Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 48 of 325
Found at i:14375174 original size:49 final size:50
Alignment explanation
Indices: 14375073--14375192 Score: 188
Period size: 49 Copynumber: 2.4 Consensus size: 50
14375063 TGGTTCTCTG
* *
14375073 GAGCTTTCCGTTACATGGCTCACATAAGCTTTCCATTACATGGCTCATAT
1 GAGCTTCCCGTTACATGGCTCACATAAGCTTTCCATTACATGGCTCACAT
* *
14375123 GAGCTTCCCATTACATGGCTCACATGAG-TTTCCATTACATGGCTCACAT
1 GAGCTTCCCGTTACATGGCTCACATAAGCTTTCCATTACATGGCTCACAT
*
14375172 GAGCTTCCCGTTATATGGCTC
1 GAGCTTCCCGTTACATGGCTC
14375193 GAAAGAGCTT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
49 39 0.61
50 25 0.39
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.33
Consensus pattern (50 bp):
GAGCTTCCCGTTACATGGCTCACATAAGCTTTCCATTACATGGCTCACAT
Found at i:14375200 original size:25 final size:25
Alignment explanation
Indices: 14375172--14375230 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
14375162 TGGCTCACAT
14375172 GAGCTTCCCGTTATATG-GCTCGAAA
1 GAGCTTCCCGTT-TATGTGCTCGAAA
* * *
14375197 GAGCTTCCTGTTTATGTTCTCGTAA
1 GAGCTTCCCGTTTATGTGCTCGAAA
14375222 GAGCATTCC
1 GAGC-TTCC
14375231 TAAATATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 21 0.72
26 4 0.14
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTTATGTGCTCGAAA
Found at i:14387822 original size:19 final size:20
Alignment explanation
Indices: 14387798--14387835 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
14387788 GGTACCACCG
14387798 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
14387817 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
14387836 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:14388231 original size:46 final size:47
Alignment explanation
Indices: 14388060--14388232 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 47
14388050 AACCCGCCCC
* * * *
14388060 TAAGTGAACTCAGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
* * *
14388106 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-ATTTGCATCCA
* * *
14388154 TCA-CGAACTAGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
14388199 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
14388233 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.53
47 30 0.29
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
Found at i:14388251 original size:46 final size:45
Alignment explanation
Indices: 14388110--14388251 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
14388100 CATCCATAAA
14388110 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * *
14388157 CGAACTAGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
14388203 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
14388249 TGA
1 TGA
14388252 CATGTCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.42
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:14389827 original size:24 final size:25
Alignment explanation
Indices: 14389781--14389830 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
14389771 TCTTATCATG
* *
14389781 TCAATATCCATTTTCATGCATTTCA
1 TCAATAGCCATTTTCATACATTTCA
*
14389806 TCAATAGCCA-TTTCATATATTTCA
1 TCAATAGCCATTTTCATACATTTCA
14389830 T
1 T
14389831 TTCTATATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (25 bp):
TCAATAGCCATTTTCATACATTTCA
Found at i:14390623 original size:18 final size:17
Alignment explanation
Indices: 14390602--14390677 Score: 82
Period size: 17 Copynumber: 4.4 Consensus size: 17
14390592 ACATTTGAAA
*
14390602 TCACTTTCAATGTCAATT
1 TCACTTTCAAT-TCAAAT
14390620 TCACTTTCAATTCAAAT
1 TCACTTTCAATTCAAAT
**
14390637 TCAAAATTCAATTC-AAT
1 TC-ACTTTCAATTCAAAT
* *
14390654 TCTCATTCAATTCAAAT
1 TCACTTTCAATTCAAAT
14390671 TCACTTT
