Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 81 of 290
Found at i:26858243 original size:7 final size:6
Alignment explanation
Indices: 26858226--26858280 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
26858216 TTGGCCCATT
* * *
26858226 ACAGTA ACAGTAA ACAGT- ACAATA ACAGTAA ACAGT- GCAGTA GCAGTA
1 ACAGTA ACAGT-A ACAGTA ACAGTA ACAGT-A ACAGTA ACAGTA ACAGTA
26858274 ACAGTA A
1 ACAGTA A
26858281 ATAGTATGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 8 0.20
6 21 0.51
7 12 0.29
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.16
Consensus pattern (6 bp):
ACAGTA
Found at i:26858251 original size:18 final size:18
Alignment explanation
Indices: 26858225--26858283 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
26858215 CTTGGCCCAT
*
26858225 TACAGTAACAGTAAACAG
1 TACAATAACAGTAAACAG
26858243 TACAATAACAGTAAACAG
1 TACAATAACAGTAAACAG
* * *
26858261 TGCAGTAGCAGT-AACAG
1 TACAATAACAGTAAACAG
26858278 TA-AATA
1 TACAATA
26858284 GTATGCAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 3 0.09
17 6 0.17
18 26 0.74
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (18 bp):
TACAATAACAGTAAACAG
Found at i:26858834 original size:27 final size:27
Alignment explanation
Indices: 26858610--26858825 Score: 231
Period size: 27 Copynumber: 8.0 Consensus size: 27
26858600 AAACATACAT
* * **
26858610 CACATAGGGGCAAAACAGTCATCCTA-
1 CACATAAGGGCAAAATAGTCATTTTAC
*
26858636 CAAATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
26858663 CTCATAAGGGAAAAATTGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
26858690 CACATAAGGGAAAAACT-GTCATTTTAC
1 CACATAAGGGCAAAA-TAGTCATTTTAC
* * * *
26858717 CACATAATGGCAAAACAATCATTTTTC
1 CACATAAGGGCAAAATAGTCATTTTAC
** *
26858744 CACATAAGGGCAAAACCGTCATTTTAT
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
26858771 CACATAAGGACAAAATCA-TCATTTTAA
1 CACATAAGGGCAAAAT-AGTCATTTTAC
26858798 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
26858825 C
1 C
26858826 TTACAAGGGT
Statistics
Matches: 159, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.14
27 136 0.86
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:26858834 original size:81 final size:81
Alignment explanation
Indices: 26858639--26858852 Score: 243
Period size: 81 Copynumber: 2.6 Consensus size: 81
26858629 CATCCTACAA
** *
26858639 ATAAGGGCAAAATAGTCATTTTACCTCATAAGGGAAAAATTGTCATTTTACCACATAAGGGAAAA
1 ATAAGGGCAAAATAGTCATTTTACCTCATAAGGGAAAAACAGTCATTTTATCACATAAGGGAAAA
* *
26858704 ACTGTCATTTTACCAC
66 ACTATCATTTTAACAC
* * * * * * *
26858720 ATAATGGCAAAACAATCATTTTTCCACATAAGGGCAAAACCGTCATTTTATCACATAA-GGACAA
1 ATAAGGGCAAAATAGTCATTTTACCTCATAAGGGAAAAACAGTCATTTTATCACATAAGGGA-AA
26858784 AA-TCATCATTTTAACAC
65 AACT-ATCATTTTAACAC
* * * **
26858801 ATAAGGGCAAAATAGTCATTTTACCTTACAAGGGTATTACAGTCATTTTATC
1 ATAAGGGCAAAATAGTCATTTTACCTCATAAGGGAAAAACAGTCATTTTATC
26858853 CTATGAGGGT
Statistics
Matches: 109, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
80 4 0.04
81 105 0.96
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (81 bp):
ATAAGGGCAAAATAGTCATTTTACCTCATAAGGGAAAAACAGTCATTTTATCACATAAGGGAAAA
ACTATCATTTTAACAC
Found at i:26858844 original size:27 final size:27
Alignment explanation
Indices: 26858814--26858876 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
26858804 AGGGCAAAAT
26858814 AGTCATTTTA-CCTTACAAGGGTATTAC
1 AGTCATTTTATCC-TACAAGGGTATTAC
** *
26858841 AGTCATTTTATCCTATGAGGGTATTTC
1 AGTCATTTTATCCTACAAGGGTATTAC
*
26858868 GGTCATTTT
1 AGTCATTTT
26858877 CAAGTAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (27 bp):
AGTCATTTTATCCTACAAGGGTATTAC
Found at i:26864665 original size:40 final size:40
Alignment explanation
Indices: 26864611--26865315 Score: 1232
Period size: 40 Copynumber: 17.6 Consensus size: 40
26864601 CATTTGAATG
26864611 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
26864651 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
26864691 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
**
26864731 ATATCCGGGCTAAGACCTAAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
26864771 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
26864811 ATATCCGGGATAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
26864851 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
26864891 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
26864931 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
26864971 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
26865011 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
26865051 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
26865091 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
26865131 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
26865171 ATATCCGGGCTAAGACCCGATGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
26865211 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
26865251 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
26865291 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
26865316 ATTGAGCTTG
Statistics
Matches: 637, Mismatches: 26, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
39 2 0.00
40 634 1.00
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:26867632 original size:22 final size:22
Alignment explanation
Indices: 26867607--26867650 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
26867597 ATTATTAACA
26867607 TAATGAATTTTAATTAATTTTG
1 TAATGAATTTTAATTAATTTTG
* *
26867629 TAATTAATTTTGATTAATTTTG
1 TAATGAATTTTAATTAATTTTG
26867651 ATTATTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (22 bp):
TAATGAATTTTAATTAATTTTG
Found at i:26867634 original size:12 final size:12
Alignment explanation
Indices: 26867617--26867650 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
26867607 TAATGAATTT
26867617 TAATTAATTTTG
1 TAATTAATTTTG
26867629 TAATTAATTTTG
1 TAATTAATTTTG
26867641 --ATTAATTTTG
1 TAATTAATTTTG
26867651 ATTATTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.45
12 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (12 bp):
TAATTAATTTTG
Found at i:26867659 original size:10 final size:10
Alignment explanation
Indices: 26867612--26867662 Score: 66
Period size: 10 Copynumber: 4.9 Consensus size: 10
26867602 TAACATAATG
*
26867612 AATTTTAATT
1 AATTTTGATT
26867622 AATTTTGTAATT
1 AATTTTG--ATT
26867634 AATTTTGATT
1 AATTTTGATT
26867644 AATTTTGATT
1 AATTTTGATT
*
26867654 ATTTTTGAT
1 AATTTTGAT
26867663 AGATTTGCGC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
10 27 0.73
12 10 0.27
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (10 bp):
AATTTTGATT
Found at i:26867668 original size:20 final size:20
Alignment explanation
Indices: 26867612--26867662 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
26867602 TAACATAATG
*
26867612 AATTTTAATTAATTTTGTAATT
1 AATTTTGATTAATTTTG--ATT
26867634 AATTTTGATTAATTTTGATT
1 AATTTTGATTAATTTTGATT
*
26867654 ATTTTTGAT
1 AATTTTGAT
26867663 AGATTTGCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 11 0.41
22 16 0.59
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (20 bp):
AATTTTGATTAATTTTGATT
Found at i:26869198 original size:14 final size:14
Alignment explanation
Indices: 26869179--26869205 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26869169 GCATAGGAAC
26869179 TTTATTTTACTTTA
1 TTTATTTTACTTTA
26869193 TTTATTTTACTTT
1 TTTATTTTACTTT
26869206 GTTAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTTACTTTA
Found at i:26871740 original size:52 final size:51
Alignment explanation
Indices: 26871639--26871740 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 51
26871629 TTTATTTTTC
* * *
26871639 CTGCTGACTTTGTGATTCTAGACTTTGAAGCAGACAAAGAGGTGTCAATCA
1 CTGCTGACTTTGTGATTCTAGACTTTGAAGCAGACAAAAAAGTGCCAATCA
* *
26871690 NCTGCTGACTTTGTGGTTTTAGACTTTGAAGCAGACAAAAAAGTGCCAATC
1 -CTGCTGACTTTGTGATTCTAGACTTTGAAGCAGACAAAAAAGTGCCAATC
26871741 GTCCTAGGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (51 bp):
CTGCTGACTTTGTGATTCTAGACTTTGAAGCAGACAAAAAAGTGCCAATCA
Found at i:26873262 original size:41 final size:41
Alignment explanation
Indices: 26873204--26873284 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
26873194 ATAAGGAGTG
*
26873204 CTTAAGAGATTTTAATGATTTGAAAACTCAGTTAGTTTCGA
1 CTTAAGAGATTTCAATGATTTGAAAACTCAGTTAGTTTCGA
* *
26873245 CTTAAGAGCTTTCAATGATTTGAAAAGTCAGTTAGTTTCG
1 CTTAAGAGATTTCAATGATTTGAAAACTCAGTTAGTTTCG
26873285 GCACCTATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (41 bp):
CTTAAGAGATTTCAATGATTTGAAAACTCAGTTAGTTTCGA
Found at i:26875425 original size:40 final size:40
Alignment explanation
Indices: 26875380--26875460 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
26875370 AAAACGGGTG
26875380 AGCGCTAGAACCCTATAAGACATAGAGAAA-AAAACAGAGT
1 AGCGCTAGAACCCTATAAGACATAGA-AAACAAAACAGAGT
*
26875420 AGCGCTAGAACCCTATAATACATAGAAAACAAAACAGAGT
1 AGCGCTAGAACCCTATAAGACATAGAAAACAAAACAGAGT
26875460 A
1 A
26875461 AGCTTATAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 3 0.08
40 36 0.92
ACGTcount: A:0.51, C:0.19, G:0.17, T:0.14
Consensus pattern (40 bp):
AGCGCTAGAACCCTATAAGACATAGAAAACAAAACAGAGT
Found at i:26875567 original size:11 final size:11
Alignment explanation
Indices: 26875551--26875583 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
26875541 AAATTCAATT
*
26875551 TAATCATCACC
1 TAATCATCACA
26875562 TAATCAT-ACA
1 TAATCATCACA
26875572 TAATCATCACA
1 TAATCATCACA
26875583 T
1 T
26875584 GTTAGACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.30
Consensus pattern (11 bp):
