:0.68, C:0.10, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:17538615 original size:41 final size:41
Alignment explanation
Indices: 17538558--17538639 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
17538548 CAATAAAAGT
17538558 GACGTAATAATCATAACTTCTTGGGCACTAATGCTCATGGG
1 GACGTAATAATCATAACTTCTTGGGCACTAATGCTCATGGG
17538599 GACGTAATAATCATAACTTCTTGGGCACTAATGCTCATGGG
1 GACGTAATAATCATAACTTCTTGGGCACTAATGCTCATGGG
17538640 ACCACATACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (41 bp):
GACGTAATAATCATAACTTCTTGGGCACTAATGCTCATGGG
Found at i:17546387 original size:46 final size:46
Alignment explanation
Indices: 17546295--17546423 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
17546285 TGTAACCCGC
* * * * *
17546295 CCATAAGCGAGCTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
17546341 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
17546387 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17546424 TGCTCAACCA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17550767 original size:51 final size:51
Alignment explanation
Indices: 17550648--17550930 Score: 253
Period size: 51 Copynumber: 5.6 Consensus size: 51
17550638 AGCTATCTGA
* * * *
17550648 TACGCATAGTAGCCTGCACTTAATACTACACATGCGATC-AA--CAATCCG-G
1 TACGCGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTC-AT-TGAG
* * * *
17550697 TACACGTAGTAGCCTGCACTTAGTACAACACACGTGATGGAAGTCATTGAG
1 TACGCGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTGAG
* * * * **
17550748 TATGCATAGTAGCTTGCACTTAGTACTACACATGCGACTTAATAGT-A-TGA-
1 TACGCGTAGTAGCCTGCACTTAGTACTACACATGTGA-TCGA-AGTCATTGAG
* *
17550798 TACACGTAGTAGCCTACACTTAGTACTACACATGTGATCGAAGTCATTGAG
1 TACGCGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTGAG
* **
17550849 TACGCGTAGAAGCCTGCACTTAGTACTACACATGTGACTTAACAGT-A-TGA-
1 TACGCGTAGTAGCCTGCACTTAGTACTACACATGTGA-TCGA-AGTCATTGAG
* *
17550899 TACACGTAGTAGCCTACACTTAGTACTACACA
1 TACGCGTAGTAGCCTGCACTTAGTACTACACA
17550931 CGTGTATTCA
Statistics
Matches: 190, Mismatches: 33, Indels: 21
0.78 0.14 0.09
Matches are distributed among these distances:
48 3 0.02
49 35 0.18
50 66 0.35
51 73 0.38
52 7 0.04
53 6 0.03
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (51 bp):
TACGCGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTGAG
Found at i:17550835 original size:101 final size:101
Alignment explanation
Indices: 17550648--17550934 Score: 423
Period size: 101 Copynumber: 2.9 Consensus size: 101
17550638 AGCTATCTGA
* * * ** *
17550648 TACGCATAGTAGCCTGCACTTAATACTACACATGCGA-TCAACAATCCGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGATACACGTAGTAGCCT
* * *
17550712 GCACTTAGTACAACACACGTGATGGAAGTCATTGAG
66 ACACTTAGTACTACACACGTGATCGAAGTCATTGAG
* * *
17550748 TATGCATAGTAGCTTGCACTTAGTACTACACATGCGACTTAATAGTATGATACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGATACACGTAGTAGCCT
*
17550813 ACACTTAGTACTACACATGTGATCGAAGTCATTGAG
66 ACACTTAGTACTACACACGTGATCGAAGTCATTGAG
* * *
17550849 TACGCGTAGAAGCCTGCACTTAGTACTACACATGTGACTTAACAGTATGATACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGATACACGTAGTAGCCT
17550914 ACACTTAGTACTACACACGTG
66 ACACTTAGTACTACACACGTG
17550935 TATTCACAAT
Statistics
Matches: 166, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
100 34 0.20
101 132 0.80
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (101 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGATACACGTAGTAGCCT
ACACTTAGTACTACACACGTGATCGAAGTCATTGAG
Found at i:17558362 original size:51 final size:49
Alignment explanation
Indices: 17558183--17558419 Score: 194
Period size: 49 Copynumber: 4.8 Consensus size: 49
17558173 CGAAGCTATC
* * * *
17558183 TGATACGCATAGT-CCCTGCACTTAGTACTACACATGCGATC-AA-CAAT
1 TGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCGAATC-AT
* * * * **
17558230 CCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCAT
1 -TGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCGAATCAT
* * *
17558280 TGATACGTATAGTAGCCTGCACTTAGTACTACACTCGTGATCGAAGTCAT
1 TGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-TCAT
* ** **
17558330 TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCCACTTAATAGCA-
1 TGA-TACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCGAAT--CAT
*** *
17558381 TGATACATGTAGTAGCCTACACTTAGTACTACACACGTG
1 TGATACGCATAGTAGCCTGCACTTAGTACTACACACGTG
17558420 TATTCACAAT
Statistics
Matches: 149, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
48 9 0.06
49 60 0.40
50 40 0.27
51 38 0.26
52 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCGAATCAT
Found at i:17575820 original size:43 final size:42
Alignment explanation
Indices: 17575769--17575910 Score: 153
Period size: 43 Copynumber: 3.3 Consensus size: 42
17575759 TATCCGAGAT
** *
17575769 ATGGTCTTACATGTTATCACATATCGATGCCATTGTCCCAGAC
1 ATGGTCTTACATGAAATCA-ATATCGATGCCAATGTCCCAGAC
* * *
17575812 AGGGTCTTACACGAAATCAATTAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGAAATCAA-TATCGATGCCAATGTCCCAGAC
* *
17575855 ATGATCTTACACAT-AATATCAATA-CAATGCCAATGTCCCAGAC
1 ATGGTCTT--ACATGAA-ATCAATATCGATGCCAATGTCCCAGAC
17575898 ATGGTCTTACATG
1 ATGGTCTTACATG
17575911 TAACCACATC
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
41 4 0.05
42 1 0.01
43 66 0.80
44 4 0.05
45 8 0.10
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (42 bp):
ATGGTCTTACATGAAATCAATATCGATGCCAATGTCCCAGAC
Found at i:17581332 original size:27 final size:27
Alignment explanation
Indices: 17581302--17581499 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
17581292 TATTGAAATG
**
17581302 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * * *
17581329 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
17581356 CCCTCGATTTACAAAATTATCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
17581383 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
17581410 CCCTTGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
17581437 CCATTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
17581464 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
17581491 CCCTCGATT
1 CCCTCGATT
17581500 GTGAAATTAC
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 147 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:17581419 original size:81 final size:81
Alignment explanation
Indices: 17581302--17581499 Score: 281
Period size: 81 Copynumber: 2.4 Consensus size: 81
17581292 TATTGAAATG
* * * *
17581302 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCATCGATTTA
*
17581367 CAAAATTATCATTTTA
66 CAAAATTACCATTTTA
* * *
17581383 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTTTACCATTGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCATCGATTTA
17581448 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * *
17581464 CCCTC-AGTTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
17581500 GTGAAATTAC
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 103 0.99
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCATCGATTTA
CAAAATTACCATTTTA
Found at i:17581521 original size:27 final size:26
Alignment explanation
Indices: 17581491--17581681 Score: 147
Period size: 27 Copynumber: 7.1 Consensus size: 26
17581481 TACCGTTTTA
* *
17581491 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
17581518 CCCTG-TAGGATAGAATTACCAAAATAC
1 CCCTGAT-TG-TAAAATTACCAAAATAC
*
17581545 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
17581572 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * * *
17581599 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-GATTGTAAAATTACCAAAATAC
*
17581625 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTAAAATTACCAAAATAC
17581653 CCCTGATT-TACAAAATTA-CAGAAATAC
1 CCCTGATTGT--AAAATTACCA-AAATAC
17581680 CC
1 CC
17581682 TTGACTTTCT
Statistics