1 TCACTTT
14390678 TCCACTTTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
16 9 0.18
17 20 0.41
18 20 0.41
ACGTcount: A:0.34, C:0.22, G:0.01, T:0.42
Consensus pattern (17 bp):
TCACTTTCAATTCAAAT
Found at i:14390639 original size:11 final size:11
Alignment explanation
Indices: 14390625--14390673 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
14390615 CAATTTCACT
14390625 TTCAATTCAAA
1 TTCAATTCAAA
14390636 TTCAAAATTC-AA
1 TTC--AATTCAAA
**
14390648 TTCAATTCTCA
1 TTCAATTCAAA
14390659 TTCAATTCAAA
1 TTCAATTCAAA
14390670 TTCA
1 TTCA
14390674 CTTTTCCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 5 0.16
11 17 0.53
12 5 0.16
13 5 0.16
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (11 bp):
TTCAATTCAAA
Found at i:14390997 original size:70 final size:76
Alignment explanation
Indices: 14390842--14391017 Score: 195
Period size: 70 Copynumber: 2.3 Consensus size: 76
14390832 TTTCCAATCA
* * *
14390842 AATTCAAATCACTAATTACTTTTCAATCAATATACATTTCAAATACTCACATATTTTCTTCACTC
1 AATTCAAATCACT-ATTAATTTCCAATCAATATACATTTCAAATACTCACATA---TATTCACTC
14390907 AATTCAATTTGATTC
62 AATTCAATTTGATTC
* * *
14390922 AATTCAAATCACTCTTAGTTTCCAATCAATATAC-TTTCAAATATTCACATA-ATTCA-T-AATT
1 AATTCAAATCACTATTAATTTCCAATCAATATACATTTCAAATACTCACATATATTCACTCAATT
14390983 CAA-TT-ACTT-
66 CAATTTGA-TTC
*
14390992 AATTCAAATCACTTTTAATTTCCAAT
1 AATTCAAATCACTATTAATTTCCAAT
14391018 TTGTTCACGT
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
70 25 0.28
71 4 0.05
72 7 0.08
73 1 0.01
74 4 0.05
78 16 0.18
79 18 0.20
80 13 0.15
ACGTcount: A:0.38, C:0.20, G:0.01, T:0.41
Consensus pattern (76 bp):
AATTCAAATCACTATTAATTTCCAATCAATATACATTTCAAATACTCACATATATTCACTCAATT
CAATTTGATTC
Found at i:14391338 original size:30 final size:30
Alignment explanation
Indices: 14391287--14391345 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14391277 ATTAATACAA
*
14391287 TATTAATTTTTATCTATTAAATTGAATTTC
1 TATTAATTTTTATCTATTAAATTCAATTTC
14391317 TATTCAATTTTCTA-CT-TTAAATTCAATTT
1 TATT-AATTTT-TATCTATTAAATTCAATTT
14391346 AATCTTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 16 0.62
31 8 0.31
32 2 0.08
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (30 bp):
TATTAATTTTTATCTATTAAATTCAATTTC
Found at i:14391861 original size:3 final size:3
Alignment explanation
Indices: 14391843--14391894 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
14391833 ATATGTTTGT
* * *
14391843 TAA TAA TAT TAG TAA TAA TAA TACA TTA TAA TAA TAA T-A TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
14391887 TAA TAA TA
1 TAA TAA TA
14391895 TTTAATTCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.85
4 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:14391876 original size:16 final size:16
Alignment explanation
Indices: 14391850--14391894 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
14391840 TGTTAATAAT
14391850 ATTAGTAATAATAATAC
1 ATTA-TAATAATAATAC
*
14391867 ATTATAATAATAATAT
1 ATTATAATAATAATAC
*
14391883 AATATAATAATA
1 ATTATAATAATA
14391895 TTTAATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 22 0.85
17 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (16 bp):
ATTATAATAATAATAC
Found at i:14392406 original size:12 final size:12
Alignment explanation
Indices: 14392348--14392410 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
14392338 TTTTTATTTC
14392348 ATAA-TATAATA
1 ATAATTATAATA
14392359 AT-ATTAATAATA
1 ATAATT-ATAATA
*
14392371 ATATTTA-AATAA
1 ATAATTATAAT-A
* **
14392383 AAAACCATAATA
1 ATAATTATAATA
14392395 ATAATTATAATA
1 ATAATTATAATA
14392407 ATAA
1 ATAA
14392411 ATTGATAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
10 1 0.03
11 6 0.15