TAATCATCACA
Found at i:26875888 original size:22 final size:22
Alignment explanation
Indices: 26875831--26875913 Score: 87
Period size: 22 Copynumber: 3.6 Consensus size: 22
26875821 ACTGAGCTCA
26875831 TAAATAGTAAGCTCTATTGAGC
1 TAAATAGTAAGCTCTATTGAGC
* *
26875853 TGAAAACAGTAAGCTGTATTGAGC
1 T--AAATAGTAAGCTCTATTGAGC
*
26875877 TAAATAGTAAGCTCT-TTCAAGC
1 TAAATAGTAAGCTCTATT-GAGC
*
26875899 TAAATCGGTAAGCTC
1 TAAAT-AGTAAGCTC
26875914 CAATGAACTG
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.04
22 21 0.41
23 8 0.16
24 20 0.39
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (22 bp):
TAAATAGTAAGCTCTATTGAGC
Found at i:26882995 original size:24 final size:24
Alignment explanation
Indices: 26882942--26883020 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 24
26882932 GTCATGGGTG
* *
26882942 GTAAGCTCTTACTGAGCTAATAAACA
1 GTAAGCTC-TACTGAGATGA-AAACA
* *
26882968 GTAAGCTCTATTGAGATGAAAACG
1 GTAAGCTCTACTGAGATGAAAACA
*
26882992 GTAAGCTCTACTGAGCTG--AACA
1 GTAAGCTCTACTGAGATGAAAACA
26883014 GTAAGCT
1 GTAAGCT
26883021 TTTTCGTGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 10 0.22
24 20 0.43
25 8 0.17
26 8 0.17
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (24 bp):
GTAAGCTCTACTGAGATGAAAACA
Found at i:26885450 original size:17 final size:17
Alignment explanation
Indices: 26885428--26885472 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
26885418 GCGCTTGCCC
26885428 ACGCTGCTGCCCACTCG
1 ACGCTGCTGCCCACTCG
*
26885445 ACGCTGGTGCCCACTCG
1 ACGCTGCTGCCCACTCG
*
26885462 ACGCTGTTGCC
1 ACGCTGCTGCC
26885473 TGCGGCTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.11, C:0.42, G:0.27, T:0.20
Consensus pattern (17 bp):
ACGCTGCTGCCCACTCG
Found at i:26896650 original size:30 final size:30
Alignment explanation
Indices: 26896614--26896673 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
26896604 ACTTTTAAGG
*
26896614 TATGAAGAAATTGAAGTCAAATGGCCAAGT
1 TATGAAGAAATTGAAGTCAAAAGGCCAAGT
*
26896644 TATGAAGAAATTGAAGTCAAAAGGCTAAGT
1 TATGAAGAAATTGAAGTCAAAAGGCCAAGT
26896674 CACACAGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.23
Consensus pattern (30 bp):
TATGAAGAAATTGAAGTCAAAAGGCCAAGT
Found at i:26898256 original size:26 final size:26
Alignment explanation
Indices: 26898220--26898269 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
26898210 CCAACACACC
26898220 AATATCACAGCAAAACTGCCAGTATT
1 AATATCACAGCAAAACTGCCAGTATT
* *
26898246 AATATCGCAGCAAAGCTGCCAGTA
1 AATATCACAGCAAAACTGCCAGTA
26898270 ACAGTAACGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (26 bp):
AATATCACAGCAAAACTGCCAGTATT
Found at i:26898280 original size:26 final size:26
Alignment explanation
Indices: 26898227--26898294 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 26
26898217 ACCAATATCA
* ** *
26898227 CAGCAAAACTGCCAGTATTAATATCG
1 CAGCAAAGCTGCCAGTAACAATAACG
*
26898253 CAGCAAAGCTGCCAGTAACAGTAACG
1 CAGCAAAGCTGCCAGTAACAATAACG
* *
26898279 CAGTAGAGCTG-CAGTA
1 CAGCAAAGCTGCCAGTA
26898295 TTAGTATCTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
25 5 0.14
26 30 0.86
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAATAACG
Found at i:26898468 original size:26 final size:27
Alignment explanation
Indices: 26898432--26898485 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
26898422 ATCATAGCAC
26898432 AAAACAGTTA-TTTACCCTCGAGGGGT
1 AAAACAGTTATTTTACCCTCGAGGGGT
* **
26898458 AAAATAGTTATTTTACCCTTTAGGGGT
1 AAAACAGTTATTTTACCCTCGAGGGGT
26898485 A
1 A
26898486 TTTTGGTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (27 bp):
AAAACAGTTATTTTACCCTCGAGGGGT
Found at i:26910316 original size:48 final size:47
Alignment explanation
Indices: 26910156--26910489 Score: 319
Period size: 48 Copynumber: 7.0 Consensus size: 47
26910146 GACATTTGGG
* * * *
26910156 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCA
** ** * * * *
26910204 CAATACAAGAACCAGTGTAAGACCATGT-TGGAACATGGCATTGGCGA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-A
* * * * *
26910251 TGTTGTGAGATCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
* * * *
26910298 TTGATATGTGTGCTAGTGTAAGACCATGTTTAGGACATGGCATCGGCCA
1 -TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA
** * * *
26910347 CAACATGAGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
* *
26910394 TTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 -TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
* * * *
26910442 TTGAGACGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATTGGCA
1 -TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
26910490 ATTCACCCTA
Statistics
Matches: 233, Mismatches: 48, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
46 2 0.01
47 36 0.15
48 193 0.83
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
Found at i:26910469 original size:144 final size:142
Alignment explanation
Indices: 26910166--26910484 Score: 399
Period size: 144 Copynumber: 2.2 Consensus size: 142
26910156 TGATATGTGT
* *
26910166 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCACAATACAAGAACCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCT-GGACATGGCATCAGCCACAACACAAGAACCAGTGTAAGACCATG
* * * *
26910231 TTGGAACATGGCATTGGCGATGTTGTGAGATCCAGTGTAAGACCATGTCTGGGACATGGCATCAG
65 TTGGAACATGGCATCGGCGATGTAGCGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG
* * * *
26910296 CATTGATATGTGT
130 CATTGAGACGAGA
* * ** *
26910309 GCTAGTGTAAGACCATGTTTAGGACATGGCATCGGCCACAACATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCT-GGACATGGCATCAGCCACAACACAAGAACCAGTGTAAGACCATG
* * *
26910374 TCTGGGATATGGCATCGGC-AT-TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
65 T-TGGAACATGGCATCGGCGATGT-AG-CGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
*
26910437 CGGCATTGAGACGAGA
127 CAGCATTGAGACGAGA
26910453 GCTAGTGTAAGACCATGTCTGGAACATGGCAT
1 GCTAGTGTAAGACCATGTCTGG-ACATGGCAT
26910485 TGGCAATTCA
Statistics
Matches: 151, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
142 1 0.01
143 63 0.42
144 87 0.58
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (142 bp):
GCTAGTGTAAGACCATGTCTGGACATGGCATCAGCCACAACACAAGAACCAGTGTAAGACCATGT
TGGAACATGGCATCGGCGATGTAGCGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC
ATTGAGACGAGA
Found at i:26910840 original size:14 final size:14
Alignment explanation
Indices: 26910818--26910851 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26910808 TGATGTTGTT
26910818 ACTTATTTATATGA
1 ACTTATTTATATGA
*
26910832 ACTTTTTTATATGAA
1 ACTTATTTATATG-A
26910847 ACTTA
1 ACTTA
26910852 CTAAGCTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (14 bp):
ACTTATTTATATGA
Found at i:26913022 original size:295 final size:293
Alignment explanation
Indices: 26912538--26913125 Score: 898
Period size: 295 Copynumber: 2.0 Consensus size: 293
26912528 GATCATAGAA
* *
26912538 CACCTAGTTTAGTAGTATATTAATAAGTCTAATTTATAAACCAACTTGCCCCTACTTAACCAATT
1 CACCTAGTTTACTAGTATATTAATAAGTCTAAATTATAAACCAACTTGCCCCTACTTAACCAATT
* *
26912603 CACTACATTAGCAAACATGACATATGCGCATATATATATGTATATGAATTCAATTAACAAATCAT
66 CACTACATTAGCAAACATGACATATGCACATATATATATGTATATGAATCCAATTAACAAATCAT
*
26912668 GACTAAACGTATAGGCACATCATCTTCCACTATCAACCCAATTCCTATTACAAAATATACATCCC
131 GACCAAACGTATAGGCACATCATCTTCCACTATCAACCCAATTCCTATTACAAAATATACATCCC
26912733 AATATGTCAAACTTACCATAATGAACAAATCATGA-ACTACACATATCATTAATTTAAACCAT-A
196 AATATGTCAAACTTACCATAATGAACAAATCATGATA-TACACATATCATTAATTTAAACCATAA
* *
26912796 AGTAAATACCGAAGAGA-CCCAACGCATATATCTTG
260 AAT-AATACCGAAGACACCCCAA-GCATATATCTTG
* * * * *
26912831 CACCTATTTTACTAGTATATTAATAAGTCTAAATTATATACCAACTTGTCTCTACTTGACCAATT
1 CACCTAGTTTACTAGTATATTAATAAGTCTAAATTATAAACCAACTTGCCCCTACTTAACCAATT
*
26912896 CACTACA-TAGGCAAACATGACATATGCACACATATATATATGTTTATGAATCCAATTAACAAAT
66 CACTACATTA-GCAAACATGACATATG--CACATATATATATGTATATGAATCCAATTAACAAAT
* *
26912960 CATGACCAAA-GATATAGGCATATCATCTTCCACTATCAACCCACTTCCTATTACAAAATATACA
128 CATGACCAAACG-TATAGGCACATCATCTTCCACTATCAACCCAATTCCTATTACAAAATATACA
* * * *
26913024 TCCCAATATGTCAAACTTACCATGATGAATAAATCGTGATATAGACATATCATTAATTTAAACCA
192 TCCCAATATGTCAAACTTACCATAATGAACAAATCATGATATACACATATCATTAATTTAAACCA
*
26913089 TAAAATAATACCGAATACACCCCAAGCATATATCTTG
257 TAAAATAATACCGAAGACACCCCAAGCATATATCTTG
26913126 AATATTACCT
Statistics
Matches: 268, Mismatches: 20, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
292 2 0.01
293 81 0.30
294 1 0.00
295 175 0.65
296 9 0.03
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (293 bp):
CACCTAGTTTACTAGTATATTAATAAGTCTAAATTATAAACCAACTTGCCCCTACTTAACCAATT
CACTACATTAGCAAACATGACATATGCACATATATATATGTATATGAATCCAATTAACAAATCAT
GACCAAACGTATAGGCACATCATCTTCCACTATCAACCCAATTCCTATTACAAAATATACATCCC
AATATGTCAAACTTACCATAATGAACAAATCATGATATACACATATCATTAATTTAAACCATAAA
ATAATACCGAAGACACCCCAAGCATATATCTTG
Found at i:26913976 original size:42 final size:42
Alignment explanation
Indices: 26913877--26914022 Score: 136
Period size: 42 Copynumber: 3.5 Consensus size: 42
26913867 AACACCAAAA
* *
26913877 TCCCAGACATGGTCTTACATGTAATCACATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACG-AATCACATATCAATGCCACTG
* * * * *
26913920 TCCTAGATAGGGTCTTACACGAA-CTCATATACAATGTCGA-TG
1 TCCCAGACATGGTCTTACACGAATCACATAT-CAATG-CCACTG
* * *
26913962 TCCCAGACATGGTCTTACACGAATCACAAATCGATGCCAAC-A
1 TCCCAGACATGGTCTTACACGAATCACATATCAATGCC-ACTG
*
26914004 TCCCAGACGTGGTCTTACA
1 TCCCAGACATGGTCTTACA
26914023 TTAAATCAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
41 7 0.09
42 51 0.62
43 24 0.29
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAATCACATATCAATGCCACTG
Found at i:26915123 original size:13 final size:13
Alignment explanation
Indices: 26915105--26915129 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26915095 ACAAACAATA
26915105 AAATTTTCATACG
1 AAATTTTCATACG
26915118 AAATTTTCATAC
1 AAATTTTCATAC
26915130 ATATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
AAATTTTCATACG
Found at i:26925093 original size:13 final size:13
Alignment explanation
Indices: 26925075--26925100 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26925065 CACAAACAAT
26925075 GAAATTTTCACAC
1 GAAATTTTCACAC
26925088 GAAATTTTCACAC
1 GAAATTTTCACAC
26925101 ATATAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
GAAATTTTCACAC
Found at i:26931435 original size:48 final size:48
Alignment explanation
Indices: 26931363--26931615 Score: 204
Period size: 48 Copynumber: 5.3 Consensus size: 48
26931353 TATGTGTGCT
* *
26931363 AGTGTAAGACCATGTCT-GAGACATGGCATCGGCCAAGATACGAAAGCC
1 AGTGTAAGACCATGTTTGGA-ACATGGCATCGGCCAAGATACGAGAGCC
* * ** * * **
26931411 AGTGTAAGACCATGTTTTGAACATGGCATCAGTGATGTTGTGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCAAGATACGAGAGCC
* * * * *
26931459 AGTATAAGACCATGTCTGGGACATGGCGTCGGCCAAGGTACGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCAAGATACGAGAGCC
** * * **
26931507 AGTGTAAGACCATGTTTGGAACATGGCATCGGTGATGTTGTGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCAAGATACGAGAGCC
* * * * * * * **
26931555 AATATAAGACCATGTCTGGGACATGGCATCAG-CATTGAGACGAGAGTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCA-AGATACGAGAGCC
26931603 AGTGTAAGACCAT
1 AGTGTAAGACCAT
26931616 CTCTAGGACA
Statistics
Matches: 158, Mismatches: 45, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
47 1 0.01
48 155 0.98
49 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCCAAGATACGAGAGCC
Found at i:26931531 original size:96 final size:96
Alignment explanation
Indices: 26931367--26931584 Score: 373
Period size: 96 Copynumber: 2.3 Consensus size: 96
26931357 TGTGCTAGTG
* *
26931367 TAAGACCATGTCTGAGACATGGCATCGGCCAAGATACGAAAGCCAGTGTAAGACCATGTTTTGAA
1 TAAGACCATGTCTGGGACATGGCATCGGCCAAGATACGAAAGCCAGTGTAAGACCATGTTTGGAA
*
26931432 CATGGCATCAGTGATGTTGTGAGAGCCAGTA
66 CATGGCATCAGTGATGTTGTGAGAGCCAATA
* * *
26931463 TAAGACCATGTCTGGGACATGGCGTCGGCCAAGGTACGAGAGCCAGTGTAAGACCATGTTTGGAA
1 TAAGACCATGTCTGGGACATGGCATCGGCCAAGATACGAAAGCCAGTGTAAGACCATGTTTGGAA
*
26931528 CATGGCATCGGTGATGTTGTGAGAGCCAATA
66 CATGGCATCAGTGATGTTGTGAGAGCCAATA
26931559 TAAGACCATGTCTGGGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
26931585 AGCATTGAGA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 114 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (96 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCAAGATACGAAAGCCAGTGTAAGACCATGTTTGGAA
CATGGCATCAGTGATGTTGTGAGAGCCAATA
Found at i:26931598 original size:96 final size:96
Alignment explanation
Indices: 26931367--26931615 Score: 367
Period size: 96 Copynumber: 2.6 Consensus size: 96
26931357 TGTGCTAGTG
* * * *
26931367 TAAGACCATGTCTGAGACATGGCATCGGCCAAGATACGAAAGCCAGTGTAAGACCATGTTTTGAA
1 TAAGACCATGTCTGGGACATGGCATCGGCCAAGAGACGAGAGCCAGTGTAAGACCATGTTTGGAA
*
26931432 CATGGCATCAGTGATGTTGTGAGAGCCAGTA
66 CATGGCATCAGTGATGTTGTGAGAGCCAATA
*
26931463 TAAGACCATGTCTGGGACATGGCGTCGGCCAAG-GTACGAGAGCCAGTGTAAGACCATGTTTGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCCAAGAG-ACGAGAGCCAGTGTAAGACCATGTTTGGA
*
26931527 ACATGGCATCGGTGATGTTGTGAGAGCCAATA
65 ACATGGCATCAGTGATGTTGTGAGAGCCAATA
* * **
26931559 TAAGACCATGTCTGGGACATGGCATCAG-CATTGAGACGAGAGTTAGTGTAAGACCAT
1 TAAGACCATGTCTGGGACATGGCATCGGCCA-AGAGACGAGAGCCAGTGTAAGACCAT
26931616 CTCTAGGACA
Statistics
Matches: 138, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
95 2 0.01
96 135 0.98
97 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.22
Consensus pattern (96 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCAAGAGACGAGAGCCAGTGTAAGACCATGTTTGGAA
CATGGCATCAGTGATGTTGTGAGAGCCAATA
Found at i:26934355 original size:34 final size:33
Alignment explanation
Indices: 26934317--26934395 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
26934307 AAACAGTCTC
* * * *
26934317 GGCCTAAGCCCTTAACAGTAGCATTATCAGTGTG
1 GGCCTTAGCCCTT-ACAGTAACAGTATCAGTGTA
* *
26934351 GGCCTTAGCCGATTACGGTAACAGTATCAGTGTA
1 GGCCTTAGCC-CTTACAGTAACAGTATCAGTGTA
26934385 GGCCTTAGCCC
1 GGCCTTAGCCC
26934396 AATTCAGTAC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
34 35 0.95
35 2 0.05
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (33 bp):
GGCCTTAGCCCTTACAGTAACAGTATCAGTGTA
Found at i:26952957 original size:43 final size:43
Alignment explanation
Indices: 26952894--26953005 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
26952884 TTCAACTCAA
* * *
26952894 GATTACCCGTCC-GAGCTAAATCCTTTATATACTGAA-ATCAATG
1 GATTACCCATCCAG-GCTAAATCCATTACATACT-AAGATCAATG
* ** *
26952937 GGTTACCCATCTGGGCTAAATCCATTCCATACTAAGATCAATG
1 GATTACCCATCCAGGCTAAATCCATTACATACTAAGATCAATG
*
26952980 GATTACCCGTCCAGGCTAAATCCATT
1 GATTACCCATCCAGGCTAAATCCATT
26953006 TCATCACATT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 2 0.04
43 54 0.95
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (43 bp):
GATTACCCATCCAGGCTAAATCCATTACATACTAAGATCAATG
Found at i:26955935 original size:20 final size:20
Alignment explanation
Indices: 26955872--26955938 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
26955862 GATTTGATAT
26955872 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
* ** *
26955892 GCACAATATGTATGATATAC
1 ACATGATATGTATGATATGC
26955912 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
26955932 ACATGAT
1 ACATGAT
26955939 GTATTCATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 36 0.95
21 2 0.05
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:26956093 original size:24 final size:24
Alignment explanation
Indices: 26955986--26956087 Score: 125
Period size: 25 Copynumber: 4.2 Consensus size: 24
26955976 AGGAAGTGCA
* * *
26955986 AAAAGGGCTATGCCCCAATTTACTG
1 AAAAGGGCTTTGCCCCAGTTTA-TT
*
26956011 AAAAGGGCTTTTGCCTCAGTTTATT
1 AAAAGGGC-TTTGCCCCAGTTTATT
*
26956036 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGC-TTTGCCCCAGTTTATT
26956061 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATT
26956084 AAAA
1 AAAA
26956088 TAGGCTAGGC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.12
24 10 0.14
25 40 0.58
26 11 0.16
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATT
Found at i:26956337 original size:31 final size:31
Alignment explanation
Indices: 26956302--26956365 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
26956292 CATTTACAGT
*
26956302 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
26956333 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
26956364 AA
1 AA
26956366 TATGAAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:26966709 original size:20 final size:20
Alignment explanation
Indices: 26966684--26966730 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
26966674 GATTTGATAA
26966684 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
26966704 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
26966724 ACATGAT
1 ACATGAT
26966731 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:26966857 original size:50 final size:49
Alignment explanation
Indices: 26966778--26966885 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 49
26966768 AGGAAGTGCA
*
26966778 AAAAGGGC-TATGTCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGC-TTTGCCCCAG-TTATT
* *
26966828 AAAAGGGCTTTTGCCCCAGTTTATC-AAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
26966876 AAAAGAGGCT
1 AAAAG-GGCT
26966886 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
48 10 0.19
49 14 0.26
50 16 0.30
51 13 0.25
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
Found at i:26966869 original size:24 final size:24
Alignment explanation
Indices: 26966778--26966885 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
26966768 AGGAAGTGCA
* * *
26966778 AAAAGGGCTATGTCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
26966802 GAAAAGGGCTTTTGCCCCAGTTTATT
1 -AAAAGGGC-TTTGCCCCAGTTTATC
26966828 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGC-TTTGCCCCAGTTTATC
*
26966853 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
26966876 AAAAGAGGCT
1 AAAAG-GGCT
26966886 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
23 9 0.12
24 14 0.19
25 40 0.53
26 12 0.16
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:26966896 original size:49 final size:51
Alignment explanation
Indices: 26966778--26966897 Score: 142
Period size: 49 Copynumber: 2.4 Consensus size: 51
26966768 AGGAAGTGCA
* *
26966778 AAAAGGGC-TATGTCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTAGGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
** *
26966828 AAAAGGGCTTTTGCCCCAGTTTATC-AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTAGGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
26966876 AAAAGAGGC-TAGGCCTCCAGTT
1 AAAAG-GGCTTAGGCC-CCAGTT
26966898 ATATGATAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
48 14 0.23
49 19 0.31
50 16 0.26
51 13 0.21
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTAGGCCCCAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATT
Found at i:26967131 original size:31 final size:31
Alignment explanation
Indices: 26967093--26967156 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
26967083 CGTTTACAGT
26967093 AAAGGCTTCGGACCAGTAATATGAAATATGA
1 AAAGGCTTCGGACCAGTAATATGAAATATGA