Matches: 138, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.01
26 9 0.07
27 120 0.87
28 6 0.04
29 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (26 bp):
CCCTGATTGTAAAATTACCAAAATAC
Found at i:17581572 original size:54 final size:54
Alignment explanation
Indices: 17581498--17581653 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
17581488 TTACCCTCGA
* * *
17581498 TTGTGAAATTACTAAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCAAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* ** * *
17581552 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* * **
17581606 TTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCAAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
17581654 CCTGATTTAC
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
53 4 0.05
54 81 0.92
55 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:17581624 original size:81 final size:81
Alignment explanation
Indices: 17581531--17581680 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
17581521 TGTAGGATAG
* ** *
17581531 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCGA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATTACAGA
17581594 AATACCACTGGTTTGTGA
64 AATACCACTGGTTTGTGA
*
17581612 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
17581677 TACC
66 TACC
17581681 CTTGACTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
81 60 0.97
82 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:17581669 original size:54 final size:54
Alignment explanation
Indices: 17581531--17581738 Score: 186
Period size: 54 Copynumber: 3.8 Consensus size: 54
17581521 TGTAGGATAG
* ** * *
17581531 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCACTGA-TTTACAAAATTACCGAAATACCCTC-AATTTGTAA
* * ***
17581585 AATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTGATTTACAAAATTACCGAAATACCCTCAATTTGTAA
* * * * *
17581639 AATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTGATTTACAAAATTACCGAAATACCC-TCAATTTGT-AA
** * * *
17581695 AATTATAAAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 AATTACCAAAATACCACTGATTTACAAAATTACCGAAATACCCT
17581739 TGGTTTGTAG
Statistics
Matches: 128, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
54 81 0.63
55 8 0.06
56 39 0.30
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCACTGATTTACAAAATTACCGAAATACCCTCAATTTGTAA
Found at i:17581733 original size:27 final size:27
Alignment explanation
Indices: 17581556--17581744 Score: 96
Period size: 27 Copynumber: 6.9 Consensus size: 27
17581546 CCTAGTTTGT
** * * **
17581556 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
* **
17581583 AAAATTACCGAAATACCAC-TGGTTTGT
1 AAAATTACTGAAATACC-CTTGGTTTAC
* * *** **
17581610 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
** * *
17581637 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
17581664 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
* *
17581691 TAAAAATTA-TAAAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
17581720 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
17581745 GTAGATTTAC
Statistics
Matches: 131, Mismatches: 23, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
26 1 0.01
27 104 0.79
28 8 0.06
29 18 0.14
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:17582725 original size:25 final size:25
Alignment explanation
Indices: 17582672--17582740 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
17582662 AGGAAGTGCT
* *
17582672 AAAAGGGCTCTGCCCC-GTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACAG
17582696 AAAAGGGCTTTGCCCCAGTTTATCAG
1 AAAAGGGCTTTGCCCCAGTTTA-CAG
17582722 -AAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
17582741 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 15 0.37
25 24 0.59
26 2 0.05
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACAG
Found at i:17582753 original size:24 final size:23
Alignment explanation
Indices: 17582672--17582767 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 23
17582662 AGGAAGTGCT
* *
17582672 AAAAGGGCTCTGCCCC-GTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
17582695 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
17582720 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
17582744 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
17582768 ATGATAAAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
23 4 0.06
24 28 0.44
25 31 0.49
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:17582934 original size:42 final size:42
Alignment explanation
Indices: 17582887--17582978 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
17582877 TAGTCTCCCC
*
17582887 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
17582929 AAATGGGTTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
17582971 AAACGGGC
1 AAATGGGC
17582979 CTAAAGGCCA
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:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:17583037 original size:31 final size:31
Alignment explanation
Indices: 17583002--17583109 Score: 189
Period size: 31 Copynumber: 3.5 Consensus size: 31
17582992 TGTTTACAGT
17583002 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
17583033 AAAGGCTTCGGCCCAGTGATATGATTTATTA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
17583064 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
17583095 AAAGGCTTTGGCCCA
1 AAAGGCTTCGGCCCA
17583110 TTATATGTCA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:17584044 original size:42 final size:41
Alignment explanation
Indices: 17583992--17584135 Score: 189
Period size: 42 Copynumber: 3.4 Consensus size: 41
17583982 TACTAAGACT
* *
17583992 GTGTAAGACCATATATGTGATATGTCATCAATTTGAGACTTC
1 GTGTAAGACCATATCTG-GATATGACATCAATTTGAGACTTC
17584034 GTGTAAGACCATATCTGGGATATGACATCAATTTGAGACTTC
1 GTGTAAGACCATATCT-GGATATGACATCAATTTGAGACTTC
** * *
17584076 GTGTAAGACCATATCTAGGATATGACATTGATGTGAGATTTC
1 GTGTAAGACCATATCT-GGATATGACATCAATTTGAGACTTC
* *
17584118 GTGTTAGACCATAGCTGG
1 GTGTAAGACCATATCTGG
17584136 GCTATTGGCA
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
41 2 0.02
42 89 0.97
43 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGATATGACATCAATTTGAGACTTC
Found at i:17584136 original size:84 final size:84
Alignment explanation
Indices: 17583992--17584190 Score: 204
Period size: 84 Copynumber: 2.3 Consensus size: 84
17583982 TACTAAGACT
* ** * *
17583992 GTGTAAGACCATATATGTGATATGTCATCAATTTGAGACTTCGTGTAAGACCATATCTGGGATA-
1 GTGTAAGACCATATATG-GATATGACATTGATGTGAGACTTCGTGTAAGACCATAGCTGGGATAT
**
17584056 TGACATCAATTTGAGACTT-C
65 TGACATCAATACGAGA-TTAC
* * * *
17584076 GTGTAAGACCATATCTAGGATATGACATTGATGTGAGATTTCGTGTTAGACCATAGCTGGGCTAT
1 GTGTAAGACCATATAT-GGATATGACATTGATGTGAGACTTCGTGTAAGACCATAGCTGGGATAT
* *
17584141 TGGCATCGATACGAGATTAC
65 TGACATCAATACGAGATTAC
* * *
17584161 ATGTAAGACCATATTTGGGATATGGCATTG
1 GTGTAAGACCATATAT-GGATATGACATTG
17584191 GTATGGTGCC
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
84 55 0.58
85 40 0.42
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (84 bp):
GTGTAAGACCATATATGGATATGACATTGATGTGAGACTTCGTGTAAGACCATAGCTGGGATATT
GACATCAATACGAGATTAC
Found at i:17589665 original size:15 final size:15
Alignment explanation
Indices: 17589641--17589672 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17589631 TATGCATGCA
*
17589641 AAATATAAAAGACAT
1 AAATACAAAAGACAT
17589656 AAATACAAAAGACAT
1 AAATACAAAAGACAT
17589671 AA
1 AA
17589673 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:17597052 original size:50 final size:50
Alignment explanation
Indices: 17596836--17597114 Score: 253
Period size: 50 Copynumber: 5.6 Consensus size: 50
17596826 TCTAGTACGC
* * * *
17596836 ATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGATACAT
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACAT
* *
