Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 173 of 427
Found at i:48248139 original size:27 final size:26
Alignment explanation
Indices: 48248102--48248167 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
48248092 AGCATGGCTG
*
48248102 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
48248128 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
48248155 CCAGAATCAGATA
1 CCAGAA-CAGATA
48248168 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:48248172 original size:27 final size:27
Alignment explanation
Indices: 48248102--48248175 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
48248092 AGCATGGCTG
* *
48248102 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
48248128 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
48248155 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
48248176 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:48248182 original size:27 final size:27
Alignment explanation
Indices: 48248126--48248183 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
48248116 GTGACAGAGT
* * *
48248126 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
48248153 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
48248180 CACC
1 CACC
48248184 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:48248388 original size:22 final size:22
Alignment explanation
Indices: 48248340--48248398 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
48248330 GTAAATACGT
*
48248340 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
48248362 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
48248384 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
48248399 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:48248565 original size:27 final size:26
Alignment explanation
Indices: 48248486--48248568 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
48248476 TCGATCGGTC
* * *
48248486 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
48248512 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
48248539 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
48248566 AAC
1 AAC
48248569 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:48248797 original size:27 final size:27
Alignment explanation
Indices: 48248767--48248952 Score: 223
Period size: 27 Copynumber: 7.0 Consensus size: 27
48248757 GGGGCAAAAT
* * *
48248767 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48248794 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48248821 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48248848 GATAATTCTACCCT--AGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48248873 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48248900 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48248927 GGAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
48248953 AGTAATTTCA
Statistics
Matches: 137, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
25 21 0.15
27 116 0.85
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:48248882 original size:79 final size:80
Alignment explanation
Indices: 48248785--48248952 Score: 223
Period size: 79 Copynumber: 2.1 Consensus size: 80
48248775 TACCCCACAA
* * * *
48248785 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-G
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
48248849 ATAATTCTACCCT-AG
66 A-AATTCTACCCTAAG
* * * * *
48248864 GGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
48248929 AAATTCTACCCTACAG
66 AAATTCTACCCTA-AG
48248945 GGGTATTT
1 GGGTATTT
48248953 AGTAATTTCA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 65 0.84
80 2 0.03
81 10 0.13
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (80 bp):
GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
AAATTCTACCCTAAG
Found at i:48248974 original size:106 final size:106
Alignment explanation
Indices: 48248783--48248974 Score: 262
Period size: 106 Copynumber: 1.8 Consensus size: 106
48248773 TTTACCCCAC
* * * *
48248783 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 AAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGAAATTCTACCCTACAAGGGTATTTA
** *
48248848 GATAATTCTACCCTAGGGGTATTTTGGTAATTCTATCCTAT
66 GATAATTCTACAATAAGGGTATTTTGGTAATTCTATCCTAT
* * *
48248889 AAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGAAATTCTACCCTACAGGGGTATTTA
1 AAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGAAATTCTACCCTACAAGGGTATTTA
48248954 G-TAATT-TCACAATCAAGGGTA
66 GATAATTCT-ACAAT-AAGGGTA
48248975 AAACGGTAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
104 1 0.01
105 8 0.11
106 65 0.88
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (106 bp):
AAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGAAATTCTACCCTACAAGGGTATTTA
GATAATTCTACAATAAGGGTATTTTGGTAATTCTATCCTAT
Found at i:48248984 original size:79 final size:78
Alignment explanation
Indices: 48248820--48248987 Score: 173
Period size: 79 Copynumber: 2.1 Consensus size: 78
48248810 AGGGGTATTT
* *
48248820 CGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTAGGGGTATTTTGGTAATTCTATC
1 CGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTAGGGGTATTTTAGTAATTCTA-C
* ***
48248885 CTATAAGGGTATTT
65 CAATAAGGGTAAAA
* * *
48248899 CAGTAATTCTACCCTATAGGGGTATTTCGGA-AATTCTACCCTACAGGGGTA-TTTAGTAATT-T
1 CGGTAATTCTACCCTACAAGGGTATTTC-GATAATTCTACCCT--AGGGGTATTTTAGTAATTCT
48248961 -CACAATCAAGGGTAAAA
63 AC-CAAT-AAGGGTAAAA
48248978 CGGTAATTCT
1 CGGTAATTCT
48248988 GTAAATCGAG
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
77 1 0.01
78 3 0.04
79 52 0.70
80 11 0.15
81 7 0.09
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (78 bp):
CGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTAGGGGTATTTTAGTAATTCTACC
AATAAGGGTAAAA
Found at i:48248999 original size:27 final size:27
Alignment explanation
Indices: 48248964--48249437 Score: 632
Period size: 27 Copynumber: 18.2 Consensus size: 27
48248954 GTAATTTCAC
*
48248964 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
48248991 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48249018 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
48249045 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48249072 AATCGAGGGTAAAA---TAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48249096 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48249123 AA-CTGAGGGTAAAACGGTAATT-TGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
48249149 AATCGAGGGTAAAA--ATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48249174 AAT-GAGGGTAAAA-GGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48249199 AATCGAGGGTAAAACGGTAATT-T-TAA
1 AATCGAGGGTAAAACGGTAATTCTGT-A
48249225 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48249252 AATCGAGGGTAAAAC-GTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48249278 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
48249305 AATCGAGGGTAAAA--GTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48249330 AAT-GAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48249356 AATCGAGGGTAAAACGGTAATT-T-TA
1 AATCGAGGGTAAAACGGTAATTCTGTA
***
48249381 AAAATAGGGTAAAAC-GTAATT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48249406 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48249433 AATCG
1 AATCG
48249438 GGAGTACTTT
Statistics
Matches: 398, Mismatches: 24, Indels: 50
0.84 0.05 0.11
Matches are distributed among these distances:
24 53 0.13
25 64 0.16
26 101 0.25
27 173 0.43
28 7 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:48249132 original size:78 final size:78
Alignment explanation
Indices: 48248964--48249437 Score: 645
Period size: 78 Copynumber: 6.1 Consensus size: 78
48248954 GTAATTTCAC
* *
48248964 AATCAAGGGTAAAACGGTAATTCTGT-AAATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGG
1 AATCGAGGGTAAAACGGTAATT-T-TAAAATCGAGGGTAAAA-G-TAATTCTGTAAATC-GAGGG
*
48249027 T-AAACTAGTAATTCTGTA
61 TAAAAC-GGTAATTCTGTA
*
48249045 AATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAA-TAATTCTGTAAATCGAGGGTAAA
1 AATCGAGGGTAAAACGGTAATTTTA-AAATCGAGGGTAAAAGTAATTCTGTAAATCGAGGGTAAA
*
48249109 ACAGTAATTCTGTA
65 ACGGTAATTCTGTA
*
48249123 AA-CTGAGGGTAAAACGGTAATTTGT-AAATCGAGGGTAAAAATAATTCTGTAAAT-GAGGGTAA
1 AATC-GAGGGTAAAACGGTAATTT-TAAAATCGAGGGTAAAAGTAATTCTGTAAATCGAGGGTAA
48249185 AA-GGTAATTCTGTA
64 AACGGTAATTCTGTA
48249199 AATCGAGGGTAAAACGGTAATTTTAAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
1 AATCGAGGGTAAAACGGTAATTTTAAAATCGAGGGTAAAA--GTAATTCTGTAAATCGAGGGTAA
48249264 AAC-GTAATTCTGTA
64 AACGGTAATTCTGTA
48249278 AA-CTGAGGGTAAAACGGTAATTCTGT-AAATCGAGGGTAAAAGTAATTCTGTAAAT-GAGGGTA
1 AATC-GAGGGTAAAACGGTAATT-T-TAAAATCGAGGGTAAAAGTAATTCTGTAAATCGAGGGTA
48249340 AAACGGTAATTCTGTA
63 AAACGGTAATTCTGTA
48249356 AATCGAGGGTAAAACGGTAATTTTAAAAAT--AGGGTAAAACGTAATT-TGTAAATCGAGGGTAA
1 AATCGAGGGTAAAACGGTAATTTT-AAAATCGAGGGTAAAA-GTAATTCTGTAAATCGAGGGTAA
48249418 AACGGTAATTCTGTA
64 AACGGTAATTCTGTA
48249433 AATCG
1 AATCG
48249438 GGAGTACTTT
Statistics
Matches: 367, Mismatches: 4, Indels: 48
0.88 0.01 0.11
Matches are distributed among these distances:
75 1 0.00
76 64 0.17
77 73 0.20
78 125 0.34
79 49 0.13
80 17 0.05
81 38 0.10
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (78 bp):
AATCGAGGGTAAAACGGTAATTTTAAAATCGAGGGTAAAAGTAATTCTGTAAATCGAGGGTAAAA
CGGTAATTCTGTA
Found at i:48249416 original size:233 final size:235
Alignment explanation
Indices: 48248964--48249437 Score: 689
Period size: 233 Copynumber: 2.0 Consensus size: 235
48248954 GTAATTTCAC
* *
48248964 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTGAGGGTA
*
48249029 AACTAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAATAATTCTG
66 AAC-AGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAATAATTCTG
**
48249094 TAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTTGTAAATCGAGGGT
130 TAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTTGTAAAAAGAGGGT
48249159 AAAAATAATTCTGTAAATGAGGGTAAAA-GGTAATTCTGTA
195 AAAAATAATTCTGTAAATGAGGGTAAAACGGTAATTCTGTA
*
48249199 AATCGAGGGTAAAACGGTAATT-T-TAAAATCGAGGGTAAAACGGTAATTCTGTAAA-TCGAGGG
1 AATCGAGGGTAAAACGGTAATTCTGT-AAATCGAGGGTAAAACGATAATTCTGTAAACT-GAGGG
* **
48249261 TAAA-ACGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAGTAAT
64 TAAACA-GTAATTCTGTAAATC-AAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAA-TAAT
* *
48249324 TCTGTAAAT-GAGGGTAAAACGGTAATTCTGTAAA-TCGAGGGTAAAACGGTAATTT-TAAAAAT
126 TCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACT-GAGGGTAAAACGGTAATTTGTAAAAAG
*
48249386 AGGGTAAAACGTAATT-TGTAAATCGAGGGTAAAACGGTAATTCTGTA
190 AGGGTAAAA-ATAATTCTGTAAAT-GAGGGTAAAACGGTAATTCTGTA
48249433 AATCG
1 AATCG
48249438 GGAGTACTTT
Statistics
Matches: 218, Mismatches: 12, Indels: 19
0.88 0.05 0.08
Matches are distributed among these distances:
232 23 0.11
233 106 0.49
234 68 0.31
235 21 0.10
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (235 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTGAGGGTA
AACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAATAATTCTGT
AAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTTGTAAAAAGAGGGTA
AAAATAATTCTGTAAATGAGGGTAAAACGGTAATTCTGTA
Found at i:48251461 original size:6 final size:6
Alignment explanation
Indices: 48251450--48251624 Score: 130
Period size: 6 Copynumber: 28.8 Consensus size: 6
48251440 AACCAAAATG
*
48251450 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC
* *
48251498 AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
* * * * *
48251547 AGTAA-C AGAATT AGAATC AGTATT AGTAA-C AGAATT AGAATT AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
48251595 AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAAT--C AGAATC AGAATC AGAAT
48251625 GTGAATGCAA
Statistics
Matches: 135, Mismatches: 18, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
5 11 0.08
6 111 0.82
7 10 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:48251484 original size:30 final size:30
Alignment explanation