* **
26967124 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGACCAGTAATATGAAATATGA
26967155 AA
1 AA
26967157 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGACCAGTAATATGAAATATGA
Found at i:26972380 original size:10 final size:10
Alignment explanation
Indices: 26972362--26972413 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
26972352 ATTACTAACA
*
26972362 TAATGAATTT
1 TAATTAATTT
26972372 TAATTAATTTT
1 TAATTAA-TTT
26972383 ATAATTAATTT
1 -TAATTAATTT
*
26972394 TGATTAATTT
1 TAATTAATTT
*
26972404 TTATT-ATTT
1 TAATTAATTT
26972413 T
1 T
26972414 CGACAGGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 5 0.14
10 19 0.51
11 6 0.16
12 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
TAATTAATTT
Found at i:26972386 original size:22 final size:22
Alignment explanation
Indices: 26972361--26972404 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
26972351 AATTACTAAC
26972361 ATAATGAATTTTAATTAATTTT
1 ATAATGAATTTTAATTAATTTT
* *
26972383 ATAATTAATTTTGATTAATTTT
1 ATAATGAATTTTAATTAATTTT
26972405 TATTATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
ATAATGAATTTTAATTAATTTT
Found at i:26977172 original size:37 final size:37
Alignment explanation
Indices: 26977131--26977209 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
26977121 TTATTACGAA
* * *
26977131 GTCTTACCCGGATATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
26977168 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
26977205 GTCTT
1 GTCTT
26977210 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:26977406 original size:47 final size:47
Alignment explanation
Indices: 26977330--26977575 Score: 323
Period size: 47 Copynumber: 5.2 Consensus size: 47
26977320 CTTCGGGACT
* * * * * * *
26977330 TATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
26977377 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
26977424 TACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
26977471 TATTACATATATACACTTTCACATTCATCACATCGGCTATTAGG-CC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
26977517 TCATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
26977565 TACCACATATA
1 TATCACATATA
26977576 CCCATTTAGA
Statistics
Matches: 177, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
46 2 0.01
47 173 0.98
48 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:26982277 original size:29 final size:28
Alignment explanation
Indices: 26982130--26982283 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
26982120 ATATTAAGTC
*
26982130 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
26982157 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
26982185 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
26982213 CGCACACTTTGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
26982241 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
26982270 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26982284 CAATCTCATG
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 21 0.18
28 74 0.65
29 19 0.17
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:26985605 original size:27 final size:27
Alignment explanation
Indices: 26985563--26985735 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
26985553 TGGATAAGTT
**
26985563 GTAGAATTACCGAAATACCCTTGTAAA
1 GTAGAATTACCGAAATACCCTTGTAGG
* **
26985590 GTAGAATTACCAAAATAAACTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
26985617 GTAGAATTACCGAAATA-CCTCTATAGG
1 GTAGAATTACCGAAATACCCT-TGTAGG
*
26985644 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
26985671 GTAGAAATACCGAAATACCCCTGT-GG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
26985697 AGTAGAATTACCGAGATATCCTTGTGGG
1 -GTAGAATTACCGAAATACCCTTGTAGG
*
26985725 GTAAAATTACC
1 GTAGAATTACC
26985736 ATTTTGCCCC
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 4 0.03
27 115 0.93
28 5 0.04
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:26986430 original size:27 final size:26
Alignment explanation
Indices: 26986386--26986437 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
26986376 CTCGCTGCAA
26986386 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGGCCTCGCCACA-ATATCTGT
* * *
26986413 TCTGGTGTCTTCGTCACAATATCTG
1 TCTGGTGGCCTCGCCACAATATCTG
26986438 GGACATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGGCCTCGCCACAATATCTGT
Found at i:26992695 original size:27 final size:27
Alignment explanation
Indices: 26992650--26992750 Score: 148
Period size: 27 Copynumber: 3.7 Consensus size: 27
26992640 TGGATAATTT
**
26992650 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTATTGAAATACCCCTGTAAG
*
26992677 GTAGAATTATTGAACTACCCCTGTAAG
1 GTAGAATTATTGAAATACCCCTGTAAG
*
26992704 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTATTGAAATACCCCTGTAAG
**
26992731 GTAGAATTACCGAAATACCC
1 GTAGAATTATTGAAATACCC
26992751 TTATGCATGC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAGAATTATTGAAATACCCCTGTAAG
Found at i:26992951 original size:27 final size:26
Alignment explanation
Indices: 26992907--26992958 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
26992897 CTCGCTGCAA
26992907 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGGCCTCGCCACA-ATATCTGT
* * *
26992934 TCTGGTGTCTTCGTCACAATATCTG
1 TCTGGTGGCCTCGCCACAATATCTG
26992959 GGAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGGCCTCGCCACAATATCTGT
Found at i:26997993 original size:206 final size:206
Alignment explanation
Indices: 26997753--26998134 Score: 647
Period size: 206 Copynumber: 1.9 Consensus size: 206
26997743 TTATTCAAAA
*
26997753 CTGTGTATGTCATTGAATTATTCAAATATGATTCAAAACATTTTTTAAATGTTGATCCAAATATG
1 CTGTGTAAGTCATTGAATTATTCAAATATGATTCAAAACATTTTTTAAATGTTGATCCAAATATG
*
26997818 ATCATTGTTTGTATCAAAGTGAATTGCAGGTTTGGATTTTTCTAAAGGTATTGTCTGCCATGTGC
66 ATCATTGTCTGTATCAAAGTGAATTGCAGGTTTGGATTTTTCTAAAGGTATTGTCTGCCATGTGC
** * * *
26997883 ATACTAATTTCCTTAGGAAAGAGACAAATCAGTTCTTATTTTTATGGCTTATCAATCTTTATTAA
131 ATACTAATAGCCTTAGGAAAAAGACAAATCAATTCCTATTTTTATGGCTTATCAATCTTTATTAA
26997948 ATCATTTGAAT
196 ATCATTTGAAT
* *
26997959 CTGTGTAAGTCATTGAATTATTCAAATATGATTCAAAATATTTTTTAAATGTTGATTCAAATATG
1 CTGTGTAAGTCATTGAATTATTCAAATATGATTCAAAACATTTTTTAAATGTTGATCCAAATATG
* * *
26998024 ATCATTGTCTGTATCAAATTGAATTGCAGGTTTGGATTTTTCTAAAGTTATTGTTTGCCATGTGC
66 ATCATTGTCTGTATCAAAGTGAATTGCAGGTTTGGATTTTTCTAAAGGTATTGTCTGCCATGTGC
*
26998089 CTACTAATAGCCTTAGGAAAAAGACAAATCAATTCCTATTTTTATG
131 ATACTAATAGCCTTAGGAAAAAGACAAATCAATTCCTATTTTTATG
26998135 ACTAACAGTA
Statistics
Matches: 163, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
206 163 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (206 bp):
CTGTGTAAGTCATTGAATTATTCAAATATGATTCAAAACATTTTTTAAATGTTGATCCAAATATG
ATCATTGTCTGTATCAAAGTGAATTGCAGGTTTGGATTTTTCTAAAGGTATTGTCTGCCATGTGC
ATACTAATAGCCTTAGGAAAAAGACAAATCAATTCCTATTTTTATGGCTTATCAATCTTTATTAA
ATCATTTGAAT
Found at i:26998178 original size:11 final size:11
Alignment explanation
Indices: 26998159--26998193 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
26998149 AGCTCTTTTG
26998159 GATTCAAATAT
1 GATTCAAATAT
*
26998170 GATTTAAATAT
1 GATTCAAATAT
*
26998181 GAATCAAATAT
1 GATTCAAATAT
26998192 GA
1 GA
26998194 CAAATCAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (11 bp):
GATTCAAATAT
Found at i:27014807 original size:26 final size:25
Alignment explanation
Indices: 27014757--27014808 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
27014747 TAACTCATAA
*
27014757 ATTTCACATTTCACAAATTAGTCCCT
1 ATTTCACATTTCACAAA-TAATCCCT
27014783 ATTTCACATTTTCATCAAA-AATCCCT
1 ATTTCACA-TTTCA-CAAATAATCCCT
27014809 TAACAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 14 0.61
27 5 0.22
28 4 0.17
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAATCCCT
Found at i:27016220 original size:57 final size:57
Alignment explanation
Indices: 27016131--27016244 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
27016121 AGAGCTACGG
27016131 TTTAGTCAATTCTAGGACTAACGTAGCATGTGATAGTCTAGCTATACATGCCATATA
1 TTTAGTCAATTCTAGGACTAACGTAGCATGTGATAGTCTAGCTATACATGCCATATA
* *
27016188 TTTAGTCAATTCTAGGGCTAACGTAGCGTGTGATAGTCTAGCTATACATGCCATATA
1 TTTAGTCAATTCTAGGACTAACGTAGCATGTGATAGTCTAGCTATACATGCCATATA
27016245 ACATAGCGTG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (57 bp):
TTTAGTCAATTCTAGGACTAACGTAGCATGTGATAGTCTAGCTATACATGCCATATA
Found at i:27016261 original size:37 final size:37
Alignment explanation
Indices: 27016206--27016281 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
27016196 ATTCTAGGGC
* *
27016206 TAACGTAGCGTGTGATAGTCTAGCTATACATGCCATA
1 TAACATAGCGTGTGATAGTCTAGCTATACATACCATA
27016243 TAACATAGCGTGTGATAGTCTAGCTATACATACCATA
1 TAACATAGCGTGTGATAGTCTAGCTATACATACCATA
27016280 TA
1 TA
27016282 TACTCTGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (37 bp):
TAACATAGCGTGTGATAGTCTAGCTATACATACCATA
Found at i:27017023 original size:29 final size:29
Alignment explanation
Indices: 27016983--27017041 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
27016973 TAAGCTAATT
27016983 AAAAACTAAAAGACCTTTGAGAAACTCTA
1 AAAAACTAAAAGACCTTTGAGAAACTCTA
27017012 AAAAACTAAAAGACCTTTGAGAAACTCTA
1 AAAAACTAAAAGACCTTTGAGAAACTCTA
27017041 A
1 A
27017042 CATATGTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.20
Consensus pattern (29 bp):
AAAAACTAAAAGACCTTTGAGAAACTCTA
Found at i:27020319 original size:17 final size:17
Alignment explanation
Indices: 27020299--27020331 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
27020289 ATAAGCACAA
27020299 TTAAACAAGTTAAATGT