17596885 GTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATAC--
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACAT
* * * * * * * * **
17596933 GTAGTAGCCTGCACTTAGTACTACAAACGTGATCGAAGTTGTCGGGTACGC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTATCTGATACAT
* * *
17596984 ATAGTAGCCTGCACTTAGTACTACACATGTGGCCTAACTATCTGGTACAT
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACAT
* * * * * *
17597034 ATAGTAGTCTTCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACTATCTGATACAT
* *
17597086 ATAGTAACCTGCACATAGTAC--CACACGTG
1 ATAGTAGCCTGCACTTAGTACTACACACGTG
17597115 TTCTCACAAT
Statistics
Matches: 187, Mismatches: 37, Indels: 11
0.80 0.16 0.05
Matches are distributed among these distances:
48 34 0.18
49 37 0.20
50 58 0.31
51 31 0.17
52 27 0.14
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
ATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACAT
Found at i:17600090 original size:20 final size:20
Alignment explanation
Indices: 17600037--17600081 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
17600027 TCCCTAGATT
*
17600037 ACACGGGCGTATGCCTCCTTTC
1 ACACGGGCGTGTG-C-CCTTTC
*
17600059 ACACGTGCGTGTGCCCTTTC
1 ACACGGGCGTGTGCCCTTTC
17600079 ACA
1 ACA
17600082 TGGGTGTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 1 0.05
22 11 0.52
ACGTcount: A:0.16, C:0.36, G:0.22, T:0.27
Consensus pattern (20 bp):
ACACGGGCGTGTGCCCTTTC
Found at i:17605916 original size:17 final size:17
Alignment explanation
Indices: 17605885--17605928 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
17605875 CAATGAATTG
*
17605885 AAAAATTAACTAATTGAA
1 AAAAATTAACAAATT-AA
17605903 AAAAATTAA-AAATTAA
1 AAAAATTAACAAATTAA
17605919 AAGAAATTAA
1 AA-AAATTAA
17605929 GGTCTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 11 0.46
18 9 0.38
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (17 bp):
AAAAATTAACAAATTAA
Found at i:17605978 original size:3 final size:3
Alignment explanation
Indices: 17605970--17606029 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
17605960 AGAACTCTTA
17605970 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17606018 AAT AAT AAT AAT
1 AAT AAT AAT AAT
17606030 GAAGAAGAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17612847 original size:41 final size:41
Alignment explanation
Indices: 17612710--17612892 Score: 230
Period size: 40 Copynumber: 4.5 Consensus size: 41
17612700 ATACCCGGGC
* * * * *
17612710 TAAGCCCCGAAGGCATTTATGCTAG-TGATTATATTC-GGGT
1 TAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCTGGGT
17612750 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGGT
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCTGGGT
* * ** *
17612790 TAAGACTCGAAGGCATTTGTGCGAGTTGTTATATCCTAAGC
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCTGGGT
17612831 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-CCTGGGT
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCTGGGT
*
17612871 TAAGACCCGAAGGCAATTGTGC
1 TAAGACCCGAAGGCATTTGTGC
17612893 TTGTGGTTAT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 91 0.73
41 34 0.27
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (41 bp):
TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCTGGGT
Found at i:17612852 original size:81 final size:81
Alignment explanation
Indices: 17612750--17612906 Score: 253
Period size: 81 Copynumber: 1.9 Consensus size: 81
17612740 ATATTCGGGT
* *
17612750 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGGTTAAGACTCGAAGGCATTTGTGCGA
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-CCTGGGTTAAGACCCGAAGGCAATTGTGCGA
*
17612814 GTTGTTATATCCTAAGC
65 GTGGTTATATCCTAAGC
**
17612831 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCTGGGTTAAGACCCGAAGGCAATTGTGCTTG
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCTGGGTTAAGACCCGAAGGCAATTGTGCGAG
17612896 TGGTTATATCC
66 TGGTTATATCC
17612907 GGCTAAATTC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
80 2 0.03
81 68 0.97
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (81 bp):
TAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCTGGGTTAAGACCCGAAGGCAATTGTGCGAG
TGGTTATATCCTAAGC
Found at i:17620914 original size:40 final size:40
Alignment explanation
Indices: 17620854--17620995 Score: 230
Period size: 40 Copynumber: 3.5 Consensus size: 40
17620844 ATACCTGGGC
*
17620854 TAAGCCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGT
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGT
* * *
17620894 TAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCTGGGC
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGT
*
17620934 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGT
1 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGT
*
17620974 TAAGACCCGAAGGCAATTGTGC
1 TAAGACCCGAAGGCATTTGTGC
17620996 TTGTGGTTAT
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGT
Found at i:17620981 original size:80 final size:80
Alignment explanation
Indices: 17620848--17620995 Score: 269
Period size: 80 Copynumber: 1.9 Consensus size: 80
17620838 TGAATGATAC
* * *
17620848 CTGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGTTAAGACCCGAAGGCATTTG
1 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
17620913 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
17620928 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
1 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
17620993 TGC
66 TGC
17620996 TTGTGGTTAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (80 bp):
CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
TGCGAGTTGTTATAT
Found at i:17624494 original size:26 final size:26
Alignment explanation
Indices: 17624458--17624509 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
17624448 TGCTAACTAC
17624458 TGCTCATACATACTTATTAAATTAAT
1 TGCTCATACATACTTATTAAATTAAT
17624484 TGCTCATACATACTTATTAAATTAAT
1 TGCTCATACATACTTATTAAATTAAT
17624510 CAATCTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.42
Consensus pattern (26 bp):
TGCTCATACATACTTATTAAATTAAT
Found at i:17630020 original size:17 final size:17
Alignment explanation
Indices: 17629998--17630034 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
17629988 ATAAATCTAA
*
17629998 AAATAATTTTAGTAATG
1 AAATAACTTTAGTAATG
17630015 AAATAACTTTAGTAATG
1 AAATAACTTTAGTAATG
17630032 AAA
1 AAA
17630035 CTGTGAGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (17 bp):
AAATAACTTTAGTAATG
Found at i:17637328 original size:29 final size:29
Alignment explanation
Indices: 17637286--17637380 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
17637276 AAAGTATGTA
17637286 TATGAATGTGATTTGGGCTTAATGGGCCG
1 TATGAATGTGATTTGGGCTTAATGGGCCG
*
17637315 TATGAATGTGATTTGGG-TCTAATGAGCCG
1 TATGAATGTGATTTGGGCT-TAATGGGCCG
* * * *
17637344 TATGAATGAGA-TTAGGCTTAGTGGGCCA
1 TATGAATGTGATTTGGGCTTAATGGGCCG
*
17637372 TATGCATGT
1 TATGAATGT
17637381 AAGTAGACTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 19 0.34
29 37 0.66
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.34
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCTTAATGGGCCG
Found at i:17641591 original size:25 final size:25
Alignment explanation
Indices: 17641563--17641610 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17641553 TTATACCATG
* * *
17641563 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
17641588 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
17641611 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:17641713 original size:20 final size:20
Alignment explanation
Indices: 17641653--17641713 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
17641643 ATAAATATGG
*
17641653 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
17641673 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