Indices: 48251450--48251548 Score: 155
Period size: 30 Copynumber: 3.3 Consensus size: 30
48251440 AACCAAAATG
*
48251450 AGAATCAGAATCAGTAACAGAATCAGAATC
1 AGAATCAGAATTAGTAACAGAATCAGAATC
48251480 AGAATCA-ATATTAGTAACAGAATCAGAATC
1 AGAATCAGA-ATTAGTAACAGAATCAGAATC
*
48251510 AGAATCAGAATTACGTGACAGAATCAGAATC
1 AGAATCAGAATTA-GTAACAGAATCAGAATC
48251541 AGAATCAG
1 AGAATCAG
48251549 TAACAGAATT
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.02
30 38 0.59
31 25 0.39
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATTAGTAACAGAATCAGAATC
Found at i:48251563 original size:79 final size:79
Alignment explanation
Indices: 48251450--48251624 Score: 273
Period size: 79 Copynumber: 2.2 Consensus size: 79
48251440 AACCAAAATG
48251450 AGAATCAGAATCAGTAA-CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAA
1 AGAATCAGAATCAG-AATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAA
48251514 TCAGAATTACGTGAC
65 TCAGAATTACGTGAC
* * * *
48251529 AGAATCAGAATCAGAATCAGTAA-CAGAATTAGAATCAGTATTAGTAACAGAATTAGAATTAGAA
1 AGAATCAGAATCAGAATCAG-AATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAA
*
48251593 TCAGAATTAGGTGAC
65 TCAGAATTACGTGAC
48251608 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
48251625 GTGAATGCAA
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
78 2 0.02
79 85 0.96
80 2 0.02
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.22
Consensus pattern (79 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAAT
CAGAATTACGTGAC
Found at i:48251778 original size:27 final size:26
Alignment explanation
Indices: 48251741--48251806 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
48251731 AGCATGGCTG
*
48251741 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
48251767 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
48251794 CCAGAATCAGATA
1 CCAGAA-CAGATA
48251807 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:48251811 original size:27 final size:27
Alignment explanation
Indices: 48251741--48251814 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
48251731 AGCATGGCTG
* *
48251741 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
48251767 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
48251794 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
48251815 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:48251821 original size:27 final size:27
Alignment explanation
Indices: 48251765--48251822 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
48251755 GTGACAGAGT
* * *
48251765 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
48251792 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
48251819 CACC
1 CACC
48251823 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:48252027 original size:22 final size:22
Alignment explanation
Indices: 48251979--48252037 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
48251969 GTAAATACGT
*
48251979 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
48252001 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
48252023 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
48252038 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:48252204 original size:27 final size:26
Alignment explanation
Indices: 48252125--48252207 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
48252115 TCGATCGGTC
* * *
48252125 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
48252151 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
48252178 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
48252205 AAC
1 AAC
48252208 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:48252461 original size:27 final size:27
Alignment explanation
Indices: 48252406--48252600 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
48252396 GGGGCAAAAT
* * * *
48252406 GGTAATTTTACCCCA-AAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
48252432 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
48252459 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
48252486 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
48252513 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
48252540 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
48252567 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
48252594 AGTAATT
1 GGTAATT
48252601 TCACAATCAA
Statistics
Matches: 145, Mismatches: 23, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 13 0.09
27 132 0.91
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:48252594 original size:54 final size:54
Alignment explanation
Indices: 48252406--48252600 Score: 268
Period size: 54 Copynumber: 3.6 Consensus size: 54
48252396 GGGGCAAAAT
* * * * *
48252406 GGTAATTTTACCCCA-AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
* *
48252459 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTATAGGGGTATTTC
* *
48252513 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
* *
48252567 GGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
48252601 TCACAATCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
53 13 0.10
54 111 0.89
55 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
Found at i:48252635 original size:27 final size:27
Alignment explanation
Indices: 48252605--48253107 Score: 667
Period size: 27 Copynumber: 19.3 Consensus size: 27
48252595 GTAATTTCAC
*
48252605 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
48252632 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48252659 AA-CTGAGGGT-AAACAGTAATT-TGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
48252684 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48252711 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48252738 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48252765 AA-CTGAGGGTAAAA--GTAATT-TGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
***
48252789 AATCGAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48252816 AAT-GAGGGTAAAA-GGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48252841 AATCGAGGGTAAAAC-GTAATT-T-TAA
1 AATCGAGGGTAAAACGGTAATTCTGT-A
48252866 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
48252893 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48252920 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
48252947 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48252974 AAT-GAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48253000 AATCGAGGGTAAAAC-GTAATT-T-TAA
1 AATCGAGGGTAAAACGGTAATTCTGT-A
48253025 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48253052 AATCGAGGGTAAAACGGTAATT-T-TA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48253077 AATCGAGGGT---ACGGTAATT-T-TA
1 AATCGAGGGTAAAACGGTAATTCTGTA
48253099 AATCGAGGG
1 AATCGAGGG
48253108 CATTTCAGTA
Statistics
Matches: 433, Mismatches: 21, Indels: 49
0.86 0.04 0.10
Matches are distributed among these distances:
22 21 0.05
24 18 0.04
25 77 0.18
26 98 0.23
27 216 0.50
28 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:48252695 original size:52 final size:53
Alignment explanation
Indices: 48252610--48253107 Score: 640
Period size: 52 Copynumber: 9.6 Consensus size: 53
48252600 TTCACAATCA
48252610 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAA-TG
* * * **
48252664 AGGGT-AAACAGTAATT-TGTAAATCAAGGGTAAAACGGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAAT-G
*
48252716 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAA-TG
** *
48252770 AGGGTAAAA--GTAATT-TGTAAATCGAGGGTAAAATAATAATTCTGTAAATG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATG
*
48252820 AGGGTAAAA-GGTAATTCTGTAAATCGAGGGTAAAACG-TAATTTT-AAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAAT-G
*
48252871 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAA-TG
*
48252925 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAATG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAATG
*
48252978 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG-TAATTTT-AAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAAT-G
*
48253030 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAA-TTT-TAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAAT-G
48253082 AGGGT---ACGGTAATT-T-TAAATCGAGGG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGG
48253108 CATTTCAGTA
Statistics
Matches: 406, Mismatches: 21, Indels: 41
0.87 0.04 0.09
Matches are distributed among these distances:
47 11 0.03
48 1 0.00
49 9 0.02
50 15 0.04
51 57 0.14
52 146 0.36
53 68 0.17
54 97 0.24
55 2 0.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (53 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATG
Found at i:48252855 original size:209 final size:211
Alignment explanation
Indices: 48252596--48253087 Score: 713
Period size: 209 Copynumber: 2.3 Consensus size: 211
48252586 GGTATTTCAG
* * *
48252596 TAATTTCACAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAA
1 TAATTTTAAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG-TAATTTT-TAAA
* *
48252661 CT-GAGGGT-AAACAGTAATT-TGTAAATCAAGGGTAAAACGGTAATT-T-TACAAATCGAGGGT
64 ATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTA-AAAT-GAGGGT
48252721 AAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAA-GTAATT
127 AAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA-TGAGGGTAAAACGTAATT
48252785 -TGTAAATCGAGGGTAAAATAA
191 CTGTAAATCGAGGGTAAAA-AA
48252806 TAATTCTGT-AAAT-GAGGGTAAAA-GGTAATTCTGTAAATCGAGGGTAAAACGTAA-TTTTAAA
1 TAATT-T-TAAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGTAATTTTTAAA
* * *
48252867 ATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAA
64 ATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAAATGAGGGTAA
48252932 AACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATGAGGGTAAAACGGTAATTCT
129 AACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATGAGGGTAAAAC-GTAATTCT
**
48252997 GTAAATCGAGGGTAAAACG
193 GTAAATCGAGGGTAAAAAA
48253016 TAATTTTAAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAA-TTTT-AAA
1 TAATTTTAAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GTAATTTTTAAAA
48253079 TCGAGGGTA
65 TCGAGGGTA
48253088 CGGTAATTTT
Statistics
Matches: 258, Mismatches: 10, Indels: 27
0.87 0.03 0.09
Matches are distributed among these distances:
206 5 0.02
207 9 0.03
208 25 0.10
209 109 0.42
210 39 0.15
211 63 0.24
212 8 0.03
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (211 bp):
TAATTTTAAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGTAATTTTTAAAAT
CGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAAATGAGGGTAAAA
CGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATGAGGGTAAAACGTAATTCTGTA
AATCGAGGGTAAAAAA
Found at i:48252939 original size:236 final size:234
Alignment explanation
Indices: 48252595--48253107 Score: 715
Period size: 236 Copynumber: 2.2 Consensus size: 234
48252585 GGGTATTTCA
* * *
48252595 GTAATTTCACAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAA
1 GTAATTTTA-AATCGAGGGTAAAACGGTAATT-T-TAAATCGAGGGTAAAACGATAATTCTGTAA
*
48252660 ACTGAGGGTAAACAGTAATTTGTAAATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAA
63 ACTGAGGGTAAACAGTAATTTGTAAATCAAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAA
*
48252725 CGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAA-CTGAGGGTAAAA-GTAATTTGT
128 CAGTAATTCTGTAAAT-GAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACGTAATTT-T
*
48252788 -AAATCGAGGGTAAAATAATAATTCTGTAAAT-GAGGGTAAAA-G
190 AAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAACG
*
48252830 GTAATTCTGTAAATCGAGGGTAAAAC-GTAATTTTAAAATCGAGGGTAAAACGGTAATTCTGTAA
1 GTAATT-T-TAAATCGAGGGTAAAACGGTAATTTT-AAATCGAGGGTAAAACGATAATTCTGTAA
* **
48252894 A-TCGAGGGTAAAACAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGT
63 ACT-GAGGGT-AAACAGTAATT-TGTAAATC-AAGGGTAAAACGGTAATTCTACAAATCGAGGGT
*
48252957 AAAACAGTAATTCTGTAAATGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGTAATTT
124 AAAACAGTAATTCTGTAAATGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGTAATTT
**
48253022 TAAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
189 TAAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAACG
48253068 GTAATTTTAAATCGAGGGT---ACGGTAATTTTAAATCGAGGG
1 GTAATTTTAAATCGAGGGTAAAACGGTAATTTTAAATCGAGGG
48253108 CATTTCAGTA
Statistics
Matches: 252, Mismatches: 13, Indels: 28
0.86 0.04 0.10
Matches are distributed among these distances:
233 14 0.06
234 43 0.17
235 59 0.23
236 117 0.46
237 12 0.05
238 7 0.03
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (234 bp):
GTAATTTTAAATCGAGGGTAAAACGGTAATTTTAAATCGAGGGTAAAACGATAATTCTGTAAACT
GAGGGTAAACAGTAATTTGTAAATCAAGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAACAG
TAATTCTGTAAATGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGTAATTTTAAAATC
GAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAACG
Found at i:48255075 original size:6 final size:6
Alignment explanation
Indices: 48255064--48255238 Score: 132
Period size: 6 Copynumber: 28.8 Consensus size: 6
48255054 AACCAAAATG
* *
48255064 AGAATC AGAATC AGTAA-C AGAATC AGAATC CGAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC
48255112 AGAATC AGAATC AGAATTAC ATG-A-C AGAATC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAA-T-C A-GAATC AGAATC AGAATC AGAATC AG-AATC
* * * *
48255161 AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATT AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
48255209 AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAAT--C AGAATC AGAATC AGAAT
48255239 GTGAATGCAA
Statistics
Matches: 137, Mismatches: 14, Indels: 36
0.73 0.07 0.19
Matches are distributed among these distances:
4 1 0.01
5 13 0.09
6 108 0.79
7 9 0.07
8 5 0.04
9 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:48255225 original size:79 final size:79
Alignment explanation
Indices: 48255064--48255238 Score: 242
Period size: 79 Copynumber: 2.1 Consensus size: 79
48255054 AACCAAAATG
*
48255064 AGAATCAGAATCAGTAACAGAATCAGAATCCGAATCAATATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAAT
* *
48255129 TACATGACAGAATC
66 CAAATGACAGAATC
* * *
48255143 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATTAGAATTAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAAT
48255208 CAGAATTAGGTGACAGAATC
66 C--AA--A--TGACAGAATC
48255228 AGAATCAGAAT
1 AGAATCAGAAT
48255239 GTGAATGCAA
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
79 61 0.73
81 1 0.01
83 1 0.01
85 21 0.25
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (79 bp):
AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAAT
CAAATGACAGAATC
Found at i:48255393 original size:27 final size:26
Alignment explanation
Indices: 48255356--48255421 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
48255346 AGCATGGCTG
*
48255356 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
48255382 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
48255409 CCAGAATCAGATA
1 CCAGAA-CAGATA
48255422 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:48255426 original size:27 final size:27
Alignment explanation
Indices: 48255356--48255429 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
48255346 AGCATGGCTG
* *
48255356 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
48255382 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
48255409 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
48255430 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:48255436 original size:27 final size:27
Alignment explanation
Indices: 48255380--48255437 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
48255370 GTGACAGAGT
* * *
48255380 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
48255407 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
48255434 CACC
1 CACC
48255438 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:48255642 original size:22 final size:22
Alignment explanation
Indices: 48255594--48255652 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
48255584 GTAAATACGT
*
48255594 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
48255616 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
48255638 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
48255653 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:48255819 original size:27 final size:26
Alignment explanation
Indices: 48255740--48255822 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
48255730 TCGATCGGTC
* * *
48255740 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
48255766 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
48255793 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
48255820 AAC
1 AAC
48255823 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:48256051 original size:27 final size:27
Alignment explanation
Indices: 48256021--48256215 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
48256011 GGGGCAAAAT
* * *
48256021 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48256048 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48256075 -GTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
48256101 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48256128 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48256155 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48256182 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48256209 AGTAATT
1 GGTAATT
48256216 TCACAATAAG
Statistics
Matches: 146, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
26 24 0.16
27 122 0.84
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:48256193 original size:81 final size:80
Alignment explanation
Indices: 48256023--48256215 Score: 244
Period size: 81 Copynumber: 2.4 Consensus size: 80
48256013 GGCAAAATGG
* * * * * *
48256023 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGTATTTCTACCCT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGTAATTCTACCCT
48256088 ACAAGGGTATTTCGA
66 ACAAGGGTATTTCGA
* * * *
48256103 TAATTCTACCCTATAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC-GTAATTCTACCC
* *
48256168 TATAGGGGTATTTCAGA
65 TACAAGGGTATTTC-GA
*
48256185 -AATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
48256216 TCACAATAAG
Statistics
Matches: 96, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 43 0.45
81 51 0.53
82 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (80 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGTAATTCTACCCT
ACAAGGGTATTTCGA
Found at i:48256255 original size:27 final size:27
Alignment explanation
Indices: 48256224--48256760 Score: 688
Period size: 27 Copynumber: 19.9 Consensus size: 27
48256214 TTTCACAATA
* *
48256224 AGGGTAAAATGGTAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
48256251 AGGGTAAAACGATAATTTTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
*** *
48256278 AGGGTAAATTAGTAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATCG
* **
48256305 AGGGTAAAACGGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
48256332 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
48256359 AGGGTAAAACAGTAATTCTGTAAA-CTA
1 AGGGTAAAACGGTAATTCTGTAAATC-G
* *
48256386 AGGGTAAAACGATAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
48256413 AAGGTAAAACAGTAATTCTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
48256440 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * **
48256467 AGGGTAAAACAGTAATTTTAAAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
48256494 AGAGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
48256521 AGGGTAAAACAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
* *
48256548 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
48256575 AAGGTAAAACAGTAATTCTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
48256602 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
48256629 AGGGTAAAACGATAATT-T-TAAAATCG
1 AGGGTAAAACGGTAATTCTGT-AAATCG
48256655 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * **
48256682 AGGGTAAAATGGTAATTTTAAAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
48256709 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
48256736 AGGGTAAAACGGTAATTCTGTAAAT
1 AGGGTAAAACGGTAATTCTGTAAAT
48256761 TGGGAGTACT
Statistics
Matches: 439, Mismatches: 62, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
25 1 0.00
26 26 0.06
27 408 0.93
28 4 0.01
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:48261215 original size:24 final size:25
Alignment explanation
Indices: 48261188--48261240 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
48261178 TGTGGTGTTC
*
48261188 ACCTATCCATCTATTCATCC-TTTT
1 ACCTATCCATATATTCATCCTTTTT
48261212 ACCTATCCATATATTCATCCTTTTT
1 ACCTATCCATATATTCATCCTTTTT
48261237 ACCT
1 ACCT
48261241 TAACAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 19 0.70
25 8 0.30
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (25 bp):
ACCTATCCATATATTCATCCTTTTT
Found at i:48271953 original size:19 final size:19
Alignment explanation
Indices: 48271912--48271953 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
48271902 CAGCTCTACT
* *
48271912 GCAAATACTATTTAGTGCT
1 GCAAATACTATTTAGCGCC
48271931 GCAAATACTATTTAGCGCC
1 GCAAATACTATTTAGCGCC
48271950 GCAA
1 GCAA
48271954 CCAGTGCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (19 bp):
GCAAATACTATTTAGCGCC
Found at i:48272145 original size:34 final size:34
Alignment explanation
Indices: 48272085--48272151 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
48272075 TGCTACTGTC
* * *
48272085 ACTGAAATGGGCTCAGGCCCGCACTGATATTGGT
1 ACTGAAATGGGCTAAGGCCCGAACTGAAATTGGT
* *
48272119 ACTGTAATGGGCTAAGGCCCTAACTGAAATTGG
1 ACTGAAATGGGCTAAGGCCCGAACTGAAATTGG
48272152 ACTTAGGCCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (34 bp):
ACTGAAATGGGCTAAGGCCCGAACTGAAATTGGT
Found at i:48278938 original size:43 final size:42
Alignment explanation
Indices: 48278889--48279031 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 42
48278879 TGCCAACGTT
* *
48278889 CCAGACAAGATCTTACATGTAATCACATATCGATGCCATTGTC
1 CCAGACAAGGTCTTACACGTAATCACATATCGATGCCA-TGTC
* * *
48278932 CTAGACAAGGTCTTACACG-AATCA-A-ATAGATGTCGATGTC
1 CCAGACAAGGTCTTACACGTAATCACATATCGATG-CCATGTC
* * **
48278972 CCAGACATGGTCTTACAGGTAATCACATATATCGATGCCAACATC
1 CCAGACAAGGTCTTACACGTAATCAC--ATATCGATGCC-ATGTC
*
48279017 CCAGACATGGTCTTA
1 CCAGACAAGGTCTTA
48279032 TGCGAGAACA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
40 26 0.32
41 8 0.10
42 5 0.06
43 16 0.20
44 2 0.02
45 24 0.30
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
CCAGACAAGGTCTTACACGTAATCACATATCGATGCCATGTC
Found at i:48288739 original size:68 final size:68
Alignment explanation
Indices: 48288667--48288862 Score: 250
Period size: 69 Copynumber: 2.8 Consensus size: 68
48288657 ACACCCTGTA
* * * *
48288667 GTAGCTAGGTCACATGTGTGATACGAGATGTATC-CCATGTAGACAAGAGAGCTACGTGAAAGAT
1 GTAGCTAGGTCGCATGTGTGATAAGAGAAGGA-CACCATGTAGACAAGAGAGCTACGTGAAAGAT
48288731 AAAT
65 AAAT
*** *
48288735 GTAGCTAGGTCGCATGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAGAT
1 GTAGCTAGGTCGCATGTG-TGATAAGAGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAGAT
48288800 AAAT
65 AAAT
* *
48288804 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGTGTGA-T--AAGAGAAGGACACCATGTAGACAAGAGAGCTACG
48288863 AGACAAATCG
Statistics
Matches: 111, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
68 19 0.17
69 58 0.52
71 34 0.31
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (68 bp):
GTAGCTAGGTCGCATGTGTGATAAGAGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAGATA
AAT
Found at i:48288790 original size:69 final size:70
Alignment explanation
Indices: 48288701--48288862 Score: 308
Period size: 69 Copynumber: 2.3 Consensus size: 70
48288691 GAGATGTATC
48288701 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCAT-GTGATTCCAAGTGAA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATCGTGATTCCAAGTGAA
48288765 GGACA
66 GGACA
48288770 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCAT-CGTGATTCCAAGTGA
48288835 AGGACA