1 TTAAACAAGTTAAATGT
27020316 TTAAACAAGTTAAATG
1 TTAAACAAGTTAAATG
27020332 GCTATAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (17 bp):
TTAAACAAGTTAAATGT
Found at i:27020418 original size:51 final size:49
Alignment explanation
Indices: 27020375--27020472 Score: 133
Period size: 51 Copynumber: 2.0 Consensus size: 49
27020365 AATTGCCGAC
* *
27020375 ATTACTTAAGCAACTAAAGAAAATTAAAAAATAGCTTAATTAATTAAACTA
1 ATTACTTAAACAACTAAAGAAAATTAAAAAA-A-CTTAATTAATTAAACGA
* * *
27020426 ATTATTTAAACAACTAAAGACAATTAAAACAACTTAATTAATTAAAC
1 ATTACTTAAACAACTAAAGAAAATTAAAAAAACTTAATTAATTAAAC
27020473 TAAAATAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 15 0.35
50 1 0.02
51 27 0.63
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (49 bp):
ATTACTTAAACAACTAAAGAAAATTAAAAAAACTTAATTAATTAAACGA
Found at i:27029956 original size:40 final size:38
Alignment explanation
Indices: 27029867--27030052 Score: 151
Period size: 40 Copynumber: 4.7 Consensus size: 38
27029857 AGTAACTCAT
* ** * ** *
27029867 ACAATGCCTTCGGGACTTAACAGGGATTTTAAAACTCTC
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAGTACTCGC
*
27029906 ACGAATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGC
1 AC-AAAGCCTTCGGGACTTAACCCGGAATTAGTA-CTCGC
*
27029946 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGC
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAGT-ACTCGC
** *
27029986 ACAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGC
1 ACAAA-GCCTTCGGGA-CTTAACCCGGAAT-TAGT-AC-TCGC
*
27030027 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
27030053 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
39 13 0.11
40 98 0.80
41 12 0.10
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (38 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAGTACTCGC
Found at i:27029993 original size:80 final size:80
Alignment explanation
Indices: 27029867--27030052 Score: 202
Period size: 80 Copynumber: 2.3 Consensus size: 80
27029857 AGTAACTCAT
* ** * * *
27029867 ACAATGCCTTCGGGACTTAACAGGGATTTTAAAACTCTCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
27029931 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
27029946 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
27030010 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
27030027 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
27030053 CAGCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
79 11 0.12
80 69 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:27062363 original size:37 final size:37
Alignment explanation
Indices: 27062313--27062425 Score: 190
Period size: 37 Copynumber: 3.1 Consensus size: 37
27062303 CTTTAGCTCA
* * *
27062313 GACAAAATCTCCACACGAAGTTATCGGGTCTTACTCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
27062350 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
27062387 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
27062424 GA
1 GA
27062426 ATATATTTCC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:27062687 original size:98 final size:98
Alignment explanation
Indices: 27062574--27062752 Score: 313
Period size: 98 Copynumber: 1.8 Consensus size: 98
27062564 CATCGCCTAC
*
27062574 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCGCATACATATTTCACACTAGCCA
*
27062639 TTCGGCTTTACCACATTTACATATCTCATATAT
66 TTCGGCCTTACCACATTTACATATCTCATATAT
* *
27062672 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCGCATACATATTTCACATTAGCCA
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCGCATACATATTTCACACTAGCCA
*
27062737 TTCGGCCTTATCACAT
66 TTCGGCCTTACCACAT
27062753 ATATGCATGT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 76 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (98 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCGCATACATATTTCACACTAGCCA
TTCGGCCTTACCACATTTACATATCTCATATAT
Found at i:27062697 original size:50 final size:48
Alignment explanation
Indices: 27062571--27062755 Score: 289
Period size: 48 Copynumber: 3.8 Consensus size: 48
27062561 GCACATCGCC
27062571 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
27062619 TACATATTTCACACTAGCCATTCGGCTTTACCACATTTACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
27062669 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCGCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
27062717 TACATATTTCACATTAGCCATTCGGCCTTATCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
27062756 TGCATGTTCA
Statistics
Matches: 127, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
48 83 0.65
50 44 0.35
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:27062790 original size:47 final size:47
Alignment explanation
Indices: 27062725--27062850 Score: 216
Period size: 47 Copynumber: 2.7 Consensus size: 47
27062715 CATACATATT
*
27062725 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
* *
27062772 TCACATTGGCCATTCGGCCTGAACACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
*
27062819 TCACATTGGCCATTCGGCCTTATCGCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
27062851 ACACATAAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
Found at i:27066419 original size:46 final size:46
Alignment explanation
Indices: 27066323--27066544 Score: 213
Period size: 46 Copynumber: 4.8 Consensus size: 46
27066313 ATATATGTGT
*
27066323 CGATGTCA-GTCCCAGACATGGTCTTACACTA--ACACATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACATCTCG-AGGC
* *
27066368 CGATGCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAGGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCACATCTCGAGGC
* * * * * *
27066414 TGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCACATCTCGAGGC
* * *
27066460 CGATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCATAAT--ATGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACAT-CTCGA-GGC
* *
27066508 CAATGCATGTCCCAGAAATGTCTTACACTAGCTCACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCACA
27066545 CAAGTGACCC
Statistics
Matches: 148, Mismatches: 21, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
44 12 0.08
45 17 0.11
46 68 0.46
47 28 0.19
48 22 0.15
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCACATCTCGAGGC
Found at i:27066514 original size:94 final size:92
Alignment explanation
Indices: 27066270--27066539 Score: 284
Period size: 94 Copynumber: 2.9 Consensus size: 92
27066260 TGGGGTCAGG
* * *
27066270 TGCCGATGCCATGTCCCAGACATGGTCTTATACAAGTTCTAGCATATATGTGTCGATGTCA-GTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATATATG-GTCGATG-CATGTC
*
27066334 CCAGACATGGTCTTACACTAACACATCTCGTA
62 CCAGACAT-GTCTTACACTAGCACATCTCGTA
* * * *
27066366 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCGA-GGTTGATGCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT--ATGGTCGATGCATGTCCC
27066427 AGACATGTCTTACACTAGCAC-TCGTC-TCAA
64 AGACATGTCTTACACTAGCACATC-TCGT--A
* * *
27066457 TGCCGATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCATAATATGGCCAATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATATGGTCGATGCATGTCCCA
*
27066522 GAAATGTCTTACACTAGC
65 GACATGTCTTACACTAGC
27066540 TCACACAAGT
Statistics
Matches: 148, Mismatches: 15, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
89 3 0.02
90 18 0.12
91 22 0.15
92 8 0.05
93 27 0.18
94 62 0.42
95 8 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATGGTCGATGCATGTCCCAG
ACATGTCTTACACTAGCACATCTCGTA
Found at i:27071644 original size:38 final size:38
Alignment explanation
Indices: 27071575--27071647 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
27071565 CTCAACCGCC
* *
27071575 AGATTCTGATTTTGTCAAACTGTAATAGTTTAAAAGCT
1 AGATTCTAATTTTGTCAAACTGTAACAGTTTAAAAGCT
*
27071613 AGATTCTAATTTTGTCAAA-TCGTAACCGTTTAAAA
1 AGATTCTAATTTTGTCAAACT-GTAACAGTTTAAAA
27071648 ATATATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.03
38 30 0.97
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (38 bp):
AGATTCTAATTTTGTCAAACTGTAACAGTTTAAAAGCT
Found at i:27078385 original size:57 final size:57
Alignment explanation
Indices: 27078278--27078388 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
27078268 TATACTCAAT
* * ** * * *
27078278 AGAGCTTAGTCAGGATTACCAGTCCAAACTAAATCCTTTTTATGATATATGCTCTAA
1 AGAGCTTAATCAAGATTACCAGTCCAAACTAAATCCAATCTATAACATATGCTCTAA
*
27078335 AGAGCTTAATCAAGATTACCCA-TCCAGACTAAATCCAATCTATAACATATGCTC
1 AGAGCTTAATCAAGATTA-CCAGTCCAAACTAAATCCAATCTATAACATATGCTC
27078389 CAGAGGACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
57 42 0.93
58 3 0.07
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.30
Consensus pattern (57 bp):
AGAGCTTAATCAAGATTACCAGTCCAAACTAAATCCAATCTATAACATATGCTCTAA
Found at i:27078629 original size:17 final size:17
Alignment explanation
Indices: 27078607--27078639 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27078597 TTTTTATCAT
*
27078607 TTATTATTTATCGGGCA
1 TTATTATTAATCGGGCA
27078624 TTATTATTAATCGGGC
1 TTATTATTAATCGGGC
27078640 TTTGTCAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.45
Consensus pattern (17 bp):
TTATTATTAATCGGGCA
Found at i:27079835 original size:26 final size:25
Alignment explanation
Indices: 27079785--27079902 Score: 128
Period size: 26 Copynumber: 4.6 Consensus size: 25
27079775 GGGCCATCTG
* * *
27079785 ACCAACTTAAACTCTAGAGTTCTCCA
1 ACCAACTCAAACTCAAG-GTCCTCCA
* *
27079811 ACCCACTAAAACTCAAGTGTCCTCCA
1 ACCAACTCAAACTCAAG-GTCCTCCA
**
27079837 ACCAACTCAAACTCAAGGGTCCTCTG
1 ACCAACTCAAACTCAA-GGTCCTCCA
*
27079863 ACCAACTCAAACTCAAAGGTCCTCCG
1 ACCAACTCAAACTC-AAGGTCCTCCA
27079889 ACCAACTCAAACTC
1 ACCAACTCAAACTC