17641693 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
17641713 T
1 T
17641714 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:17641790 original size:24 final size:24
Alignment explanation
Indices: 17641763--17641905 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
17641753 GAGGAAGTGA
17641763 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
17641787 AAAATGGCTTATGCCCCAGCTATC
1 AAAAGGGCTTATGCCCCAGTTATC
17641811 AAAAGGGCTTATGCCCCAGTTA-C
1 AAAAGGGCTTATGCCCCAGTTATC
*
17641834 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
17641858 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
17641882 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17641906 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
23 23 0.22
24 72 0.68
25 11 0.10
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:17641863 original size:47 final size:48
Alignment explanation
Indices: 17641763--17641905 Score: 191
Period size: 47 Copynumber: 3.0 Consensus size: 48
17641753 GAGGAAGTGA
* *
17641763 AAAAGGGCTTATGCCCCAGTTATCAAAATGGCTTATGCCCCAGCTATC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
*
17641811 AAAAGGGCTTATGCCCCAGTTA-CAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
* * * *
17641858 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-CCAGTTAT
17641906 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
47 42 0.49
48 32 0.38
49 11 0.13
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
Found at i:17641886 original size:71 final size:72
Alignment explanation
Indices: 17641763--17641904 Score: 198
Period size: 71 Copynumber: 2.0 Consensus size: 72
17641753 GAGGAAGTGA
* *
17641763 AAAAGGGCTTATGCCCCAGTTATCAAAATGGCTTATGCCCCAGCTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGCTATCAAAAGAGGC-TAGGCCT
17641826 CCAGTTAC
65 CCAGTTAC
** * * *
17641834 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGCTATCAAAAGAGGCTAGGCCTC
17641899 CAGTTA
66 CAGTTA
17641905 TATGATAAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
71 52 0.84
72 10 0.16
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGCTATCAAAAGAGGCTAGGCCTC
CAGTTAC
Found at i:17642135 original size:31 final size:31
Alignment explanation
Indices: 17642097--17642160 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
17642087 CGTTTACAGT
*
17642097 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
17642128 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17642159 AA
1 AA
17642161 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17644509 original size:93 final size:93
Alignment explanation
Indices: 17644385--17644558 Score: 305
Period size: 93 Copynumber: 1.9 Consensus size: 93
17644375 ATCCATAAGT
* *
17644385 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17644450 CGAGCTT-GGATGCCTAGTTACATCTCAC
66 CGAG-TTCGGATGCCTAGTTACATCTCAC
*
17644478 GAACTTGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17644543 CGAGTTCGGATGCCTA
66 CGAGTTCGGATGCCTA
17644559 AATATTCGAA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 2 0.03
93 75 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17644547 original size:46 final size:46
Alignment explanation
Indices: 17644331--17644549 Score: 248
Period size: 46 Copynumber: 4.7 Consensus size: 46
17644321 TGTAACCCGC
* * ** *
17644331 CCATAAGCGAACTCGGACTCAACTCAACAAACTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
* *
17644377 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
* * *
17644423 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TT-CA-GAC--GTTCGCAT
* * *
17644473 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
17644516 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
17644550 GGATGCCTAA
Statistics
Matches: 143, Mismatches: 21, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 3 0.02
45 3 0.02
46 97 0.68
47 24 0.17
48 2 0.01
49 3 0.02
50 2 0.01
51 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
Found at i:17656367 original size:42 final size:43
Alignment explanation
Indices: 17656259--17656416 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 43
17656249 AACTCGTACA
*
17656259 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAA-CAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATA-CG
*
17656302 ATGCC-ACTGTCCCAGATAG-GGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGTAAATCAAATACG
* * *
17656344 ATGCCAACGTCCTAGACGTGGTCTTACACGTAAATCATAATTCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AATACG
* **
17656388 ATGCCAATGTCCCAGATTTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
17656417 AAAAACACAT
Statistics
Matches: 98, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.31
43 37 0.38
44 30 0.31
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATACG
Found at i:17657817 original size:196 final size:196
Alignment explanation
Indices: 17657459--17657836 Score: 494
Period size: 196 Copynumber: 1.9 Consensus size: 196
17657449 AACAAATAGC
* * * *
17657459 AAGTCACTTTTACATTTTATGCGATTAGGTCCTTTTATCAAATTGAGCACACAAACAGTTTAATT
1 AAGTCACTTTTACATTTTACGCGATTAAGTCCTTTTATCAAATTGAGCACACAAACAGATAAATT
* *
17657524 TTTATACGAAAAATTCACACATGCTAATTCACATATTATAGGCACGGAAAATAATATTAAAATAT
66 TTCATACGAAAAATTCACACATGCTAATTCACATATTATAAGCACGGAAAATAATATTAAAATAT
* * * * * *
17657589 TTTTCTAACTCGAATTTTTGGTCTCGAAACCACTATTCTGACTAGGGTCTAACCCTGACTGTTAC
131 TTTTCTAACTCAAATTTGTGGTCCCAAAACCACTATTCCGACTAAGGTCTAACCCTGACTGTTAC
17657654 A
196 A
** *
17657655 AAGTCACTTTTGTATTTTACGTGATTAAGTCCTTTT-TACAAATTGAGCACACAAAC-GATAAGA
1 AAGTCACTTTTACATTTTACGCGATTAAGTCCTTTTAT-CAAATTGAGCACACAAACAGATAA-A
** * * *
17657718 TTTTCATACGAAACTTTCACACAT-ATCAATTCACATACTT-TAAGCATGGAATATAATATTAAA
64 TTTTCATACGAAAAATTCACACATGCT-AATTCACATA-TTATAAGCACGGAAAATAATATTAAA
* *
17657781 ATATTTTTCTGACTCAAATTTGTGGTCCCAAAACCACTGTTCCGACTAAGGTCTAA
127 ATATTTTTCTAACTCAAATTTGTGGTCCCAAAACCACTATTCCGACTAAGGTCTAA
17657837 ACCGAGTTGT
Statistics
Matches: 156, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
195 5 0.03
196 149 0.96
197 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (196 bp):
AAGTCACTTTTACATTTTACGCGATTAAGTCCTTTTATCAAATTGAGCACACAAACAGATAAATT
TTCATACGAAAAATTCACACATGCTAATTCACATATTATAAGCACGGAAAATAATATTAAAATAT
TTTTCTAACTCAAATTTGTGGTCCCAAAACCACTATTCCGACTAAGGTCTAACCCTGACTGTTAC
A
Found at i:17659925 original size:26 final size:26
Alignment explanation
Indices: 17659896--17660036 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
17659886 TATCCTATTT
* *
17659896 AAAATACTTTGGTTTACAAAATTACC
1 AAAATACCTTGGTTTATAAAATTACC
* * * *
17659922 AAAATACCCTGCTTTGTAAAATTACT
1 AAAATACCTTGGTTTATAAAATTACC
17659948 AAAATACCCTTGGTTTATAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * * *
17659975 AAAATACCCCTAGTTTGTAAAATTATC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * *
17660002 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
17660029 AAAATACC
1 AAAATACC
17660037 CCTAATTTGT
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 28 0.28
27 71 0.72
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (26 bp):
AAAATACCTTGGTTTATAAAATTACC
Found at i:17659978 original size:27 final size:27
Alignment explanation
Indices: 17659913--17660064 Score: 189
Period size: 27 Copynumber: 5.7 Consensus size: 27
17659903 TTTGGTTTAC
*
17659913 AAAATTACCAAAATA-CCCTGCTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
17659939 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
17659966 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
17659993 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
17660020 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
17660047 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
17660065 TCGACATGTA
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 14 0.13
27 97 0.87