65 AGGACA
48288841 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
48288863 AGACAAATCG
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
69 49 0.54
71 42 0.46
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATCGTGATTCCAAGTGAA
GGACA
Found at i:48299077 original size:28 final size:28
Alignment explanation
Indices: 48299042--48299100 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
48299032 CTAGGGTATA
48299042 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
48299070 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
48299098 TCG
1 TCG
48299101 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:48300750 original size:20 final size:20
Alignment explanation
Indices: 48300727--48300764 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48300717 CACATCCAAA
*
48300727 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
48300747 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
48300765 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:48306459 original size:28 final size:28
Alignment explanation
Indices: 48306413--48306481 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
48306403 TTTAAAACCC
*
48306413 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
48306440 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
48306468 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
48306482 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:48309597 original size:54 final size:54
Alignment explanation
Indices: 48309495--48309597 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 54
48309485 AGTATTTGTC
* * ** *
48309495 ACTACAGGGGATTTAGCCTGGACTGGTAATCCCGACATTACTCTATGAGTTTAT
1 ACTACAGGGGATTTAGCCTGGACTAGTAATCCCGACATAAAACAATGAGTTTAT
* * * *
48309549 ACTACAGGGGATTTAGCCTGGACTAGTAATCTCGTCGTAAAAGAATGAG
1 ACTACAGGGGATTTAGCCTGGACTAGTAATCCCGACATAAAACAATGAG
48309598 GTTCGTGGGA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 40 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (54 bp):
ACTACAGGGGATTTAGCCTGGACTAGTAATCCCGACATAAAACAATGAGTTTAT
Found at i:48315032 original size:40 final size:40
Alignment explanation
Indices: 48314983--48315134 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
48314973 ACAACCACAA
* * *** *
48314983 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
48315023 GCACCATTGCCTTCGAGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
48315063 GCACGAA-TGCCTTCGGGTCTTAGCCCGGACATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * * *
48315103 GCATAAATGCCTTCGAGACTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
48315135 CATTCAAATG
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:48320328 original size:40 final size:39
Alignment explanation
Indices: 48320283--48320412 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
48320273 CGGAATATAA
48320283 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
48320323 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
48320363 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
48320403 CCGGATATAA
1 CCGGATATAA
48320413 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:48320427 original size:40 final size:40
Alignment explanation
Indices: 48320299--48320450 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
48320289 ATAACCATGT
* * *
48320299 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
48320339 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
48320379 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
48320419 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
48320451 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:48320433 original size:80 final size:80
Alignment explanation
Indices: 48320299--48320448 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
48320289 ATAACCATGT
*
48320299 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
48320363 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
48320379 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
48320442 CCCGGAT
64 CCCGGAT
48320449 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:48326239 original size:40 final size:40
Alignment explanation
Indices: 48326190--48326341 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
48326180 ACAACCACAA
* * *** *
48326190 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
48326230 GCACCATTGCCTTCGAGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
48326270 GCACGAA-TGCCTTCGGGTCTTAGCCCGGACATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
48326310 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
48326342 CATTCAAATG
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 90 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:48328203 original size:31 final size:31
Alignment explanation
Indices: 48328165--48328228 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
48328155 CCTTTTCATA
48328165 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
48328196 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
48328227 TT
1 TT
48328229 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:48328471 original size:24 final size:24
Alignment explanation
Indices: 48328420--48328562 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
48328410 GCTTTATCAT
*
48328420 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
48328445 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
48328469 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
48328492 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
48328516 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
48328540 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
48328563 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:48328499 original size:47 final size:48
Alignment explanation
Indices: 48328420--48328561 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
48328410 GCTTTATCAT
* *
48328420 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
48328469 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
48328516 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
48328562 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:48328520 original size:71 final size:72
Alignment explanation
Indices: 48328419--48328562 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
48328409 TGCTTTATCA
*
48328419 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
48328484 GCCCTTT
66 GCCCTTT
* * **
48328491 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
48328554 AGCCCTTT
65 AGCCCTTT
48328562 T
1 T
48328563 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:48328638 original size:20 final size:20
Alignment explanation
Indices: 48328613--48328672 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
48328603 TATGATTACC
48328613 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
48328633 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
48328653 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
48328673 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:48328643 original size:11 final size:11
Alignment explanation
Indices: 48328613--48328667 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
48328603 TATGATTACC
48328613 TCATGTGCATA
1 TCATGTGCATA
*
48328624 TCA--TACATA
1 TCATGTGCATA
48328633 TCATGTGCATA
1 TCATGTGCATA
* *
48328644 TCA--TACATT
1 TCATGTGCATA
48328653 TCATGTGCATA
1 TCATGTGCATA
48328664 TCAT
1 TCAT
48328668 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:48328747 original size:25 final size:25
Alignment explanation
Indices: 48328715--48328762 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48328705 ATACATAAAC
* * *
48328715 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
48328740 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
48328763 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:48330358 original size:27 final size:27
Alignment explanation
Indices: 48330002--48330347 Score: 392
Period size: 27 Copynumber: 12.8 Consensus size: 27
48329992 GGGTATTTTA
* * *
48330002 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
48330029 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
48330056 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
48330083 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
48330110 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
48330137 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
48330164 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
48330191 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
* **
48330218 GTAATTCTATAAATCGAAGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
48330245 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
48330272 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
48330299 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
48330326 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
48330348 CTTTGGTAAT
Statistics
Matches: 282, Mismatches: 31, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
26 1 0.00
27 278 0.99
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:48330369 original size:27 final size:27
Alignment explanation
Indices: 48330271--48330575 Score: 242
Period size: 27 Copynumber: 11.3 Consensus size: 27
48330261 AGGGTAAAAC
* * ****
48330271 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
****
48330298 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
48330325 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
48330352 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
48330379 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
48330406 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
48330433 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
48330460 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
48330487 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * * *
48330514 GGTAATTTTATAAACCAATGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
48330541 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
48330567 GGTAATTTT
1 GGTAATTTT
48330576 GTAAACCAAA
Statistics
Matches: 241, Mismatches: 34, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
26 18 0.07
27 221 0.92
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:48330589 original size:26 final size:26
Alignment explanation
Indices: 48330425--48330592 Score: 174
Period size: 27 Copynumber: 6.3 Consensus size: 26
48330415 ACAAATTAGG
* *
48330425 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
48330452 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
48330479 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
48330506 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
48330532 TGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
48330559 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
48330585 AGTATTTT
1 GGTATTTT
48330593 AAACATGGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
26 28 0.22
27 97 0.78
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:48339860 original size:49 final size:49
Alignment explanation
Indices: 48339801--48339981 Score: 236
Period size: 49 Copynumber: 3.7 Consensus size: 49
48339791 TGGTACGCAG
* * *
48339801 AGTAGCCTGCACATAGTACTACACATGCGGCCAATTATCCGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACGT
* *
48339850 AGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACGT
* * * * * *
48339899 AGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCAT
1 AGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCCGGTACACGT
*
48339950 AGTAGCCTGCACTTAGTACTACACATGCGACC
1 AGTAGCCTGCACTTAGTACTACACACGCGACC
48339982 TCACAATAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 75 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
AGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACGT
Found at i:48342158 original size:30 final size:30
Alignment explanation
Indices: 48342123--48342182 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