27079903 CCAAGGCTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 77 0.96
27 3 0.04
ACGTcount: A:0.35, C:0.36, G:0.09, T:0.19
Consensus pattern (25 bp):
ACCAACTCAAACTCAAGGTCCTCCA
Found at i:27090464 original size:11 final size:11
Alignment explanation
Indices: 27090448--27090477 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
27090438 TATCTTATAT
*
27090448 TAAAATAATAG
1 TAAAATAATAA
27090459 TAAAATAATAA
1 TAAAATAATAA
27090470 TAAAATAA
1 TAAAATAA
27090478 ACCTAACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:27091742 original size:16 final size:16
Alignment explanation
Indices: 27091721--27091768 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
27091711 ACCACCTATT
27091721 TATTTTAATATTTAAA
1 TATTTTAATATTTAAA
*
27091737 TATTTTAAATATTTTTAA
1 TATTTT-AATA-TTTAAA
27091755 T-TTTTAATAATTTA
1 TATTTTAAT-ATTTA
27091769 TTTGATAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 12 0.44
17 9 0.33
18 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTTAATATTTAAA
Found at i:27091759 original size:8 final size:9
Alignment explanation
Indices: 27091721--27091761 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
27091711 ACCACCTATT
27091721 TATTTT-AA
1 TATTTTAAA
27091729 TA-TTTAAA
1 TATTTTAAA
27091737 TATTTTAAA
1 TATTTTAAA
*
27091746 TATTTTTAA
1 TATTTTAAA
27091755 T-TTTTAA
1 TATTTTAA
27091762 TAATTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 3 0.10
8 11 0.38
9 15 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TATTTTAAA
Found at i:27094584 original size:17 final size:17
Alignment explanation
Indices: 27094562--27094595 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27094552 TCCGTTCAAG
27094562 CAAATAACATGAGAGGT
1 CAAATAACATGAGAGGT
27094579 CAAATAACATGAGAGGT
1 CAAATAACATGAGAGGT
27094596 TTTATATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.24, T:0.18
Consensus pattern (17 bp):
CAAATAACATGAGAGGT
Found at i:27099894 original size:6 final size:6
Alignment explanation
Indices: 27099883--27099933 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
27099873 CAGGCCCAGA
* * * *
27099883 AAAAAG AAAAAG AAAAAG --AAAG AAAAAG GAAAAC AAAAAC AAAAAC
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
27099929 AAAAA
1 AAAAA
27099934 AAAGGGTACA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
4 4 0.10
6 36 0.90
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:27099906 original size:16 final size:15
Alignment explanation
Indices: 27099882--27099937 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
27099872 GCAGGCCCAG
27099882 AAAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAA
27099897 AAAGAAAGAAAAAGGAAA
1 AAA-AAAGAAAAA-G-AA
* *
27099915 ACAAAAACAAAAACAA
1 A-AAAAAGAAAAAGAA
27099931 AAAAAAG
1 AAAAAAG
27099938 GGTACAAGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 8 0.24
16 12 0.35
17 1 0.03
18 11 0.32
19 2 0.06
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAGAA
Found at i:27099920 original size:28 final size:27
Alignment explanation
Indices: 27099884--27099938 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
27099874 AGGCCCAGAA
* * *
27099884 AAAAGAAAAAGAAAAAGAAAGAAAAAGG
1 AAAACAAAAACAAAAACAAA-AAAAAGG
27099912 AAAACAAAAACAAAAACAAAAAAAAGG
1 AAAACAAAAACAAAAACAAAAAAAAGG
27099939 GTACAAGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (27 bp):
AAAACAAAAACAAAAACAAAAAAAAGG
Found at i:27114062 original size:24 final size:24
Alignment explanation
Indices: 27114035--27114098 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
27114025 AAACCTAATT
* * *
27114035 CTAATCAATGTTAAATATATTATG
1 CTAATAAATGCTAAATATATTATA
27114059 CTAATAAATGCTAAATATATTATA
1 CTAATAAATGCTAAATATATTATA
*
27114083 CTAATAAATACTAAAT
1 CTAATAAATGCTAAAT
27114099 CTTCTAGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (24 bp):
CTAATAAATGCTAAATATATTATA
Found at i:27114223 original size:29 final size:29
Alignment explanation
Indices: 27114190--27114248 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
27114180 TTTGCTTTGA
* * *
27114190 CACGAATTCTCAACGAACAAGTTCTTCAC
1 CACGAACTCTCAACAAACAAGTTCTCCAC
27114219 CACGAACTCTCAACAAACAAGTTCTCCAC
1 CACGAACTCTCAACAAACAAGTTCTCCAC
27114248 C
1 C
27114249 TCTTCCAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.36, G:0.08, T:0.20
Consensus pattern (29 bp):
CACGAACTCTCAACAAACAAGTTCTCCAC
Found at i:27116779 original size:18 final size:18
Alignment explanation
Indices: 27116739--27116780 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
27116729 CCCATAACAC
27116739 AGCCCATGTGGGCCCATA
1 AGCCCATGTGGGCCCATA
* *
27116757 CGCCCGTGT-GGCCCAATA
1 AGCCCATGTGGGCCC-ATA
27116775 AGCCCA
1 AGCCCA
27116781 AAAATAACCT
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.14
Consensus pattern (18 bp):
AGCCCATGTGGGCCCATA
Found at i:27124927 original size:28 final size:28
Alignment explanation
Indices: 27124895--27124964 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
27124885 TATGGTACTC
*
27124895 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
27124923 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
27124951 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
27124965 CGAATGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:27131824 original size:42 final size:42
Alignment explanation
Indices: 27131777--27131970 Score: 131
Period size: 42 Copynumber: 4.5 Consensus size: 42
27131767 GCCCTAGACG
* *
27131777 TGGTCTTACATGGGATCTCACGTCGATGCCATATCCCAGATA
1 TGGTCTTACACGGGATCTCACGTCGATGCCATATCCCAAATA
* * ** * * *
27131819 TGGTCTTATAC-GAATTCTCATTTCGATGCCATGTCCTAAACA
1 TGGTCTTACACGGGA-TCTCACGTCGATGCCATATCCCAAATA
** * ** * *
27131861 TGGTCTTACACGAAATGTCATATCAATGCCTTATCCCAAATA
1 TGGTCTTACACGGGATCTCACGTCGATGCCATATCCCAAATA
* *
27131903 TGGTCTTACATGATGA-CTCATACTGATGCCGATGCCATATCCCAAATA
1 TGGTCTTACACG-GGATCTC--AC-G-T--CGATGCCATATCCCAAATA
*
27131951 TGGTCTTATACGGGATCTCA
1 TGGTCTTACACGGGATCTCA
27131971 TCAACCTAAT
Statistics
Matches: 113, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
41 2 0.02
42 73 0.65
43 3 0.03
44 1 0.01
46 2 0.02
47 2 0.02
48 30 0.27
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
TGGTCTTACACGGGATCTCACGTCGATGCCATATCCCAAATA
Found at i:27156642 original size:20 final size:21
Alignment explanation
Indices: 27156600--27156642 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27156590 GTTTCGATGA
*
27156600 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
27156621 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
27156641 TT
1 TT
27156643 TGTTTAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:27157383 original size:48 final size:48
Alignment explanation
Indices: 27157196--27157386 Score: 278
Period size: 48 Copynumber: 4.0 Consensus size: 48
27157186 CATTAGGGAA
27157196 TACATTGATTTGGCTTCGGGCCATGATATCGGCACTTC-GAGTGCGAGCT
1 TACATTGATTTGGCTTCGGGCCATGATATCGGCACTTCAG-GTGCGAG-T
* *
27157245 T-CATTGATTTGGCTTCGGGACATGATATCGGCACTTCAGGTGTGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAGT
* * *
27157292 TACATTGAATTGGCTTCAGGCCATGATATCGGCACTTCGGGTGCGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAGT
* * *
27157340 TATATTGATTTGGCTTCGGGCCATGATATTGGCACTTAAGGTGCGAG
1 TACATTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAG
27157387 AATCCTGAGT
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
47 2 0.02
48 123 0.97
49 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (48 bp):
TACATTGATTTGGCTTCGGGCCATGATATCGGCACTTCAGGTGCGAGT
Found at i:27165960 original size:89 final size:89
Alignment explanation
Indices: 27165859--27166084 Score: 443
Period size: 89 Copynumber: 2.5 Consensus size: 89
27165849 TAACATAACC
*
27165859 AATTCAAATATAATTCGCATGGCCTTTATACATAAACCAAAATACAGCATTCCAAAACATAGTCC
1 AATTCAAATATAATTCACATGGCCTTTATACATAAACCAAAATACAGCATTCCAAAACATAGTCC
27165924 AGCCTATACATGCCATAGTTCCAA
66 AGCCTATACATGCCATAGTTCCAA
27165948 AATTCAAATATAATTCACATGGCCTTTATACATAAACCAAAATACAGCATTCCAAAACATAGTCC
1 AATTCAAATATAATTCACATGGCCTTTATACATAAACCAAAATACAGCATTCCAAAACATAGTCC
27166013 AGCCTATACATGCCATAGTTCCAA
66 AGCCTATACATGCCATAGTTCCAA
27166037 AATTCAAATATAATTCACATGGCCTTTATACATAAACCAAAATACAGC
1 AATTCAAATATAATTCACATGGCCTTTATACATAAACCAAAATACAGC
27166085 TTATAAAATA
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 136 1.00
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (89 bp):
AATTCAAATATAATTCACATGGCCTTTATACATAAACCAAAATACAGCATTCCAAAACATAGTCC
AGCCTATACATGCCATAGTTCCAA
Found at i:27169966 original size:58 final size:60
Alignment explanation
Indices: 27169896--27170032 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 60
27169886 TTTCAACTAT
* * *
27169896 GATTAAATTTAATCACTTTAA-TATTAAATTAATATAAT-ATT-TGTA-AAGATAAATATTA
1 GATTAAATTTAAT-A-TTAAACTATTAAATTAATAGAATAATTGTCTACAAGATAAATATTA
*
27169954 GATTAAATTTAATATTAAATCTATTAAATTAATAGAATAATTGTCTACAATATAAATATTA
1 GATTAAATTTAATATTAAA-CTATTAAATTAATAGAATAATTGTCTACAAGATAAATATTA
*
27170015 AATTAAATTTAATATTAA
1 GATTAAATTTAATATTAA
27170033 GATAATCACT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
56 4 0.06
57 1 0.01
58 29 0.42
59 3 0.04
60 3 0.04
61 29 0.42
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (60 bp):
GATTAAATTTAATATTAAACTATTAAATTAATAGAATAATTGTCTACAAGATAAATATTA
Found at i:27170024 original size:61 final size:58
Alignment explanation
Indices: 27169917--27170032 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
27169907 ATCACTTTAA
* * *
27169917 TATTAAATTAATATAATATTTGTAAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATATTTCTAAAGATAAATATTAAATTAAATTTAATATTAAATC