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:17660023 original size:54 final size:54
Alignment explanation
Indices: 17659907--17660064 Score: 214
Period size: 54 Copynumber: 2.9 Consensus size: 54
17659897 AAATACTTTG
* * *
17659907 GTTTACAAAATTACCAAAATA-CCCT-GCTTTGTAAAATTACTAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCCTA
17659960 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCCCTA
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATACCCCTA
* * * *
17660014 GTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCC
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCC
17660065 TCGACATGTA
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
53 21 0.22
54 71 0.76
55 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTA
Found at i:17660075 original size:54 final size:54
Alignment explanation
Indices: 17659913--17660136 Score: 204
Period size: 54 Copynumber: 4.2 Consensus size: 54
17659903 TTTGGTTTAC
** * * *
17659913 AAAATTACCAAAATA-CCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
* *
17659966 AAAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACT-AAAATACCCTCGA-TTTGT
* * **
17660020 AAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACATGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
*** * * * * * *
17660074 AAAATTATTGAAATA-CCATCGACTTGTAAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTACTAAAATACCCTCGATTTGT
*
17660128 AGAATTACC
1 AAAATTACC
17660137 GTTTTACCCT
Statistics
Matches: 137, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
53 19 0.14
54 115 0.84
55 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
Found at i:17660075 original size:81 final size:80
Alignment explanation
Indices: 17659913--17660136 Score: 202
Period size: 81 Copynumber: 2.8 Consensus size: 80
17659903 TTTGGTTTAC
* * * * **
17659913 AAAATTACCAAAATACCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
1 AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCCTAATTTATAAAATTACCAAA
* **
17659978 ATACCCCTAGTTTGT
66 ATACCCCGAGCATGT
* * **
17659993 AAAATTATCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTG
1 AAAATTATCAAAATA-CCCTGA-TTTGTAAAATTACCAAAATACCCCTAATTTATAAAATTACCA
17660057 AAATACCCTCGA-CATGT
64 AAATACCC-CGAGCATGT
** * * * * *
17660074 AAAATTATTGAAATACCATCGACTTGTAAAATTACCAAAGTA-CCCTCGATTTATAGAATTACC
1 AAAATTATCAAAATACCCT-GATTTGTAAAATTACCAAAATACCCCT-AATTTATAAAATTACC
17660137 GTTTTACCCT
Statistics
Matches: 115, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
80 21 0.18
81 91 0.79
82 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (80 bp):
AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCCTAATTTATAAAATTACCAAA
ATACCCCGAGCATGT
Found at i:17660078 original size:27 final size:27
Alignment explanation
Indices: 17660048--17660122 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
17660038 CTAATTTGTG
17660048 AAATTACTGAAATACCCTCGACATGTA
1 AAATTACTGAAATACCCTCGACATGTA
* * *
17660075 AAATTATTGAAATACCATCGACTTGTA
1 AAATTACTGAAATACCCTCGACATGTA
*
17660102 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
17660123 TTTATAGAAT
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:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACATGTA
Found at i:17660433 original size:27 final size:27
Alignment explanation
Indices: 17660114--17660432 Score: 399
Period size: 27 Copynumber: 11.8 Consensus size: 27
17660104 ATTACCAAAG
*
17660114 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
17660141 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
17660168 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
17660195 TACCCTC-AGTTTACAAAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
17660222 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
17660249 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * *
17660276 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
17660303 TAACCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
17660330 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
17660357 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
17660384 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
17660411 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
17660433 TAAAATACCC
Statistics
Matches: 259, Mismatches: 29, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 255 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:17660441 original size:27 final size:27
Alignment explanation
Indices: 17660384--17660609 Score: 138
Period size: 27 Copynumber: 8.3 Consensus size: 27
17660374 ATTACTGTTT
* ****
17660384 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
17660411 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * ** *
17660438 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *** *
17660465 TACCAC-TGGTTTGTGAAATTA-TCGAAA
1 TACC-CTTGATTTACAAAATTACT-AAAA
** ** *
17660492 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *
17660519 TACCCCTGATTTACAAAGTTAC-AGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
17660546 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* *
17660575 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
17660602 TACCCTTG
1 TACCCTTG
17660610 TTTGTAGATT
Statistics
Matches: 158, Mismatches: 30, Indels: 22
0.75 0.14 0.10
Matches are distributed among these distances:
26 2 0.01
27 128 0.81
28 9 0.06
29 19 0.12
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:17660484 original size:54 final size:54
Alignment explanation
Indices: 17660426--17660661 Score: 144
Period size: 54 Copynumber: 4.4 Consensus size: 54
17660416 TTGATTTACA
17660426 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
1 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
* ** * * **
17660480 AAATTA-TCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT-AC
1 AAATTACT-AAAATACCCCT-GGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
* * * * * ***
17660533 AAAGTTAC-AGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACA
1 AAA-TTACTA-AAATACCCCTG-GTTTGT-AAAATTACCA-AAATACCACTGGTTTGTG
* * * * * **
17660590 AAATTACTAAAATA-CCCTTGTTTGTAGATTTACCAAAACACC-CTTGTAGGATG
1 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCACTGGTTTG-TG
*
17660643 AAATGACTAAAATACCCCT
1 AAATTACTAAAATACCCCT
17660662 ATTAGGTAAA
Statistics
Matches: 134, Mismatches: 34, Indels: 28
0.68 0.17 0.14
Matches are distributed among these distances:
52 3 0.02
53 32 0.24
54 56 0.42
55 11 0.08
56 28 0.21
57 4 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
Found at i:17660496 original size:81 final size:83
Alignment explanation
Indices: 17660411--17660635 Score: 226
Period size: 81 Copynumber: 2.7 Consensus size: 83
17660401 ATTACTGTTT
*
17660411 TACCCTTGATTTACAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCAC-TG-G
1 TACCCTTGATTTACAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACC-CTTGAC
* * *
17660474 TTTGT-GAAATTATCGAAA
65 TTTCTAAAAATTATAGAAA
** ** * * ** *
17660492 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAATACCCTTGAC
1 TACCCTTGATTTACAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCA-AAATACCCTTGAC
17660556 TTTCTAAAAATTATAGAAA
65 TTTCTAAAAATTATAGAAA
* * * * * *
17660575 TACCATTGGTTTACAAAATTACTAAAATA-CCCTTGTTTGTAGATTTACCAAAACACCCTTG
1 TACCCTTGATTTACAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
17660636 TAGGATGAAA
Statistics
Matches: 112, Mismatches: 27, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
80 3 0.03
81 48 0.43
82 26 0.23
83 35 0.31
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (83 bp):
TACCCTTGATTTACAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGACT
TTCTAAAAATTATAGAAA
Found at i:17660695 original size:26 final size:27
Alignment explanation