48342113 CAAGAAAATC
*
48342123 GAATAAAGAAATCCAAGA-TAGAGAAACCCA
1 GAATAAAGAAA-CCAAGAGTAAAGAAACCCA
*
48342153 GAATAAAGAAACCCAGAGTAAAGAAACCCA
1 GAATAAAGAAACCAAGAGTAAAGAAACCCA
48342183 AGATACGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.57, C:0.18, G:0.17, T:0.08
Consensus pattern (30 bp):
GAATAAAGAAACCAAGAGTAAAGAAACCCA
Found at i:48342162 original size:15 final size:15
Alignment explanation
Indices: 48342123--48342182 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
48342113 CAAGAAAATC
*
48342123 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
48342138 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
48342153 GAATAAAGAAACCCA
1 GAATAAAGAAACCCA
*
48342168 GAGTAAAGAAACCCA
1 GAATAAAGAAACCCA
48342183 AGATACGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 37 0.95
16 1 0.03
ACGTcount: A:0.57, C:0.18, G:0.17, T:0.08
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:48355325 original size:49 final size:49
Alignment explanation
Indices: 48355263--48355489 Score: 256
Period size: 49 Copynumber: 4.6 Consensus size: 49
48355253 ATCTGGTGCG
* * * *
48355263 CATAGTAGTCTGCACATAGTACTACACATGCGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACA
* * *
48355312 CGTAGTAGCCTGCACTTAGCACTACACACGTGACCAATTATCCAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACA
* * ** * *
48355361 CATACTAGCCGGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACA
* * * ** *
48355411 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACA
48355462 CATAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
48355490 TGCGACCTCA
Statistics
Matches: 147, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 73 0.50
50 39 0.27
51 34 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACA
Found at i:48355419 original size:99 final size:101
Alignment explanation
Indices: 48355308--48355489 Score: 269
Period size: 99 Copynumber: 1.8 Consensus size: 101
48355298 AATTATCCGG
48355308 TACACGTAGTAGCCTGCACTTAGCACTACACACGTGA-C-CAATTATCCAGTACACATACTAGCC
1 TACACGTAGTAGCCTGCACTTAGCACTACACACGTGATCACAATTATCCAGTACACATACTAGCC
48355371 GGCACTTAGTACTACACACGTGACCTAACCATCTGA
66 GGCACTTAGTACTACACACGTGACCTAACCATCTGA
* * * *** * *
48355407 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACGCATAGTAGCC
1 TACACGTAGTAGCCTGCACTTAGCACTACACACGTGATCACAATTATCCAGTACACATACTAGCC
*
48355472 TGCACTTAGTACTACACA
66 GGCACTTAGTACTACACA
48355490 TGCGACCTCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 36 0.50
100 1 0.01
101 35 0.49
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (101 bp):
TACACGTAGTAGCCTGCACTTAGCACTACACACGTGATCACAATTATCCAGTACACATACTAGCC
GGCACTTAGTACTACACACGTGACCTAACCATCTGA
Found at i:48357689 original size:28 final size:28
Alignment explanation
Indices: 48357629--48357690 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
48357619 CCTATTCATT
* *
48357629 AACAGT-ACAGTGTGGGCCTAAGCCCTA
1 AACAGTAACAGTATGGGCCTAAGCCCAA
** *
48357656 TGCAGTAACAGTATGGGCCTATGCCCAA
1 AACAGTAACAGTATGGGCCTAAGCCCAA
48357684 AACAGTA
1 AACAGTA
48357691 TAATCACAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (28 bp):
AACAGTAACAGTATGGGCCTAAGCCCAA
Found at i:48359897 original size:40 final size:38
Alignment explanation
Indices: 48359780--48359897 Score: 130
Period size: 39 Copynumber: 3.0 Consensus size: 38
48359770 GCAATTTATG
* *
48359780 TGGTATTATATCCGGGTTAAATCCCGCAGGCTTAATGC
1 TGGTATGATATCCGGGTTAAATCCCGCAGGCTTAGTGC
* * * *
48359818 TGGTATTATATCCGGACTTATAGT-CCGCAGGCCTAGTGC
1 TGGTATGATATCCGG-GTTA-AATCCCGCAGGCTTAGTGC
*
48359857 TGGTAATAGATATCCGGGTTAAATCCCGCAGGCTTTGTGC
1 TGGT-AT-GATATCCGGGTTAAATCCCGCAGGCTTAGTGC
48359897 T
1 T
48359898 AGAAATTGGA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
38 15 0.23
39 22 0.33
40 21 0.32
41 8 0.12
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (38 bp):
TGGTATGATATCCGGGTTAAATCCCGCAGGCTTAGTGC
Found at i:48368589 original size:29 final size:29
Alignment explanation
Indices: 48368554--48368689 Score: 134
Period size: 29 Copynumber: 4.7 Consensus size: 29
48368544 CTACTCGATT
* *
48368554 TCGCACACTTAGTGCCACGTAATTT-AAGC
1 TCGCACACTTAGTGCCA-ATAATTTCCAGC
** **
48368583 TCGCACACACAGTGCCATATTTTTTCCAGC
1 TCGCACACTTAGTGCCA-ATAATTTCCAGC
*
48368613 TTGCACACTTAGTGCCAA-ATATTTCCAGC
1 TCGCACACTTAGTGCCAATA-ATTTCCAGC
*
48368642 ACGCACACTTAGTGCC-ATATATTTCCAGC
1 TCGCACACTTAGTGCCAATA-ATTTCCAGC
*
48368671 ACGCACACTTAGTGCCAAT
1 TCGCACACTTAGTGCCAAT
48368690 CTCGACACCA
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
28 1 0.01
29 69 0.78
30 19 0.21
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
TCGCACACTTAGTGCCAATAATTTCCAGC
Found at i:48368623 original size:59 final size:58
Alignment explanation
Indices: 48368555--48368688 Score: 162
Period size: 59 Copynumber: 2.3 Consensus size: 58
48368545 TACTCGATTT
** * * *
48368555 CGCACACTTAGTGCCACGTAATTT-AAGCTCGCACACACAGTGCCATATTTTTTCCAGCT
1 CGCACACTTAGTGCCAAAT-ATTTCAAGCACGCACACACAGTGCCATA-TATTTCCAGCA
* * **
48368614 TGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCAAATATTTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
48368672 CGCACACTTAGTGCCAA
1 CGCACACTTAGTGCCAA
48368689 TCTCGACACC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 29 0.45
59 35 0.55
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCAAATATTTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
Found at i:48373622 original size:40 final size:40
Alignment explanation
Indices: 48373577--48373782 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
48373567 CGGAATACAA
* *
48373577 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
48373617 CCGGATAGAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
*
48373657 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
48373697 CCGGATGTGGTC-ACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAT-AACAACTTGCACGAAT-GCCTTCGGGTCTTAGC
** ** * *
48373737 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTT-GCACGAATGCCTTCGGGTCTTAGC
48373777 CCGGAT
1 CCGGAT
48373783 GTCATTCAAT
Statistics
Matches: 138, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 4 0.03
40 130 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:48373717 original size:80 final size:81
Alignment explanation
Indices: 48373577--48373784 Score: 235
Period size: 80 Copynumber: 2.6 Consensus size: 81
48373567 CGGAATACAA
* * * *
48373577 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACAACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGAACAACTAGCAC-AAT
*
48373641 -GCCTTCGGGTATTAGC
65 GGCCTTCGGGTATTAAC
* **
48373657 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGAACAACTAGCACAATG
*
48373721 GCCTTCGGGTCTTAAC
66 GCCTTCGGGTATTAAC
** ** * *
48373737 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGCCCGGATGT
1 CCGGATATAACAACTT-GCACGAATGCCTTCGGGTCTTAGCCCGGATGT
48373785 CATTCAATTG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 5 0.05
80 102 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGAACAACTAGCACAATG
GCCTTCGGGTATTAAC
Found at i:48380102 original size:27 final size:26
Alignment explanation
Indices: 48380045--48380133 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
48380035 CAAAATAGTC
* * *
48380045 ATTTTACCCTACAAGGGTATGTCGATC
1 ATTTTACACTACAAGGGTAT-TTGATA
*
48380072 ATTTTACACTACAAGGGTAGTTTGGTA
1 ATTTTACACTACAAGGGTA-TTTGATA
* **
48380099 ATTTGACACTGTAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTA-TTTGATA
48380126 ATTTTACA
1 ATTTTACA
48380134 AATTGGGGGT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (26 bp):
ATTTTACACTACAAGGGTATTTGATA
Found at i:48380143 original size:27 final size:27
Alignment explanation
Indices: 48380112--48380423 Score: 256
Period size: 27 Copynumber: 11.7 Consensus size: 27
48380102 TGACACTGTA
* *
48380112 AGGGTATTTTGATAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * * * * *
48380139 GGGGTGTTTTAGTAATTTTAAAAAGCA
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
48380166 AGGCTATTTCGGTAATTTTA-TAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
*
48380192 AGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * * *
48380219 AGGGTGTTTCGGTAAGTTTACAAATTG
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
48380246 AGGGTGTTATGGTAATTTTACAAAT-G
1 AGGGTATTTTGGTAATTTTACAAATCG
* * * *
48380272 AGGGTGTTTCGGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
48380299 ATGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTTGGTAATTTTACAAATCG
* *** * *
48380326 ACGGTATTTCAATAATTTCAC-AATCA
1 AGGGTATTTTGGTAATTTTACAAATCG
*
48380352 AGGGTATTTTGGTAATTTTGCAAA-CTG
1 AGGGTATTTTGGTAATTTTACAAATC-G
**
48380379 AGGGTATTTCAGTAATTTTACAAATC-
1 AGGGTATTTTGGTAATTTTACAAATCG
*
48380405 ATGGGTACTTTGGTAATTT
1 A-GGGTATTTTGGTAATTT
48380424 CTCTTTATTA
Statistics
Matches: 227, Mismatches: 52, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
26 65 0.29
27 161 0.71
28 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:48380229 original size:53 final size:54
Alignment explanation
Indices: 48380112--48380423 Score: 290
Period size: 53 Copynumber: 5.8 Consensus size: 54
48380102 TGACACTGTA
* * *** * * * * *
48380112 AGGGTATTTTGATAATTTTACAAATTGGGGGTGTTTTAGTAATTTTAAAAAGCA
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCG
* * * *
48380166 AGGCTATTTCGGTAATTTTA-TAATCGAGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCG
* * ** * *
48380219 AGGGTGTTTCGGTAAGTTTACAAATTGAGGGTGTTATGGTAATTTTACAAAT-G
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCG
* * * * *
48380272 AGGGTGTTTCGGTAATTTCACAAATCAATGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCG
* ** * *
48380326 ACGGTATTTCAATAATTTCAC-AATCAAGGGTATTTTGGTAATTTTGCAAA-CTG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATC-G
* * *
48380379 AGGGTATTTCAGTAATTTTACAAATCATGGGTACTTTGGTAATTT
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTT
48380424 CTCTTTATTA
Statistics
Matches: 212, Mismatches: 42, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
52 1 0.00
53 130 0.61
54 81 0.38
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCG
Found at i:48380424 original size:80 final size:79
Alignment explanation
Indices: 48380083--48380424 Score: 292
Period size: 80 Copynumber: 4.3 Consensus size: 79
48380073 TTTTACACTA
* * * * * *
48380083 CAAGGGTAGTTTGGTAATTTGACACTGTAAGGGTATTTTGATAATTTTACAAATTGGGGGTGTTT
1 CAAGGGTA-TTTGGTAATTTCACAAT-CAAGGGTATTTTGATAATTTTACAAATCGAGGGTATTT
* * *
48380148 TAGTAATTTTAAAAAG
64 CAGTAATTTTACAAAT
* * * * *
48380164 CAAGGCTATTTCGGTAATTTTATAATCGAGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTC
1 CAAGGGTATTT-GGTAATTTCACAATCAAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTC
* *
48380229 GGTAAGTTTACAAAT
65 AGTAATTTTACAAAT
** * * * * * * * * *
48380244 TGAGGGTGTTATGGTAATTTTACAAAT-GAGGGTGTTTCGGTAATTTCACAAATCAATGGTATTT
1 CAAGGGTATT-TGGTAATTTCAC-AATCAAGGGTATTTTGATAATTTTACAAATCGAGGGTATTT
*
48380308 CGGTAATTTTACAAAT
64 CAGTAATTTTACAAAT
* ** * *
48380324 CAACGGTATTTCAATAATTTCACAATCAAGGGTATTTTGGTAATTTTGCAAA-CTGAGGGTATTT
1 CAAGGGTATTT-GGTAATTTCACAATCAAGGGTATTTTGATAATTTTACAAATC-GAGGGTATTT
48380388 CAGTAATTTTACAAAT
64 CAGTAATTTTACAAAT
*
48380404 CATGGGTACTTTGGTAATTTC
1 CAAGGGTA-TTTGGTAATTTC
48380425 TCTTTATTAT
Statistics
Matches: 209, Mismatches: 45, Indels: 15
0.78 0.17 0.06
Matches are distributed among these distances:
79 5 0.02
80 179 0.86
81 25 0.12
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (79 bp):
CAAGGGTATTTGGTAATTTCACAATCAAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTCA
GTAATTTTACAAAT
Found at i:48380782 original size:28 final size:28
Alignment explanation
Indices: 48380740--48380831 Score: 132
Period size: 28 Copynumber: 3.3 Consensus size: 28
48380730 TGGCCCCTTT
*
48380740 AGGCCCAAT-ATCATTCACATGGCCCATC
1 AGGCCCAATCA-CATTCATATGGCCCATC
*
48380768 AGGCCTAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
48380796 AAGCCCAATCACATTCATATGGCGCATC
1 AGGCCCAATCACATTCATATGGCCCATC