*
27169975 TATTAAATTAATAGAATAATTGTCTACAATATAAATATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAAT-ATT-TCTA-AAGATAAATATTAAATTAAATTTAATATTAA
27170033 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 16 0.31
59 3 0.06
60 3 0.06
61 29 0.57
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (58 bp):
TATTAAATTAATAGAATATTTCTAAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:27170058 original size:20 final size:18
Alignment explanation
Indices: 27170008--27170059 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
27169998 CTACAATATA
27170008 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
27170025 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
27170045 AATATTAAATTAATA
1 AATATTAAATTAATA
27170060 ATATACTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:27179745 original size:24 final size:24
Alignment explanation
Indices: 27179716--27179763 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
27179706 TGAACATTTA
27179716 TTCCAGCAACTAATTAACTAAAAG
1 TTCCAGCAACTAATTAACTAAAAG
27179740 TTCCAGCAACTAATTAACTAAAAG
1 TTCCAGCAACTAATTAACTAAAAG
27179764 GGGTGTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.25
Consensus pattern (24 bp):
TTCCAGCAACTAATTAACTAAAAG
Found at i:27181369 original size:12 final size:12
Alignment explanation
Indices: 27181352--27181376 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27181342 TCACTATCTT
27181352 TTTCTTTTTCAC
1 TTTCTTTTTCAC
27181364 TTTCTTTTTCAC
1 TTTCTTTTTCAC
27181376 T
1 T
27181377 CTCAATCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTCTTTTTCAC
Found at i:27181369 original size:18 final size:20
Alignment explanation
Indices: 27181330--27181374 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
27181320 CTTTATCTCT
27181330 TTTTTCATTTTCTCACTATC
1 TTTTTCATTTTCTCACTATC
*
27181350 TTTTTC-TTTT-TCACTTTC
1 TTTTTCATTTTCTCACTATC
27181368 TTTTTCA
1 TTTTTCA
27181375 CTCTCAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 13 0.57
19 4 0.17
20 6 0.26
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTCATTTTCTCACTATC
Found at i:27183806 original size:40 final size:40
Alignment explanation
Indices: 27183751--27183858 Score: 180
Period size: 40 Copynumber: 2.7 Consensus size: 40
27183741 ATGTAATAAA
*
27183751 AATAAAGTCCAGCAAATCAATAATTAACTAAGATGAGTTT
1 AATAAAGTCCAGCAAATCAATAATTAAATAAGATGAGTTT
27183791 AATAAAGTCCAGCAAATCAATAATTAAATAAGATGAGTTT
1 AATAAAGTCCAGCAAATCAATAATTAAATAAGATGAGTTT
* * *
27183831 AATAAAGTCTAGCAACTCAATTATTAAA
1 AATAAAGTCCAGCAAATCAATAATTAAA
27183859 CCAAAATTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (40 bp):
AATAAAGTCCAGCAAATCAATAATTAAATAAGATGAGTTT
Found at i:27186408 original size:66 final size:69
Alignment explanation
Indices: 27186319--27186448 Score: 167
Period size: 66 Copynumber: 1.9 Consensus size: 69
27186309 CACATAGTGA
* * *
27186319 CACTTAGTACCACCCATGTGACCTAGCCA-ATTTA-TCT-CATAGCTCTCTTGTCTACATGGTGT
1 CACTTAGAACCACACATGCGACCTAGCCACATTTACTCTCCATAGCTCTCTTGTCTACATGGTGT
27186381 CCTT
66 CCTT
* * *
27186385 CACTTAGAATCACACATGCGACCTAGCTACATTTATCTCTCCCGTAGCTCTCTTGTCTACATGG
1 CACTTAGAACCACACATGCGACCTAGCCACATTTA-CTCT-CCATAGCTCTCTTGTCTACATGG
27186449 GATACATCCC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
66 24 0.45
67 5 0.09
69 3 0.06
71 21 0.40
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (69 bp):
CACTTAGAACCACACATGCGACCTAGCCACATTTACTCTCCATAGCTCTCTTGTCTACATGGTGT
CCTT
Found at i:27198238 original size:44 final size:43
Alignment explanation
Indices: 27198176--27198314 Score: 149
Period size: 42 Copynumber: 3.2 Consensus size: 43
27198166 TGTGTTTTCG
* * ** *
27198176 TGTAAGACCACGTTTGGGATTTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-TATATGA-TTACA
*
27198220 TGTAAGACCATGTCTGGGACATCGGCATCG-TATATGAGTT-CA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATATGA-TTACA
* * *
27198262 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTACA
27198305 TGTAAGACCA
1 TGTAAGACCA
27198315 CGTGTGAGGC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 31 0.39
43 24 0.30
44 25 0.31
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTACA
Found at i:27202846 original size:26 final size:26
Alignment explanation
Indices: 27202816--27202878 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
27202806 TTCTACCGCC
** *
27202816 AGTAAAATTTTGATGATTTTACCCTT
1 AGTAAAATTTTGACAATTTTACCCCT
* *
27202842 GGTAAATTTTTTGACAATTTTACCCCT
1 AGTAAA-ATTTTGACAATTTTACCCCT
27202869 AGTAAAATTT
1 AGTAAAATTT
27202879 CGAGAAAATA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (26 bp):
AGTAAAATTTTGACAATTTTACCCCT
Found at i:27206316 original size:82 final size:82
Alignment explanation
Indices: 27206179--27206339 Score: 277
Period size: 82 Copynumber: 2.0 Consensus size: 82
27206169 TACTAATTAT
* * *
27206179 ATCTATAAATGTCGAAGTTAGAATTAGTTTAGTTTCGTCTCCCTTGGGAACAATCCTCGAACTAC
1 ATCTATAAACGTCGAAGTTAGAATTAGTTTAGTTTCATCTCCCTTAGGAACAATCCTCGAACTAC
27206244 TCCAATACTTCATTTAG
66 TCCAATACTTCATTTAG
* *
27206261 ATCTATTAACGTCGAAGTTAGAATTAGTTTAGTTTCATCTCCCTTAGGAACAATCCTCGGACTAC
1 ATCTATAAACGTCGAAGTTAGAATTAGTTTAGTTTCATCTCCCTTAGGAACAATCCTCGAACTAC
27206326 TCCAATACTTCATT
66 TCCAATACTTCATT
27206340 GTATAAATCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 74 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
ATCTATAAACGTCGAAGTTAGAATTAGTTTAGTTTCATCTCCCTTAGGAACAATCCTCGAACTAC
TCCAATACTTCATTTAG
Found at i:27207887 original size:26 final size:25
Alignment explanation
Indices: 27207858--27207914 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
27207848 TACCTCCAGC
*
27207858 AAAATTTTAACGATTTTACCCATGGT
1 AAAATTTTAACAATTTTACCC-TGGT
* * *
27207884 AAAATTTTCATAATTTTTCCCTGGT
1 AAAATTTTAACAATTTTACCCTGGT
27207909 AAAATT
1 AAAATT
27207915 GCAAGAATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (25 bp):
AAAATTTTAACAATTTTACCCTGGT
Found at i:27227787 original size:22 final size:23
Alignment explanation
Indices: 27227761--27227838 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 23
27227751 TAGTGCTTGT
27227761 TAATT-TATTAAATTATATGTTA
1 TAATTATATTAAATTATATGTTA
*
27227783 TAATTATGTTATAA-T-TATGTTA
1 TAATTATATTA-AATTATATGTTA
*
27227805 TAATTATGTTAAATTATA-GTTA
1 TAATTATATTAAATTATATGTTA
*
27227827 -AAATATATTAAA
1 TAATTATATTAAA
27227839 ACATAAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 12 0.24
22 28 0.57
23 7 0.14
24 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (23 bp):
TAATTATATTAAATTATATGTTA
Found at i:27227792 original size:11 final size:11
Alignment explanation
Indices: 27227776--27227826 Score: 86
Period size: 11 Copynumber: 4.6 Consensus size: 11
27227766 TATTAAATTA
27227776 TATGTTATAAT
1 TATGTTATAAT
27227787 TATGTTATAAT
1 TATGTTATAAT
27227798 TATGTTATAAT
1 TATGTTATAAT
27227809 TATGTTA-AAT
1 TATGTTATAAT
27227819 TATAGTTA
1 TAT-GTTA
27227827 AAATATATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.15
11 33 0.85
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (11 bp):
TATGTTATAAT
Found at i:27227827 original size:11 final size:10
Alignment explanation
Indices: 27227776--27227838 Score: 72
Period size: 11 Copynumber: 5.9 Consensus size: 10
27227766 TATTAAATTA
27227776 TATGTTATAAT
1 TATGTTA-AAT
27227787 TATGTTATAAT
1 TATGTTA-AAT
27227798 TATGTTATAAT
1 TATGTTA-AAT
27227809 TATGTTAAAT
1 TATGTTAAAT
*
27227819 TATAGTTAAAA
1 TAT-GTTAAAT
*
27227830 TATATTAAA
1 TATGTTAAA
27227839 ACATAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
10 11 0.22
11 38 0.78
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (10 bp):
TATGTTAAAT
Found at i:27244817 original size:22 final size:23
Alignment explanation
Indices: 27244791--27244868 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 23
27244781 TAGTGCTTGT
27244791 TAATT-TATTAAATTATATGTTA
1 TAATTATATTAAATTATATGTTA
*
27244813 TAATTATGTTATAA-T-TATGTTA
1 TAATTATATTA-AATTATATGTTA
*
27244835 TAATTATGTTAAATTATA-GTTA
1 TAATTATATTAAATTATATGTTA
*
27244857 -AAATATATTAAA
1 TAATTATATTAAA
27244869 ACATAAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 12 0.24
22 28 0.57
23 7 0.14
24 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (23 bp):
TAATTATATTAAATTATATGTTA
Found at i:27244822 original size:11 final size:11
Alignment explanation
Indices: 27244806--27244856 Score: 86
Period size: 11 Copynumber: 4.6 Consensus size: 11
27244796 TATTAAATTA
27244806 TATGTTATAAT
1 TATGTTATAAT
27244817 TATGTTATAAT
1 TATGTTATAAT
27244828 TATGTTATAAT
1 TATGTTATAAT
27244839 TATGTTA-AAT
1 TATGTTATAAT
27244849 TATAGTTA
1 TAT-GTTA
27244857 AAATATATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.15
11 33 0.85
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (11 bp):
TATGTTATAAT
Found at i:27244857 original size:11 final size:10
Alignment explanation
Indices: 27244806--27244868 Score: 72
Period size: 11 Copynumber: 5.9 Consensus size: 10
27244796 TATTAAATTA
27244806 TATGTTATAAT
1 TATGTTA-AAT
27244817 TATGTTATAAT
1 TATGTTA-AAT
27244828 TATGTTATAAT
1 TATGTTA-AAT
27244839 TATGTTAAAT
1 TATGTTAAAT
*
27244849 TATAGTTAAAA
1 TAT-GTTAAAT
*
27244860 TATATTAAA
1 TATGTTAAA
27244869 ACATAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
10 11 0.22
11 38 0.78
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (10 bp):
TATGTTAAAT
Found at i:27247962 original size:50 final size:49
Alignment explanation
Indices: 27247901--27248055 Score: 188
Period size: 50 Copynumber: 3.1 Consensus size: 49
27247891 ACAAGTTGTG
* *
27247901 AATCGGTATGCTCATT-TGAGT-TGAAGATCGGTATGCTCTCACGAGTTATA