Indices: 17660666--17660729 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
17660656 ACCCCTATTA
*
17660666 GGTAAAGTGACCGT-AAAGCCCTGTAG
1 GGTAAAGTGACCGTGAAACCCCTGTAG
* *
17660692 GGTAAAGTGACCGTGATACCCCTGTAT
1 GGTAAAGTGACCGTGAAACCCCTGTAG
*
17660719 GGTAAAATGAC
1 GGTAAAGTGAC
17660730 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (27 bp):
GGTAAAGTGACCGTGAAACCCCTGTAG
Found at i:17661996 original size:11 final size:11
Alignment explanation
Indices: 17661979--17662049 Score: 73
Period size: 9 Copynumber: 7.0 Consensus size: 11
17661969 ACATGGTATG
17661979 TATGATATGCA
1 TATGATATGCA
*
17661990 CATGATATG--
1 TATGATATGCA
17661999 TATGATATGCA
1 TATGATATGCA
* *
17662010 CATGACATG--
1 TATGATATGCA
17662019 TATGATATGCA
1 TATGATATGCA
17662030 TATGATATG--
1 TATGATATGCA
17662039 TATGATATGCA
1 TATGATATGCA
17662050 CACAAGATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
9 24 0.50
11 24 0.50
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (11 bp):
TATGATATGCA
Found at i:17662059 original size:20 final size:20
Alignment explanation
Indices: 17661969--17662051 Score: 139
Period size: 20 Copynumber: 4.2 Consensus size: 20
17661959 ATTTTGATAA
*
17661969 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
17661989 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17662009 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17662029 ATATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
17662049 ACA
1 ACA
17662052 CAAGATGTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17662161 original size:24 final size:23
Alignment explanation
Indices: 17662105--17662271 Score: 228
Period size: 24 Copynumber: 7.0 Consensus size: 23
17662095 GAGGAAGTGA
17662105 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
17662128 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
17662151 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
17662175 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
17662199 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
17662222 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
17662247 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17662271 A
1 A
17662272 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 43 0.33
24 76 0.58
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:17662174 original size:47 final size:47
Alignment explanation
Indices: 17662105--17662271 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 47
17662095 GAGGAAGTGA
*
17662105 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
17662151 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
17662199 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
17662247 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
17662272 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 65 0.60
48 31 0.29
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:17662221 original size:71 final size:71
Alignment explanation
Indices: 17662105--17662270 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
17662095 GAGGAAGTGA
* *
17662105 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
17662170 GTTATC
66 GTTATC
*
17662176 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
17662241 GTTATT
66 GTTATC
*
17662247 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
17662271 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:17662496 original size:31 final size:31
Alignment explanation
Indices: 17662458--17662539 Score: 155
Period size: 31 Copynumber: 2.6 Consensus size: 31
17662448 ATACCGTTTA
17662458 CAGTAATATGAAATATGAAAAGGCTTCGGCC
1 CAGTAATATGAAATATGAAAAGGCTTCGGCC
17662489 CAGTAATATGAAATATGAAAAGGCTTCGGCC
1 CAGTAATATGAAATATGAAAAGGCTTCGGCC
*
17662520 CAGTATTATGAAATATGAAA
1 CAGTAATATGAAATATGAAA
17662540 TATGAAAAGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.24
Consensus pattern (31 bp):
CAGTAATATGAAATATGAAAAGGCTTCGGCC
Found at i:17665259 original size:29 final size:29
Alignment explanation
Indices: 17665226--17665356 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
17665216 TGACGAGATC
*
17665226 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
17665255 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
17665284 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
17665313 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
17665342 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
17665357 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:17673217 original size:29 final size:29
Alignment explanation
Indices: 17673184--17673306 Score: 158
Period size: 29 Copynumber: 4.2 Consensus size: 29
17673174 TGACGAGATC
*
17673184 GGCACTAAGTGTG-AGTGCTGGAAATATAT
1 GGCACTAAGTGTGCA-TGCTGGAAAAATAT
* * *
17673213 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
17673242 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
* * *
17673271 GACACTATGTGTGCAAGCTGGAAAAATACT
1 GGCACTAAGTGTGCATGCTGGAAAAATA-T
17673301 GGCACT
1 GGCACT
17673307 GGGTGTGCGA
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
29 77 0.93
30 6 0.07
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAT
Found at i:17676499 original size:26 final size:26
Alignment explanation
Indices: 17676470--17676610 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
17676460 ATCCCTATTT
* *
17676470 AAAATACTTTGGTTTACAAAATTACC
1 AAAATACCTTGGTTTATAAAATTACC
* * * *
17676496 AAAATACCCTGCTTTGTAAAATTACT
1 AAAATACCTTGGTTTATAAAATTACC
17676522 AAAATACCCTTGGTTTATAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * * *
17676549 AAAATACCCCTAGTTTGTAAAATTATC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * *
17676576 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
17676603 AAAATACC
1 AAAATACC
17676611 CCTAATTTGT
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 28 0.28
27 71 0.72
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (26 bp):
AAAATACCTTGGTTTATAAAATTACC
Found at i:17676552 original size:27 final size:27
Alignment explanation
Indices: 17676487--17676638 Score: 189
Period size: 27 Copynumber: 5.7 Consensus size: 27
17676477 TTTGGTTTAC
*
17676487 AAAATTACCAAAATA-CCCTGCTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
17676513 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
17676540 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
17676567 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
17676594 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
17676621 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
17676639 TCGACATGTA
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 14 0.13
27 97 0.87
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:17676597 original size:54 final size:54
Alignment explanation
Indices: 17676481--17676638 Score: 214
Period size: 54 Copynumber: 2.9 Consensus size: 54
17676471 AAATACTTTG
* * *
17676481 GTTTACAAAATTACCAAAATA-CCCT-GCTTTGTAAAATTACTAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCCTA
17676534 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCCCTA
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATACCCCTA
* * * *
17676588 GTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCC
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCC
17676639 TCGACATGTA
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
53 21 0.22
54 71 0.76
55 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTA
Found at i:17676649 original size:54 final size:54
Alignment explanation
Indices: 17676487--17676709 Score: 213
Period size: 54 Copynumber: 4.2 Consensus size: 54
17676477 TTTGGTTTAC
** * * *
17676487 AAAATTACCAAAATA-CCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
* *
17676540 AAAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACT-AAAATACCCTCGA-TTTGT