48380824 AGGCCCAA
1 AGGCCCAA
48380832 CTGCTTCCCA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 56 0.98
29 1 0.02
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.21
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:48386772 original size:86 final size:85
Alignment explanation
Indices: 48386640--48386888 Score: 331
Period size: 86 Copynumber: 2.9 Consensus size: 85
48386630 AGCTTGCACA
* * * * * * *
48386640 ATGCCATATCCCAGATATGGTC-TACATGTTATCAC-ATATCAATGCCACTGCCCCAGATAGGGT
1 ATGCCATGTCCCAGACATGGTCTTACACGTAATCACAATA-CAATGCCAATGCCCCAGACAAGGT
**
48386703 CTTACATGAAATTGATTAACG
65 CTTACATGAAATCAATTAACG
* *
48386724 ATGCCATTGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATGCCCCAAACAAAGT
1 ATGCCA-TGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATGCCCCAGACAAGGT
48386789 CTTACATGAAATCAATTAACG
65 CTTACATGAAATCAATTAACG
* *
48386810 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATGCCCTAGACATGGT
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATGCCCCAGACAAGGT
*
48386875 CTTACATGTAATCA
65 CTTACATGAAATCA
48386889 CATCTCGGTA
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
84 6 0.04
85 14 0.10
86 121 0.83
87 4 0.03
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (85 bp):
ATGCCATGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATGCCCCAGACAAGGTC
TTACATGAAATCAATTAACG
Found at i:48386886 original size:43 final size:42
Alignment explanation
Indices: 48386637--48386890 Score: 221
Period size: 43 Copynumber: 6.0 Consensus size: 42
48386627 ATAAGCTTGC
* *
48386637 ACAATGCCATAT-CCCAGATATGGTC-TACATGTTATCAC-AT
1 ACAATGCCA-ATGCCCAGACATGGTCTTACATGTAATCACAAT
* * * * ** *
48386677 ATCAATGCCACTGCCCCAGATAGGGTCTTACATGAAAT-TGATT
1 A-CAATGCCAATG-CCCAGACATGGTCTTACATGTAATCACAAT
* * *
48386720 AACGATGCCATTGTCCCAGACATGGTCTTACACGTAATCACAAT
1 -ACAATGCCAATG-CCCAGACATGGTCTTACATGTAATCACAAT
* ** * *
48386764 ACAATGCCAATGCCCCAAACAAAGTCTTACATGAAATCA-ATT
1 ACAATGCCAATG-CCCAGACATGGTCTTACATGTAATCACAAT
* *
48386806 AACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT
1 -ACAATGCCAATG-CCCAGACATGGTCTTACATGTAATCACAAT
48386850 ACAATGCCAATGCCCTAGACATGGTCTTACATGTAATCACA
1 ACAATGCCAATGCCC-AGACATGGTCTTACATGTAATCACA
48386891 TCTCGGTAAC
Statistics
Matches: 168, Mismatches: 36, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
40 2 0.01
41 8 0.05
42 17 0.10
43 136 0.81
44 5 0.03
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
ACAATGCCAATGCCCAGACATGGTCTTACATGTAATCACAAT
Found at i:48390821 original size:24 final size:24
Alignment explanation
Indices: 48390763--48390824 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
48390753 ACAACTCAAA
* *
48390763 CGAGTATCCTATTAAAAGACTTCT
1 CGAGCATCCTGTTAAAAGACTTCT
* *
48390787 CAAGCATCCTGTTAAAAGCCTTCT
1 CGAGCATCCTGTTAAAAGACTTCT
48390811 CGAGCATCCTGTTA
1 CGAGCATCCTGTTA
48390825 TATAGTTCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (24 bp):
CGAGCATCCTGTTAAAAGACTTCT
Found at i:48391073 original size:24 final size:24
Alignment explanation
Indices: 48391041--48391115 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
48391031 TCTGGTGCTC
48391041 CCTGATAATAACTCTTATGAGTTT
1 CCTGATAATAACTCTTATGAGTTT
* * *
48391065 CCTGATAATAACTC-AATGAGCTC
1 CCTGATAATAACTCTTATGAGTTT
* *
48391088 CCCGATTAA-AACTCTTATGAGTAT
1 CCTGA-TAATAACTCTTATGAGTTT
48391112 CCTG
1 CCTG
48391116 TTTAGTCCGG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 15 0.38
24 25 0.62
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (24 bp):
CCTGATAATAACTCTTATGAGTTT
Found at i:48392489 original size:20 final size:19
Alignment explanation
Indices: 48392453--48392503 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
48392443 AAGGGCTATT
*
48392453 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
48392472 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
48392492 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
48392504 GTTGTTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:48393245 original size:46 final size:45
Alignment explanation
Indices: 48393153--48393274 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 45
48393143 TGATATGTGT
* * *
48393153 GCTAGTGTAAGACATGTTTGGAACATGCATCGACCACATTATGAGA
1 GCTAGTGTAAGACATGTATGGGACATGCATCGA-CACATTACGAGA
* *
48393199 GCTAGTGTAAGATATGTCTGGGACATGCATC-A-ACATTGAGACGAGA
1 GCTAGTGTAAGACATGTATGGGACATGCATCGACACATT---ACGAGA
48393245 G-TCAGTGTAAGACATGTATGGGACATGCAT
1 GCT-AGTGTAAGACATGTATGGGACATGCAT
48393275 AGGCCTCAAG
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 5 0.08
45 2 0.03
46 59 0.89
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTATGGGACATGCATCGACACATTACGAGA
Found at i:48393407 original size:49 final size:48
Alignment explanation
Indices: 48393156--48393515 Score: 196
Period size: 49 Copynumber: 7.6 Consensus size: 48
48393146 TATGTGTGCT
* * * * * *
48393156 AGTGTAAGACATGTTTGGAACAT-GCATCGACCACAT-TATGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCAGATAGATGAGAGCC
** * * * *
48393202 AGTGTAAGATATGTCTGGGACAT-GCATC-AACA-TTGAGACGAGAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCAGAT-AGATGAGAGCC
* * * *
48393248 AGTGTAAGACATGTATGGGACAT-GCATAGGCCTCAAGAT--ATGCA-AGCC
1 AGTGTAAGACCTGTCTGGGACATGGCAT-CGAC-C-AGATAGATG-AGAGCC
* * ** * * *
48393296 AGTGTAAGACCTATCTGGGACATGGCATCGGCTTG--ACAT--GTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCAGATAGATGAGAGCC
* *
48393340 AATGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CAGATAGATGAGAGCC
* * * *
48393389 AGTGTAAGACCTGTCTGGGACATGGAATC-AGCCTTA-ATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CC--AGATAGATGAGAGCC
* * *
48393438 AGTGTAAGACCTGTCTAGGACATGGCATCGACTTAGAT-G-TGTGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CAGATAGATGAGAGCC
* *
48393485 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCG
48393516 GCATTGTACC
Statistics
Matches: 240, Mismatches: 50, Indels: 46
0.71 0.15 0.14
Matches are distributed among these distances:
44 32 0.13
45 4 0.02
46 59 0.25
47 19 0.08
48 46 0.19
49 77 0.32
50 2 0.01
51 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCAGATAGATGAGAGCC
Found at i:48393468 original size:98 final size:91
Alignment explanation
Indices: 48393292--48393515 Score: 241
Period size: 98 Copynumber: 2.4 Consensus size: 91
48393282 AAGATATGCA
* * * * *
48393292 AGCCAGTGTAAGACCTATCTGGGACATGGCATCGGCTTGACATGTGTCAATGTAAGACCTGTCTG
1 AGCCAGTGTAAGACCTGTCTGGGACATGGAATCGCCTTGACATGAGTCAATGTAAGACCTGTCTA
*
48393357 GGACATGGCATCGACACCGATAGATGAG
66 GGACATGGCATCGACACAGAT-G-TGAG
* * *
48393385 AGCCAGTGTAAGACCTGTCTGGGACATGGAATCAGCCTTAATATATGAAAGTCAGTGTAAGACCT
1 AGCCAGTGTAAGACCTGTCTGGGACATGGAATC-GCCTT--GACATG--AGTCAATGTAAGACCT
** *
48393450 GTCTAGGACATGGCATCGACTTAGATGTGTG
61 GTCTAGGACATGGCATCGACACAGATGTGAG
* * *
48393481 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGCCAGTGTAAGACC-TGTCTGGGACATGGAATCG
48393516 GCATTGTACC
Statistics
Matches: 110, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
93 31 0.28
94 4 0.04
96 23 0.21
97 16 0.15
98 36 0.33
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (91 bp):
AGCCAGTGTAAGACCTGTCTGGGACATGGAATCGCCTTGACATGAGTCAATGTAAGACCTGTCTA
GGACATGGCATCGACACAGATGTGAG
Found at i:48398451 original size:27 final size:28
Alignment explanation
Indices: 48398420--48398493 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
48398410 AGTAACGCAA
*
48398420 CAAAGCTACTAATAACAGTAA-ACGTGG
1 CAAAGCCACTAATAACAGTAATACGTGG
* * *
48398447 CAAAGCCACT-AGAGCAATAATTACGTGG
1 CAAAGCCACTAATAACAGTAA-TACGTGG
48398475 CAAAGCCACTAAT-ACAGTA
1 CAAAGCCACTAATAACAGTA
48398494 CTTCATCCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
26 7 0.19
27 9 0.24
28 20 0.54
29 1 0.03
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.18
Consensus pattern (28 bp):
CAAAGCCACTAATAACAGTAATACGTGG
Found at i:48411374 original size:40 final size:40
Alignment explanation
Indices: 48411319--48411528 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
48411309 AACATTGGAA
48411319 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48411359 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48411399 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
48411439 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
48411478 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
48411519 CTATATCCGG
1 ATATATCCGG
48411529 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:48419509 original size:40 final size:40
Alignment explanation
Indices: 48419454--48419663 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
48419444 AACATTGGAA
48419454 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48419494 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48419534 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
48419574 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
48419613 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
48419654 CTATATCCGG
1 ATATATCCGG
48419664 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:48425122 original size:20 final size:20
Alignment explanation
Indices: 48425097--48425134 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48425087 GTTTATTCGC
*
48425097 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
48425117 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
48425135 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:48441234 original size:6 final size:6
Alignment explanation
Indices: 48441225--48441286 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
48441215 CTCAATCTCA
* * * * * * *
48441225 TTTTCT TTTTCT TTCTCT ATTTCT TTTTCA CTTTCT TTTTCA CTTTCG
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
48441273 TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TT
48441287 CTTTTCTCTT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTCT
Found at i:48441241 original size:24 final size:24
Alignment explanation
Indices: 48441214--48441288 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
48441204 TTAGGCTCAA
*
48441214 TCTCAATCTCATTTTCTTTTTCTT
1 TCTCAATTTCATTTTCTTTTTCTT
* * **
48441238 TCTCTATTTCTTTTTCACTTTCTT
1 TCTCAATTTCATTTTCTTTTTCTT
* * *
48441262 TTTCACTTTCGTTTTCTTTTTCTT
1 TCTCAATTTCATTTTCTTTTTCTT
48441286 TCT
1 TCT
48441289 TTTCTCTTCT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.08, C:0.24, G:0.01, T:0.67
Consensus pattern (24 bp):
TCTCAATTTCATTTTCTTTTTCTT
Found at i:48441283 original size:12 final size:11
Alignment explanation
Indices: 48441225--48441302 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
48441215 CTCAATCTCA
48441225 TTTTCTTTTTC
1 TTTTCTTTTTC
*
48441236 TTTCTCTATTTC
1 TTT-TCTTTTTC
**
48441248 TTTTTCACTTTC
1 -TTTTCTTTTTC
**
48441260 TTTTTCACTTTC
1 -TTTTCTTTTTC
48441272 GTTTTCTTTTTC
1 -TTTTCTTTTTC
48441284 -TTTC-TTTTC
1 TTTTCTTTTTC
*
48441293 TCTTCTTTTT
1 TTTTCTTTTT
48441303 ATTTCTTTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
9 5 0.09
10 7 0.12
11 7 0.12
12 34 0.61
13 3 0.05
ACGTcount: A:0.04, C:0.22, G:0.01, T:0.73
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:48443856 original size:46 final size:46
Alignment explanation
Indices: 48443806--48443979 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
48443796 TGGTTGAGCA
*
48443806 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
48443852 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
48443899 TCC-AACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
48443943 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48443980 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 28 0.26
46 61 0.58
47 3 0.03
48 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:48443967 original size:91 final size:93
Alignment explanation
Indices: 48443803--48443972 Score: 290
Period size: 91 Copynumber: 1.8 Consensus size: 93
48443793 GGATGGTTGA
* *
48443803 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
48443868 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