1 AATCGGTATGCTC-TTATGAGTAT-AA-ATCGGTATGCTCTTACGAGCTATA
* * *
27247951 AATCAGTATGCTCTTATGATCTATAAATCAGTATGCTCTTACGAGCTATA
1 AATCGGTATGCTCTTATGA-GTATAAATCGGTATGCTCTTACGAGCTATA
* *
27248001 AATCGGTATGCTCTTCTGAGCTATAAATGGGTATGCTCTTACGAGCTATA
1 AATCGGTATGCTCTTATGAG-TATAAATCGGTATGCTCTTACGAGCTATA
27248051 AATCG
1 AATCG
27248056 ATAACCCTAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
49 2 0.02
50 85 0.93
51 3 0.03
52 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (49 bp):
AATCGGTATGCTCTTATGAGTATAAATCGGTATGCTCTTACGAGCTATA
Found at i:27247975 original size:25 final size:25
Alignment explanation
Indices: 27247931--27248054 Score: 169
Period size: 25 Copynumber: 5.0 Consensus size: 25
27247921 TTGAAGATCG
* *
27247931 GTATGCTCTCACGAGTTATAAATCA
1 GTATGCTCTTACGAGCTATAAATCA
* *
27247956 GTATGCTCTTATGATCTATAAATCA
1 GTATGCTCTTACGAGCTATAAATCA
*
27247981 GTATGCTCTTACGAGCTATAAATCG
1 GTATGCTCTTACGAGCTATAAATCA
**
27248006 GTATGCTCTT-CTGAGCTATAAATGG
1 GTATGCTCTTAC-GAGCTATAAATCA
27248031 GTATGCTCTTACGAGCTATAAATC
1 GTATGCTCTTACGAGCTATAAATC
27248055 GATAACCCTA
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.01
25 86 0.98
26 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (25 bp):
GTATGCTCTTACGAGCTATAAATCA
Found at i:27249765 original size:34 final size:33
Alignment explanation
Indices: 27249722--27249805 Score: 114
Period size: 34 Copynumber: 2.5 Consensus size: 33
27249712 TGACAATGTG
* *
27249722 CGAGTTGTGTTTATATGCTAGCTATTTTTATAT
1 CGAGTTGTGTTTATATGCAAGCTATGTTTATAT
*
27249755 CCGAGTTGTGTTTACATGCAAGCTATGTTTATAT
1 -CGAGTTGTGTTTATATGCAAGCTATGTTTATAT
**
27249789 ATAGTTGTGTTTATATG
1 CGAGTTGTGTTTATATG
27249806 TGAGCTAGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 14 0.32
34 30 0.68
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.48
Consensus pattern (33 bp):
CGAGTTGTGTTTATATGCAAGCTATGTTTATAT
Found at i:27249768 original size:17 final size:17
Alignment explanation
Indices: 27249720--27249805 Score: 66
Period size: 17 Copynumber: 5.1 Consensus size: 17
27249710 TATGACAATG
27249720 TGCGAGTTGTGTTTATA
1 TGCGAGTTGTGTTTATA
* * * *
27249737 TGCTAGCTATTTTTATA
1 TGCGAGTTGTGTTTATA
* *
27249754 TCCGAGTTGTGTTTACA
1 TGCGAGTTGTGTTTATA
* * *
27249771 TGCAAGCTATGTTTATA
1 TGCGAGTTGTGTTTATA
**
27249788 T-ATAGTTGTGTTTATA
1 TGCGAGTTGTGTTTATA
27249804 TG
1 TG
27249806 TGAGCTAGCT
Statistics
Matches: 49, Mismatches: 19, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
16 12 0.24
17 37 0.76
ACGTcount: A:0.22, C:0.09, G:0.21, T:0.48
Consensus pattern (17 bp):
TGCGAGTTGTGTTTATA
Found at i:27253696 original size:28 final size:29
Alignment explanation
Indices: 27253656--27253720 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
27253646 GAATCAATTG
*
27253656 TTATATATTTATAT-TTTTG-TATTTTTTAT
1 TTATA-ATATATATGTTTTGAT-TTTTTTAT
*
27253685 TTTTAATATATATGTTTTGATTTTTTTAT
1 TTATAATATATATGTTTTGATTTTTTTAT
27253714 TTATAAT
1 TTATAAT
27253721 TTATGTACAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 7 0.23
29 23 0.74
30 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (29 bp):
TTATAATATATATGTTTTGATTTTTTTAT
Found at i:27260869 original size:58 final size:57
Alignment explanation
Indices: 27260806--27260970 Score: 172
Period size: 58 Copynumber: 2.9 Consensus size: 57
27260796 TTTTTATACT
* * * *
27260806 ATTATATATTATGATTT-TTTAATT-CATTTAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTAAATTACATTTAATAATAATCATATTAA-AATATGATTAA
* * *
27260864 ATTATATATTATTTTATTAAATTATATTTAGTAATAATCATGTTAAAATATGATTAA
1 ATTATATATTATTTTATTAAATTACATTTAATAATAATCATATTAAAATATGATTAA
* * ** *
27260921 ATTATTTATTATTTTTATTAAAATATTTTTAATAATAATCTTATTAAAAT
1 ATTATATATTA-TTTTATTAAATTACATTTAATAATAATCATATTAAAAT
27260971 TTAATAATAA
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
56 3 0.03
57 25 0.27
58 63 0.69
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (57 bp):
ATTATATATTATTTTATTAAATTACATTTAATAATAATCATATTAAAATATGATTAA
Found at i:27261168 original size:12 final size:11
Alignment explanation
Indices: 27261104--27261169 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 11
27261094 AATAATAATT
27261104 TTATATTAAAA
1 TTATATTAAAA
27261115 TTATTATT-AAA
1 TTA-TATTAAAA
27261126 -TATTATTAATAA
1 TTA-TATTAA-AA
27261138 TTATATTAATAA
1 TTATATTAA-AA
27261150 TGT-TATTAAAA
1 T-TATATTAAAA
27261161 TATATATTA
1 T-TATATTA
27261170 TTTTATTAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
10 7 0.15
11 11 0.23
12 27 0.56
13 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (11 bp):
TTATATTAAAA
Found at i:27261205 original size:46 final size:47
Alignment explanation
Indices: 27261092--27261221 Score: 114
Period size: 46 Copynumber: 2.8 Consensus size: 47
27261082 TGAAATGTTC
27261092 TTAATAATAATTTTATATTAAAATTATTATTAAATATTATTAATAATTATA
1 TTAATAATAA--TTAT-TTAAAATTATTATT-AATATTATTAATAATTATA
* *
27261143 TTAATAAT-GTTA-TTAAAA-TATATATT-ATTTTATT-A-AATTATA
1 TTAATAATAATTATTTAAAATTAT-TATTAATATTATTAATAATTATA
*
27261185 TTTAATAATAATTATGTTAAAATT-TGATTAA-ATTATT
1 -TTAATAATAATTAT-TTAAAATTATTATTAATATTATT
27261222 TATTTTCATT
Statistics
Matches: 67, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
42 7 0.10
43 9 0.13
44 10 0.15
45 11 0.16
46 18 0.27
47 1 0.01
48 3 0.04
51 8 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (47 bp):
TTAATAATAATTATTTAAAATTATTATTAATATTATTAATAATTATA
Found at i:27261450 original size:16 final size:16
Alignment explanation
Indices: 27261429--27261483 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
27261419 TTAATTACTG
27261429 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
27261445 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
* *
27261461 ATTACAGCCCTATTAC
1 ATTACAGCTCTATTCC
27261477 ATTACAG
1 ATTACAG
27261484 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:27264320 original size:68 final size:68
Alignment explanation
Indices: 27264211--27264342 Score: 264
Period size: 68 Copynumber: 1.9 Consensus size: 68
27264201 ACAACTCACA
27264211 AACTCCAAGAGCCATCGCCCTAAATTCAGCTTCTGCACTAGATCTAGCCACAACATTTTTTTTTT
1 AACTCCAAGAGCCATCGCCCTAAATTCAGCTTCTGCACTAGATCTAGCCACAACATTTTTTTTTT
27264276 ACT
66 ACT
27264279 AACTCCAAGAGCCATCGCCCTAAATTCAGCTTCTGCACTAGATCTAGCCACAACATTTTTTTTT
1 AACTCCAAGAGCCATCGCCCTAAATTCAGCTTCTGCACTAGATCTAGCCACAACATTTTTTTTT
27264343 AACTCCTCCA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.32
Consensus pattern (68 bp):
AACTCCAAGAGCCATCGCCCTAAATTCAGCTTCTGCACTAGATCTAGCCACAACATTTTTTTTTT
ACT
Found at i:27264801 original size:67 final size:67
Alignment explanation
Indices: 27264693--27264823 Score: 262
Period size: 67 Copynumber: 2.0 Consensus size: 67
27264683 CGTGGTTCAC
27264693 CTCTATGGGTGTCTCTGCTGGTTTACAGCCCAACTTGCCCGTTTCTGTCAACAAATCAACTATGC
1 CTCTATGGGTGTCTCTGCTGGTTTACAGCCCAACTTGCCCGTTTCTGTCAACAAATCAACTATGC
27264758 AT
66 AT
27264760 CTCTATGGGTGTCTCTGCTGGTTTACAGCCCAACTTGCCCGTTTCTGTCAACAAATCAACTATG
1 CTCTATGGGTGTCTCTGCTGGTTTACAGCCCAACTTGCCCGTTTCTGTCAACAAATCAACTATG
27264824 TATTTTTGTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (67 bp):
CTCTATGGGTGTCTCTGCTGGTTTACAGCCCAACTTGCCCGTTTCTGTCAACAAATCAACTATGC
AT
Found at i:27265968 original size:33 final size:33
Alignment explanation
Indices: 27265930--27266028 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
27265920 GACTAAGTGG
* * *
27265930 GAGTGTTTGGTTGTTGGACAGGAGTTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
27265963 GAGTGTTTTGTTGCTGGACAAGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
27265996 GGGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
27266029 CAAGAAGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.18, C:0.07, G:0.40, T:0.34
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:27275110 original size:20 final size:21
Alignment explanation
Indices: 27275044--27275112 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
27275034 TCACTTTGTT
27275044 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
27275065 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
27275086 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
27275107 -CTTTTT
1 TCTTTTT
27275113 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:27276852 original size:16 final size:16
Alignment explanation
Indices: 27276833--27276863 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27276823 TAATAAGGAT
27276833 AATATAATAAGTATAA
1 AATATAATAAGTATAA
*
27276849 AATATATTAAGTATA
1 AATATAATAAGTATA
27276864 TAATTAGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
AATATAATAAGTATAA
Found at i:27276896 original size:12 final size:12
Alignment explanation
Indices: 27276881--27276911 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
27276871 TTATATAACG
27276881 CATATTTTCTTT
1 CATATTTTCTTT
27276893 CATATTTTCTTT
1 CATATTTTCTTT
27276905 CTATATT
1 C-ATATT
27276912 ATTATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (12 bp):
CATATTTTCTTT
Found at i:27276929 original size:17 final size:18
Alignment explanation
Indices: 27276907--27276974 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 18
27276897 TTTTCTTTCT
27276907 ATATTATTATATTATT-A
1 ATATTATTATATTATTAA
27276924 ATATTATTTATATATTATTAA
1 ATATTA--T-TATATTATTAA
27276945 ATATTATTA-ATATATTTAA
1 ATATTATTATAT-TA-TTAA
27276964 AT-TTA-TATATT
1 ATATTATTATATT
27276975 TAAATTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
17 11 0.25
18 9 0.20
19 8 0.18
20 9 0.20
21 7 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTATTATATTATTAA
Done.