* * **
17676594 AAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACATGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
*** * * * *
17676648 AAAATTATTGAAATA-CCCTCGACTTGTAAAATTAC-AAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTACTAAAATACCCTCGATTTGT
*
17676701 AGAATTACC
1 AAAATTACC
17676710 GTTTTACCCT
Statistics
Matches: 138, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
53 39 0.28
54 96 0.70
55 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
Found at i:17676649 original size:81 final size:80
Alignment explanation
Indices: 17676487--17676709 Score: 202
Period size: 81 Copynumber: 2.8 Consensus size: 80
17676477 TTTGGTTTAC
* * * * **
17676487 AAAATTACCAAAATACCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
1 AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCCTAATTTATAAAATTACCAAA
* **
17676552 ATACCCCTAGTTTGT
66 ATACCCCGAGCATGT
* * **
17676567 AAAATTATCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTG
1 AAAATTATCAAAATA-CCCTGA-TTTGTAAAATTACCAAAATACCCCTAATTTATAAAATTACCA
17676631 AAATACCCTCGA-CATGT
64 AAATACCC-CGAGCATGT
** * * * *
17676648 AAAATTATTGAAATACCCTCGACTTGTAAAATTA-CAAAGTA-CCCTCGATTTATAGAATTACC
1 AAAATTATCAAAATACCCT-GATTTGTAAAATTACCAAAATACCCCT-AATTTATAAAATTACC
17676710 GTTTTACCCT
Statistics
Matches: 115, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
79 4 0.03
80 35 0.30
81 73 0.63
82 3 0.03
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCCTAATTTATAAAATTACCAAA
ATACCCCGAGCATGT
Found at i:17676652 original size:27 final size:27
Alignment explanation
Indices: 17676622--17676695 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
17676612 CTAATTTGTG
17676622 AAATTACTGAAATACCCTCGACATGTA
1 AAATTACTGAAATACCCTCGACATGTA
* *
17676649 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACATGTA
17676676 AAATTAC--AAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
17676696 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 3 0.07
26 9 0.21
27 31 0.72
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACATGTA
Found at i:17677006 original size:27 final size:27
Alignment explanation
Indices: 17676687--17677005 Score: 424
Period size: 27 Copynumber: 11.8 Consensus size: 27
17676677 AATTACAAAG
*
17676687 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
17676714 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
17676741 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
17676768 TACCCTC-AGTTTACAAAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
17676795 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
17676822 TACCCCCAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
17676849 TACCCCCAATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
17676876 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
17676903 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
17676930 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
17676957 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
17676984 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
17677006 TAAAATACCC
Statistics
Matches: 261, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 259 0.99
28 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:17677014 original size:27 final size:27
Alignment explanation
Indices: 17676876--17677180 Score: 102
Period size: 27 Copynumber: 11.2 Consensus size: 27
17676866 ATTATCGTTT
* *****
17676876 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
17676903 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
17676930 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
17676957 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
17676984 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
17677011 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTACTAAAA
* *** *
17677038 TACCACT-GGTTTGTGAAATTA-TCGAAA
1 TACC-CTCGATTTACAAAATTACT-AAAA
* ** *
17677065 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
17677092 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
17677119 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
17677148 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
17677175 TACCCT
1 TACCCT
17677181 TGGTTTGTAG
Statistics
Matches: 229, Mismatches: 34, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
26 5 0.02
27 197 0.86
28 8 0.03
29 19 0.08
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:17677057 original size:54 final size:54
Alignment explanation
Indices: 17676999--17677235 Score: 144
Period size: 54 Copynumber: 4.4 Consensus size: 54
17676989 TCGATTTACA
17676999 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
1 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
* ** * * **
17677053 AAATTA-TCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT-AC
1 AAATTACT-AAAATACCCCT-GGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
* * * * * ***
17677106 AAAGTTAC-AGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACA
1 AAA-TTACTA-AAATACCCCTG-GTTTGT-AAAATTACCA-AAATACCACTGGTTTGTG
* * * * * * **
17677163 AAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACC-CTTGTAGGATG
1 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCACTGGTTTG-TG
*
17677217 AAATGACTAAAATACCCCT
1 AAATTACTAAAATACCCCT
17677236 ATTAGGTAAA
Statistics
Matches: 135, Mismatches: 35, Indels: 26
0.69 0.18 0.13
Matches are distributed among these distances:
53 11 0.08
54 74 0.55
55 13 0.10
56 34 0.25
57 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.30
Consensus pattern (54 bp):
AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCACTGGTTTGTG
Found at i:17677186 original size:27 final size:27
Alignment explanation
Indices: 17676930--17677182 Score: 127
Period size: 27 Copynumber: 9.3 Consensus size: 27
17676920 ATTACCATTT
* * * ***
17676930 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTGAAA
* ***
17676957 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTGAAA
* *
17676984 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* * ** **
17677011 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* ***
17677038 TACCAC-TGGTTTGTGAAATTA-TCGAAA
1 TACC-CTTGATTTACAAAATTACT-GAAA
** ** **
17677065 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* * *
17677092 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
17677119 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-GAAA
* *
17677148 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTGAAA
17677175 TACCCTTG
1 TACCCTTG
17677183 GTTTGTAGAT
Statistics
Matches: 179, Mismatches: 37, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
26 1 0.01
27 152 0.85
28 8 0.04
29 18 0.10
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGAAA
Found at i:17677288 original size:27 final size:27
Alignment explanation
Indices: 17677240--17677304 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
17677230 ACCCCTATTA
17677240 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAGTGACCGTAAAGCCCCTGTAG
* * *
17677267 GGTAAAGTGACTGTGATA-CCCCTGTAT
1 GGTAAAGTGACCGT-AAAGCCCCTGTAG
*
17677294 GGTAAAATGAC
1 GGTAAAGTGAC
17677305 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (27 bp):
GGTAAAGTGACCGTAAAGCCCCTGTAG
Found at i:17678506 original size:25 final size:25
Alignment explanation
Indices: 17678477--17678524 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17678467 TTATAATATG
* * *
17678477 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
17678502 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
17678525 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:17678593 original size:20 final size:20
Alignment explanation
Indices: 17678568--17678626 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
17678558 TAAATATGGT