48443896 GCATCC-AACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
48443959 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
48443973 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 40 0.55
92 27 0.37
93 6 0.08
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48446945 original size:14 final size:15
Alignment explanation
Indices: 48446896--48446945 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
48446886 GTATCTTGGG
*
48446896 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
48446911 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
48446926 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
48446940 TTTCTT
1 TTTCTT
48446946 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:48449376 original size:46 final size:46
Alignment explanation
Indices: 48449326--48449500 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
48449316 TGGTTGAGCA
*
48449326 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
48449372 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
48449419 TCCGAACTCGTTGAGTTGAG-CCGAGTTCACTCATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
48449464 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48449501 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 23 0.21
46 51 0.47
47 23 0.21
49 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:48449481 original size:92 final size:93
Alignment explanation
Indices: 48449323--48449493 Score: 281
Period size: 92 Copynumber: 1.8 Consensus size: 93
48449313 GGATGGTTGA
* ***
48449323 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAGT
48449388 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
48449416 GCATCCGAACTCGTTGAGTTGAG-CCGAGTTCACTCATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAGT
48449480 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
48449494 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 49 0.68
93 23 0.32
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48453152 original size:29 final size:30
Alignment explanation
Indices: 48453098--48453156 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
48453088 ATCATGCTAG
* *
48453098 ACAACTCCTTTAATGTCGTTCTATGCACCA
1 ACAACTCCTTTAATGTCATTCCATGCACCA
48453128 ACAACT-CTTTAATG-CTATTCCATGCACCA
1 ACAACTCCTTTAATGTC-ATTCCATGCACCA
48453157 GCAGCTCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.04
29 19 0.73
30 6 0.23
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (30 bp):
ACAACTCCTTTAATGTCATTCCATGCACCA
Found at i:48459806 original size:40 final size:40
Alignment explanation
Indices: 48459679--48459808 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
48459669 ATGCTGGAAA
* *
48459679 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
48459719 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
48459759 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
48459799 TTATATCCGG
1 TTATATCCGG
48459809 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:48467008 original size:40 final size:40
Alignment explanation
Indices: 48466881--48467010 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
48466871 ATGCTGGAAA
* *
48466881 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
48466921 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
* *
48466961 TTCTATCCGGGCTAAAACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
48467001 TTATATCCGG
1 TTATATCCGG
48467011 TTGTATTCTG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:48470628 original size:79 final size:81
Alignment explanation
Indices: 48470527--48470711 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
48470517 ACGACTCGCT
** * *
48470527 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
48470590 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
48470607 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
48470671 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
48470687 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48470712 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:48470711 original size:40 final size:39
Alignment explanation
Indices: 48470520--48470711 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
48470510 GGATATAACG
* ** * *
48470520 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
48470560 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
48470600 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
48470639 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
48470679 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
48470712 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:48472024 original size:16 final size:17
Alignment explanation
Indices: 48471999--48472041 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
48471989 ATGCATGAGA
48471999 CCATTTTTTTTCTTTTT
1 CCATTTTTTTTCTTTTT
48472016 CCATTTTTTTTCTTTTT
1 CCATTTTTTTTCTTTTT
48472033 CCATTTTTT
1 CCATTTTTT
48472042 ATTACCCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (17 bp):
CCATTTTTTTTCTTTTT
Found at i:48472691 original size:30 final size:30
Alignment explanation
Indices: 48472657--48472726 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
48472647 TGTGTGTCTC
* * *
48472657 AGCCATGTGTGACACACGGTCTCGTTACAT
1 AGCCATGTGTAACACACAGTCACGTTACAT
* *
48472687 AGCCATGTGCAACACACAGTCACGTTATAT
1 AGCCATGTGTAACACACAGTCACGTTACAT
*
48472717 AGCCGTGTGT
1 AGCCATGTGT
48472727 CCCCTGGGGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (30 bp):
AGCCATGTGTAACACACAGTCACGTTACAT
Found at i:48475979 original size:29 final size:29
Alignment explanation
Indices: 48475947--48476029 Score: 112
Period size: 29 Copynumber: 2.9 Consensus size: 29
48475937 AATTTCACAT
*
48475947 ACCTGTATCTGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
*
48475976 ACCTGTATATGTCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
* * **
48476005 ACATTTATATGGCCTGTTAGGCCCA
1 ACCTGTATATGGCCCATTAGGCCCA
48476030 GTCACATTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (29 bp):
ACCTGTATATGGCCCATTAGGCCCAAATC
Found at i:48477377 original size:16 final size:16
Alignment explanation
Indices: 48477358--48477389 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48477348 GGAATTCTGA
48477358 ATTTCAGGATTTTTGG
1 ATTTCAGGATTTTTGG
48477374 ATTTCAGGATTTTTGG
1 ATTTCAGGATTTTTGG
48477390 GGCATTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (16 bp):
ATTTCAGGATTTTTGG
Found at i:48477680 original size:48 final size:48
Alignment explanation
Indices: 48477619--48477844 Score: 141
Period size: 48 Copynumber: 4.8 Consensus size: 48
48477609 TACGCTATTG
48477619 TAAGGACTA-CTGTTTGATGTATTAATGCAGCAGAAAAATATGTTGTTT
1 TAAGGAC-AGCTGTTTGATGTATTAATGCAGCAGAAAAATATGTTGTTT
* * * *
48477667 TAAGGACAGCTGTTTGGTGTATTAATGTAGTAGAAAAAT-TATTG-TT
1 TAAGGACAGCTGTTTGATGTATTAATGCAGCAGAAAAATATGTTGTTT
** * * * * **
48477713 T-AGG-C-GTCAATTAATGTTGT-CTAAGTG-A-C-TATATTTATGTTGTTT
1 TAAGGACAG-CTGTT--TGATGTATTAA-TGCAGCAGAAAAATATGTTGTTT
* * * *
48477758 TAAGGACTGTTGTTT-AGTGTATTAATACAGTAGAAAAATATGTTGTTT
1 TAAGGACAGCTGTTTGA-TGTATTAATGCAGCAGAAAAATATGTTGTTT
* * * *
48477806 TAAGGACTGTTGTTTGGTGTATTAATGCAGCAAAAAAAT
1 TAAGGACAGCTGTTTGATGTATTAATGCAGCAGAAAAAT
48477845 TCTAGTTTAG
Statistics
Matches: 133, Mismatches: 29, Indels: 32
0.69 0.15 0.16
Matches are distributed among these distances:
43 4 0.03
44 8 0.06
45 15 0.11
46 17 0.13
47 8 0.06
48 81 0.61
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (48 bp):
TAAGGACAGCTGTTTGATGTATTAATGCAGCAGAAAAATATGTTGTTT
Found at i:48477793 original size:139 final size:139
Alignment explanation
Indices: 48477619--48478450 Score: 1153
Period size: 139 Copynumber: 6.0 Consensus size: 139
48477609 TACGCTATTG
* * *
48477619 TAAGGACTACTGTTTGATGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACAGCTGTTTGG
1 TAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGCTGTTTGG
* * *
48477684 TGTATTAATGTAGTAGAAAAATTATTGTTTAGGCGTCAATTAATGTTGTCTAAGTGACTATATTT
66 TGTATTAATGCAGCAGAAAAATTATTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATATTT
48477749 ATGTTGTTT
131 ATGTTGTTT
* * * * *
48477758 TAAGGACTGTTGTTTAGTGTATTAATACAGTAGAAAAATATGTTGTTTTAAGGACTGTTGTTTGG
1 TAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGCTGTTTGG
* * * * *
48477823 TGTATTAATGCAGCAAAAAAATTCTAGTTTAGTCGTCAATTAATGTTGTCTAAGTGACTGTATTT
66 TGTATTAATGCAGCAGAAAAATTATTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATATTT
48477888 ATGTTGTTT
131 ATGTTGTTT
* * * * * *
48477897 TAAGGACTGTTGTTTGGTGTATTACTACAGTAGAAAAATATGTTGTTTTAAGGACTACTGTTTGA
1 TAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGCTGTTTGG
* * * *
48477962 TGTATTAATGCAGCAGAAAAATTGTTGTTTAGATGTCAAATAATGTTGTCTAAGTGACTGTATTT
66 TGTATTAATGCAGCAGAAAAATTATTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATATTT
48478027 AT-TCTGTTT
131 ATGT-TGTTT
* * *
48478036 TAAGGACTACTATTTGGTGTACTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGCTGTTTGG
1 TAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGCTGTTTGG
* * * ** *
48478101 TGTATTAATGCAGTAGAAAAATTATTGTTTAGGCATCAATTAACATTGTCTAAGTGACTGTATTT
66 TGTATTAATGCAGCAGAAAAATTATTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATATTT
* *
48478166 ATGCTATTT
131 ATGTTGTTT
* * *
48478175 TAAGGACTGTTGTTTGGTGTATTAATGTAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTTTGG
1 TAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGCTGTTTGG
* * * *
48478240 TGTATTAATGCAACAGAAAAATTGTTGTTTTGACGTCAATTAATGTTGTGTAAGTGACTATATTT
66 TGTATTAATGCAGCAGAAAAATTATTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATATTT
* *
48478305 ATGCTGTCT
131 ATGTTGTTT
* * * * *
48478314 TAAGGACTATTGTTTAGTGTATTAATGCAGCAGAAAAATATGCTGTTTTAGGGATTGTTGTTTGG
1 TAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGCTGTTTGG
* *
48478379 TGTATTAATGCAGCAGAAAAATTATTGTTTAGACATCAATTAATGTTGTCTAATTGACTATAAAT
66 TGTATTAATGCAGCAGAAAAATTATTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTAT--AT
48478444 TTATGTT
129 TTATGTT
48478451 AATAACGGTT
Statistics
Matches: 613, Mismatches: 76, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
138 1 0.00
139 604 0.99
141 8 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (139 bp):
TAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGCTGTTTGG
TGTATTAATGCAGCAGAAAAATTATTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATATTT
ATGTTGTTT
Found at i:48478375 original size:48 final size:48
Alignment explanation
Indices: 48477748--48478400 Score: 262
Period size: 48 Copynumber: 14.0 Consensus size: 48
48477738 TGACTATATT
* * * *
48477748 TATGTTGTTTTAAGGACTGTTGTTTAGTGTATTAATACAGTAGAAAAA
1 TATGCTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAA
*
48477796 TATGTTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCA-AAAAA
1 TATGCTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAA
* * ** * * * * **
48477843 -ATTCTAG-TTT-A-GTC-GTCAATTAATGTTGT-CTAAGTG-A-CTG-TATT
1 TATGCT-GTTTTAAGGACTGT-TGTT--TGGTGTATTAA-TGCAGCAGAAAAA
* * * *
48477887 TATGTTGTTTTAAGGACTGTTGTTTGGTGTATTACTACAGTAGAAAAA
1 TATGCTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAA
* ** *
48477935 TATGTTGTTTTAAGGACTACTGTTTGATGTATTAATGCAGCAGAAAAA
1 TATGCTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAA
* ** * * * * * **
48477983 T-TGTTG-TTT-A-GA-TGTCAAATAATGTTGT-CTAAGTG-A-CTG-TATT
1 TATGCTGTTTTAAGGACTGT--TGT-TTGGTGTATTAA-TGCAGCAGAAAAA
* ** * *
48478026 TATTCTGTTTTAAGGACTACTATTTGGTGTACTAATGCAGCAGAAAAA
1 TATGCTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAA
* * *
48478074 TATGTTGTTTTAAGGACTGCTGTTTGGTGTATTAATGCAGTAGAAAAA
1 TATGCTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAA
** ** * * * * **
48478122 TTAT--TG-TTT-AGGCATCAATTAACATT-GTCTA--AGTG-A-CTG-TATT
1 -TATGCTGTTTTAAGG-A-CTGTT--GTTTGGTGTATTAATGCAGCAGAAAAA
* *
48478165 TATGCTATTTTAAGGACTGTTGTTTGGTGTATTAATGTAGCAGAAAAA
1 TATGCTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAA
* *
48478213 TATGTTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAACAGAAAAA
1 TATGCTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAA
* * * * ** * * * * **
48478261 T-TGTTGTTTTGACGTCAATTAATGTT-GTGTA--AGTG-A-C-TATATT
1 TATGCTGTTTTAAGGACTGTT-GT-TTGGTGTATTAATGCAGCAGAAAAA
* * *
48478304 TATGCTGTCTTAAGGACTATTGTTTAGTGTATTAATGCAGCAGAAAAA
1 TATGCTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAA
* *
48478352 TATGCTGTTTTAGGGATTGTTGTTTGGTGTATTAATGCAGCAGAAAAA
1 TATGCTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAA
48478400 T
1 T
48478401 TATTGTTTAG
Statistics
Matches: 436, Mismatches: 117, Indels: 104
0.66 0.18 0.16
Matches are distributed among these distances:
42 7 0.02
43 19 0.04
44 33 0.08
45 48 0.11
46 50 0.11
47 41 0.09
48 231 0.53
49 7 0.02
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (48 bp):
TATGCTGTTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAGAAAAA
Found at i:48478385 original size:417 final size:417
Alignment explanation
Indices: 48477619--48478437 Score: 1269
Period size: 417 Copynumber: 2.0 Consensus size: 417
48477609 TACGCTATTG
* *
48477619 TAAGGACTACTGTTTGATGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACAGCTGTTTGG
1 TAAGGACTACTATTTGATGTACTAATGCAGCAGAAAAATATGTTGTTTTAAGGACAGCTGTTTGG
* * **
48477684 TGTATTAATGTAGTAGAAAAATTATTGTTTAGGCGTCAATTAATGTTGTCTAAGTGACTATATTT
66 TGTATTAATGCAGTAGAAAAATTATTGTTTAGGCATCAATTAACATTGTCTAAGTGACTATATTT
* * *
48477749 ATGTTGTTTTAAGGACTGTTGTTTAGTGTATTAATACAGTAGAAAAATATGTTGTTTTAAGGACT
131 ATGCTATTTTAAGGACTGTTGTTTAGTGTATTAATACAGCAGAAAAATATGTTGTTTTAAGGACT
* *
48477814 GTTGTTTGGTGTATTAATGCAGCAAAAAAATTCTAGTTTAGTCGTCAATTAATGTTGTCTAAGTG
196 GTTGTTTGGTGTATTAATGCAACAAAAAAATTCTAGTTTAGACGTCAATTAATGTTGTCTAAGTG
* * * * * * * *
48477879 ACTGTATTTATGTTGTTTTAAGGACTGTTGTTTGGTGTATTACTACAGTAGAAAAATATGTTGTT
261 ACTATATTTATGCTGTCTTAAGGACTATTGTTTAGTGTATTAATACAGCAGAAAAATATGCTGTT
* **
48477944 TTAAGGACTACTGTTTGATGTATTAATGCAGCAGAAAAATTGTTGTTTAGATGTCAAATAATGTT
326 TTAAGGACTACTGTTTGATGTATTAATGCAGCAGAAAAATTATTGTTTAGACATCAAATAATGTT
48478009 GTCTAAGTGACTGTATTTATTCTGTTT
391 GTCTAAGTGACTGTATTTATTCTGTTT
* *
48478036 TAAGGACTACTATTTGGTGTACTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGCTGTTTGG
1 TAAGGACTACTATTTGATGTACTAATGCAGCAGAAAAATATGTTGTTTTAAGGACAGCTGTTTGG
*
48478101 TGTATTAATGCAGTAGAAAAATTATTGTTTAGGCATCAATTAACATTGTCTAAGTGACTGTATTT
66 TGTATTAATGCAGTAGAAAAATTATTGTTTAGGCATCAATTAACATTGTCTAAGTGACTATATTT
* **
48478166 ATGCTATTTTAAGGACTGTTGTTTGGTGTATTAATGTAGCAGAAAAATATGTTGTTTTAAGGACT
131 ATGCTATTTTAAGGACTGTTGTTTAGTGTATTAATACAGCAGAAAAATATGTTGTTTTAAGGACT
* * * * *
48478231 GTTGTTTGGTGTATTAATGCAACAGAAAAATTGTTGTTTTGACGTCAATTAATGTTGTGTAAGTG
196 GTTGTTTGGTGTATTAATGCAACAAAAAAATTCTAGTTTAGACGTCAATTAATGTTGTCTAAGTG
*
48478296 ACTATATTTATGCTGTCTTAAGGACTATTGTTTAGTGTATTAATGCAGCAGAAAAATATGCTGTT
261 ACTATATTTATGCTGTCTTAAGGACTATTGTTTAGTGTATTAATACAGCAGAAAAATATGCTGTT
* * ** * *
48478361 TTAGGGATTGTTGTTTGGTGTATTAATGCAGCAGAAAAATTATTGTTTAGACATCAATTAATGTT
326 TTAAGGACTACTGTTTGATGTATTAATGCAGCAGAAAAATTATTGTTTAGACATCAAATAATGTT
*
48478426 GTCTAATTGACT
391 GTCTAAGTGACT
48478438 ATAAATTTAT
Statistics
Matches: 361, Mismatches: 41, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
417 361 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (417 bp):
TAAGGACTACTATTTGATGTACTAATGCAGCAGAAAAATATGTTGTTTTAAGGACAGCTGTTTGG
TGTATTAATGCAGTAGAAAAATTATTGTTTAGGCATCAATTAACATTGTCTAAGTGACTATATTT
ATGCTATTTTAAGGACTGTTGTTTAGTGTATTAATACAGCAGAAAAATATGTTGTTTTAAGGACT
GTTGTTTGGTGTATTAATGCAACAAAAAAATTCTAGTTTAGACGTCAATTAATGTTGTCTAAGTG
ACTATATTTATGCTGTCTTAAGGACTATTGTTTAGTGTATTAATACAGCAGAAAAATATGCTGTT
TTAAGGACTACTGTTTGATGTATTAATGCAGCAGAAAAATTATTGTTTAGACATCAAATAATGTT
GTCTAAGTGACTGTATTTATTCTGTTT
Found at i:48479398 original size:33 final size:34
Alignment explanation
Indices: 48479284--48479517 Score: 172
Period size: 33 Copynumber: 6.9 Consensus size: 34
48479274 GCATTTGCAC
** * * *
48479284 GTAAGACCATAGCAAGGCTATGGCAATTATTCAAAC
1 GTAAGACCATAGCTGGGCTATGGC-ACTATT-TAAT
* * * * * *
48479320 ATAAGACCATGGTTGGACTATGGCAGTGTTTATAT
1 GTAAGACCATAGCTGGGCTATGGCACTATTTA-AT
*
48479355 GTAAGACCATAGCTGGGCTATGGCA-T-TCTAAT
1 GTAAGACCATAGCTGGGCTATGGCACTATTTAAT
* * *
48479387 GATAAGACCATAACTGGGTTATGGCACTATGT-AT
1 G-TAAGACCATAGCTGGGCTATGGCACTATTTAAT
* * * *
48479421 GTAAGACCATGGTTGGACCATGGCACTATTTATAT
1 GTAAGACCATAGCTGGGCTATGGCACTATTTA-AT
* *
48479456 GTAAGACCATAGTTGGGCTATGGCA-T-TTTGAT
1 GTAAGACCATAGCTGGGCTATGGCACTATTTAAT
* *
48479488 GATAAGACCATAACTGGGTTATGGCACTAT
1 G-TAAGACCATAGCTGGGCTATGGCACTAT
48479518 GGACGTAAGA
Statistics
Matches: 157, Mismatches: 32, Indels: 19
0.75 0.15 0.09
Matches are distributed among these distances:
32 6 0.04
33 72 0.46
34 8 0.05
35 53 0.34
36 18 0.11
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (34 bp):
GTAAGACCATAGCTGGGCTATGGCACTATTTAAT
Found at i:48479463 original size:101 final size:101
Alignment explanation
Indices: 48479321--48479533 Score: 354
Period size: 101 Copynumber: 2.1 Consensus size: 101
48479311 TATTCAAACA
* * *
48479321 TAAGACCATGGTTGGACTATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
1 TAAGACCATGGTTGGACCATGGCACTATTTATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
* *
48479386 TGATAAGACCATAACTGGGTTATGGCACTATGTATG
66 TGATAAGACCATAACTGGGTTATGGCACTATGGACG
* * *
48479422 TAAGACCATGGTTGGACCATGGCACTATTTATATGTAAGACCATAGTTGGGCTATGGCATTTTGA
1 TAAGACCATGGTTGGACCATGGCACTATTTATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
48479487 TGATAAGACCATAACTGGGTTATGGCACTATGGACG
66 TGATAAGACCATAACTGGGTTATGGCACTATGGACG
48479523 TAAGACCATGG
1 TAAGACCATGG
48479534 CAGTGTTTAT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 104 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCACTATTTATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
TGATAAGACCATAACTGGGTTATGGCACTATGGACG
Found at i:48479512 original size:68 final size:67
Alignment explanation
Indices: 48479284--48479517 Score: 188
Period size: 68 Copynumber: 3.4 Consensus size: 67
48479274 GCATTTGCAC
** * ** * *
48479284 GTAAGACCATAGCAAGGCTATGGCAATTAT-TCAAACATAAGACCATGGTTGGACTATGGCAGTG
1 GTAAGACCATAGCTGGGCTATGGC-ACTATCT-AATGATAAGACCATAGTTGGGCTATGGCA-T-
*
48479348 TTTATAT
62 TTT-GAT
** * * *
48479355 GTAAGACCATAGCTGGGCTATGGCA-T-TCTAATGATAAGACCATAACTGGGTTATGGCACTATG
1 GTAAGACCATAGCTGGGCTATGGCACTATCTAATGATAAGACCATAGTTGGGCTATGGCATTTTG
48479418 TAT
66 -AT
* * * * *
48479421 GTAAGACCATGGTTGGACCATGGCACTATTTATATG-TAAGACCATAGTTGGGCTATGGCATTTT
1 GTAAGACCATAGCTGGGCTATGGCACTATCTA-ATGATAAGACCATAGTTGGGCTATGGCATTTT
48479485 GAT
65 GAT
* *
48479488 GATAAGACCATAACTGGGTTATGGCACTAT
1 G-TAAGACCATAGCTGGGCTATGGCACTAT
48479518 GGACGTAAGA
Statistics
Matches: 129, Mismatches: 28, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
66 25 0.19
67 4 0.03
68 72 0.56
69 5 0.04
70 1 0.01
71 22 0.17
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (67 bp):
GTAAGACCATAGCTGGGCTATGGCACTATCTAATGATAAGACCATAGTTGGGCTATGGCATTTTG
AT
Found at i:48479592 original size:86 final size:88
Alignment explanation
Indices: 48479436--48479622 Score: 270
Period size: 86 Copynumber: 2.1 Consensus size: 88
48479426 ACCATGGTTG
* *
48479436 GACCATGGCACTATTTATATGTAAGACCATAGTTGGGCTATGGCATTTTGATGATAAGACCATAA
1 GACCATGGCAGTATTTATATGTAAGACCA-AG-TGGGCTATGGCAATTTGATGATAAGACCATAA
* *
48479501 CTGGGTTATGGCACTATGGACGTAA
64 CTGGGTTATGGCACTACGAACGTAA
* * *
48479526 GACCATGGCAGTGTTTATATGTAAGACC-A-TGGGCTATGGCAATTTGGTGATAAGACCATAATT
1 GACCATGGCAGTATTTATATGTAAGACCAAGTGGGCTATGGCAATTTGATGATAAGACCATAACT
*
48479589 GGGTTATGGCACTACGAATGTAA
66 GGGTTATGGCACTACGAACGTAA
48479612 GACCATGGCAG
1 GACCATGGCAG
48479623 GGTCATGGCA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
86 62 0.70
88 1 0.01
90 26 0.29
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (88 bp):
GACCATGGCAGTATTTATATGTAAGACCAAGTGGGCTATGGCAATTTGATGATAAGACCATAACT
GGGTTATGGCACTACGAACGTAA
Found at i:48482253 original size:65 final size:66
Alignment explanation
Indices: 48482172--48482303 Score: 257
Period size: 65 Copynumber: 2.0 Consensus size: 66
48482162 TTTTAGCATT
48482172 TGTTAATTGGAAACCACAGAACAATGTGACTGAATTCAAAAG-TTTCTGGAACTAGCAGGGTATT
1 TGTTAATTGGAAACCACAGAACAATGTGACTGAATTCAAAAGTTTTCTGGAACTAGCAGGGTATT
48482236 A
66 A
48482237 TGTTAATTGGAAACCACAGAACAATGTGACTGAATTCAAAAGTTTTCTGGAACTAGCAGGGTATT
1 TGTTAATTGGAAACCACAGAACAATGTGACTGAATTCAAAAGTTTTCTGGAACTAGCAGGGTATT
48482302 A
66 A
48482303 T
1 T
48482304 CGGAGGTTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
65 42 0.64
66 24 0.36
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (66 bp):
TGTTAATTGGAAACCACAGAACAATGTGACTGAATTCAAAAGTTTTCTGGAACTAGCAGGGTATT
A
Found at i:48484688 original size:93 final size:93
Alignment explanation
Indices: 48484560--48484731 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
48484550 GCCCATAAGT
** ***
48484560 GAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
48484625 GGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
48484653 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGCCTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
48484718 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
48484732 CAAATATCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:48487161 original size:30 final size:30
Alignment explanation
Indices: 48487117--48487205 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
48487107 CAAAGATAAC
48487117 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
48487146 GAGAAACCCAGAATAAAGAAATCCAAAATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * * *
48487176 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
48487206 CAATACTATG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 7 0.14
30 43 0.86
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:48487165 original size:15 final size:15
Alignment explanation
Indices: 48487117--48487196 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
48487107 CAAAGATAAC
*
48487117 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
48487131 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
48487146 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
48487161 AAGAAATCCAAAATA
1 AAGAAATCCAGAATA
* *
48487176 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
48487191 AAGAAA
1 AAGAAA
48487197 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:48487205 original size:15 final size:15
Alignment explanation
Indices: 48487128--48487205 Score: 86
Period size: 15 Copynumber: 5.2 Consensus size: 15
48487118 AGAAAACCGA
48487128 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
48487143 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
*
48487157 AATAAAGAAATCCAAA
1 -ATAAAGAAATCCAAG
* *
48487173 ATAAAGAGATCCAGG
1 ATAAAGAAATCCAAG
*
48487188 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
48487203 ATA
1 ATA
48487206 CAATACTATG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:48492940 original size:116 final size:116
Alignment explanation
Indices: 48492736--48492975 Score: 471
Period size: 116 Copynumber: 2.1 Consensus size: 116
48492726 CATGGCTATG
48492736 CACACGCCCGTGTGCTAGGCCGTGTGGTTAATTAATTCAATTCAAAAATAGGTGCAGGTTTCACA
1 CACACGCCCGTGTGCTAGGCCGTGTGGTTAATTAATTCAATTCAAAAATAGGTGCAGGTTTCACA
*
48492801 TGGCCAAGACACACACTCATGTTCTAGGCCATGTAGTACACACGGCTGAGA
66 CGGCCAAGACACACACTCATGTTCTAGGCCATGTAGTACACACGGCTGAGA
48492852 CACACGCCCGTGTGCTAGGCCGTGTGGTTAATTAATTCAATTCAAAAATAGGTGCAGGTTTCACA
1 CACACGCCCGTGTGCTAGGCCGTGTGGTTAATTAATTCAATTCAAAAATAGGTGCAGGTTTCACA
48492917 CGGCCAAGACACACACTCATGTTCTAGGCCATGTAGTACACACGGCTGAGA
66 CGGCCAAGACACACACTCATGTTCTAGGCCATGTAGTACACACGGCTGAGA
48492968 CACACGCC
1 CACACGCC
48492976 TGTATCTCTG
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 123 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (116 bp):
CACACGCCCGTGTGCTAGGCCGTGTGGTTAATTAATTCAATTCAAAAATAGGTGCAGGTTTCACA
CGGCCAAGACACACACTCATGTTCTAGGCCATGTAGTACACACGGCTGAGA
Done.