17678568 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
17678588 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
17678608 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
17678627 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:17678703 original size:22 final size:23
Alignment explanation
Indices: 17678678--17678778 Score: 106
Period size: 22 Copynumber: 4.4 Consensus size: 23
17678668 TGAAGGGATG
17678678 AGTTATTAAAGGGCTTATG-CCC
1 AGTTATTAAAGGGCTTATGCCCC
*
17678700 AGTTATAAAAGGAGCGTTAAGTGCCCC
1 AGTTATTAAAGG-GC-TT-A-TGCCCC
17678727 AG--A-TAAAGGGCTTATGCCCC
1 AGTTATTAAAGGGCTTATGCCCC
17678747 AGTTA-TAAAGGGCTT-TGGCCCC
1 AGTTATTAAAGGGCTTAT-GCCCC
17678769 AGTTATTAAA
1 AGTTATTAAA
17678779 AGAGGCTAGG
Statistics
Matches: 68, Mismatches: 2, Indels: 17
0.78 0.02 0.20
Matches are distributed among these distances:
20 8 0.12
21 2 0.03
22 34 0.50
23 8 0.12
24 7 0.10
25 2 0.03
26 2 0.03
27 5 0.07
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (23 bp):
AGTTATTAAAGGGCTTATGCCCC
Found at i:17678785 original size:25 final size:22
Alignment explanation
Indices: 17678678--17678799 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
17678668 TGAAGGGATG
*
17678678 AGTTATTAAAGGGCTTATG-CCC
1 AGTTATTAAAGGGC-TAGGCCCC
*
17678700 AGTTATAAAAGGAGCGTTAAGTGCCCC
1 AGTTATTAAAGG-GC--T-AG-GCCCC
*
17678727 AG--A-TAAAGGGCTTATGCCCC
1 AGTTATTAAAGGGC-TAGGCCCC
*
17678747 AGTTA-TAAAGGGCTTTGGCCCC
1 AGTTATTAAAGGGC-TAGGCCCC
17678769 AGTTATTAAAAGAGGCTAGGCCTCC
1 AGTTATT-AAAG-GGCTAGGCC-CC
17678794 AGTTAT
1 AGTTAT
17678800 ATGATAAAGC
Statistics
Matches: 82, Mismatches: 7, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
20 7 0.09
21 1 0.01
22 34 0.41
23 5 0.06
24 16 0.20
25 13 0.16
26 1 0.01
27 5 0.06
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (22 bp):
AGTTATTAAAGGGCTAGGCCCC
Found at i:17679027 original size:31 final size:31
Alignment explanation
Indices: 17678989--17679052 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
17678979 ACCGTTTACT
17678989 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
17679020 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17679051 AA
1 AA
17679053 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17680213 original size:31 final size:31
Alignment explanation
Indices: 17680175--17680238 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
17680165 CCTTTTCATA
17680175 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
17680206 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
17680237 TT
1 TT
17680239 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:17680476 original size:24 final size:24
Alignment explanation
Indices: 17680430--17680548 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
17680420 GCTTTATCAT
*
17680430 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
17680455 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
17680479 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
17680502 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
17680526 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17680549 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.28
24 48 0.56
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:17680509 original size:47 final size:48
Alignment explanation
Indices: 17680430--17680548 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
17680420 GCTTTATCAT
*
17680430 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
17680479 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
17680526 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17680549 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 2 0.03
47 43 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:17680624 original size:20 final size:20
Alignment explanation
Indices: 17680599--17680658 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
17680589 TATGATTACC
17680599 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
17680619 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
17680639 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
17680659 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:17680733 original size:25 final size:25
Alignment explanation
Indices: 17680701--17680748 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17680691 ATACATAAAC
* * *
17680701 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17680726 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17680749 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17688512 original size:31 final size:31
Alignment explanation
Indices: 17688474--17688537 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
17688464 CCTTTTCATA
17688474 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
17688505 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
17688536 TT
1 TT
17688538 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:17688775 original size:24 final size:24
Alignment explanation
Indices: 17688743--17688847 Score: 151
Period size: 24 Copynumber: 4.4 Consensus size: 24
17688733 CTGAAGGCCT
17688743 AGCCTCTTTTAATAACTGGGGCCA-A
1 AGCC-CTTTTAATAACTGGGG-CATA
*
17688768 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
17688792 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
**
17688815 AGCCCTTTCGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
17688839 AGCCCTTTT
1 AGCCCTTTT
17688848 TCACTTCCTC
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
23 24 0.32
24 46 0.62
25 4 0.05
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:17688807 original size:47 final size:48
Alignment explanation
Indices: 17688743--17688847 Score: 169
Period size: 47 Copynumber: 2.2 Consensus size: 48
17688733 CTGAAGGCCT
17688743 AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCAATAACTGGGGCATA
*
17688792 AGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
17688839 AGCCCTTTT
1 AGCCCTTTT
17688848 TCACTTCCTC
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
46 2 0.04
47 43 0.80
48 5 0.09
49 4 0.07
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
Found at i:17688923 original size:20 final size:20
Alignment explanation
Indices: 17688898--17688957 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
17688888 TATGATTACC
17688898 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
17688918 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
17688938 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
17688958 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:17689028 original size:25 final size:25
Alignment explanation
Indices: 17689000--17689047 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17688990 ATACATAAAC
* * *
17689000 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17689025 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17689048 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17694304 original size:16 final size:17
Alignment explanation
Indices: 17694274--17694317 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
17694264 AAGTATCGTG
* *
17694274 TCAATTAATTAAAAT-T
1 TCAATTCATTAAAATAA
*
17694290 TCAATTCATTTAAATAA
1 TCAATTCATTAAAATAA
17694307 TCAATTCATTA
1 TCAATTCATTA
17694318 GTTAACTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.43
Consensus pattern (17 bp):
TCAATTCATTAAAATAA
Found at i:17697423 original size:25 final size:24
Alignment explanation
Indices: 17697373--17697427 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
17697363 ATTTTCCGAG
** * *
17697373 CCTAGGTAAAATGACTGTTTTGCC
1 CCTAGGTAAAATGACCATTATACC
17697397 CCTAGGTAAAAATGACCATTATACC
1 CCTAGGT-AAAATGACCATTATACC
17697422 CCTAGG
1 CCTAGG
17697428 GTTTATACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (24 bp):
CCTAGGTAAAATGACCATTATACC
Done.