12 27 0.69
13 5 0.13
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATTATAATA
Found at i:14393036 original size:2 final size:2
Alignment explanation
Indices: 14393029--14393060 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14393019 AGACCATTTG
*
14393029 CA CA CA CA CA CA CA CA CA CA CA CA CT CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
14393061 GAGACATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.50, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:14395544 original size:14 final size:14
Alignment explanation
Indices: 14395527--14395556 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14395517 TGAGAGCCAG
14395527 TGTAAGACCATGTT
1 TGTAAGACCATGTT
14395541 TGTAAGACCATGTT
1 TGTAAGACCATGTT
14395555 TG
1 TG
14395557 GAACATGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (14 bp):
TGTAAGACCATGTT
Found at i:14395555 original size:62 final size:62
Alignment explanation
Indices: 14395479--14395603 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
14395469 TGTGTGCTAG
*
14395479 TGTAAGACCATGTTTGGAACATGGCATCGGCCATATTATGAGAGCCAGTGTAAGACCATGTT
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
14395541 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
14395603 T
1 T
14395604 TGAACATAGC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (62 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
Found at i:14395616 original size:48 final size:48
Alignment explanation
Indices: 14395541--14395857 Score: 306
Period size: 48 Copynumber: 6.6 Consensus size: 48
14395531 AGACCATGTT
14395541 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
* * * *
14395589 TGTAAGACCATGTTTTGAACATAGCATCAGCCACATTATGAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
* **
14395637 TGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATG-GA-CCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCC-AG
* * * **
14395684 TGTAAGACCATGTTTGCAACATGACATC-GCAATGTTATGAGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
* * * *
14395731 TGTAAGACCATGTCTGGGACATGGCATTGG---CATTGAGGTGAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATT-A--TGAGAGCCAG
* * * * * * * *
14395779 TGTAAAACCATGTCTGGGACATAGCGTCGGCCACGA-CATGTGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCAC-ATTATGAGAGCCAG
* *
14395827 TGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTAAGACCATGTTTGGAACATGGCATCGGC
14395858 AATTTACCCT
Statistics
Matches: 228, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
45 2 0.01
46 13 0.06
47 57 0.25
48 153 0.67
50 1 0.00
51 1 0.00
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
Found at i:14395809 original size:142 final size:143
Alignment explanation
Indices: 14395541--14395859 Score: 349
Period size: 142 Copynumber: 2.2 Consensus size: 143
14395531 AGACCATGTT
* * * * *
14395541 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTTG
1 TGTAAGACCATGTTTGCAACATGACATCGGCAACATTATGAGAGCCAGTGTAAGACCATGTCTGG
* * * *
14395606 AACATAGCATCAGCCACATTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAAT
66 AACATAGCATCAG-CACATTATGAGAGCTAGTGTAAAACCATGTCTGGAACATAGCATCGGCAAC
**
14395671 GTTATG-GACCTAG
130 GACATGTGACCTAG
**
14395684 TGTAAGACCATGTTTGCAACATGACATC-GCAATGTTATGAGAGCCAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTTTGCAACATGACATCGGCAACATTATGAGAGCCAGTGTAAGACCATGTCTGG
* * * * * * *
14395748 GACATGGCAT-TG-GCATTGAGGTGAGAGCTAGTGTAAAACCATGTCTGGGACATAGCGTCGGCC
66 AACATAGCATCAGCACATT-A--TGAGAGCTAGTGTAAAACCATGTCTGGAACATAGCATCGGCA
*
14395811 ACGACATGTGAGCTAG
128 ACGACATGTGACCTAG
* ** *
14395827 TGTAAGACCATGTCTGGGACATGGCATCGGCAA
1 TGTAAGACCATGTTTGCAACATGACATCGGCAA
14395860 TTTACCCTCT
Statistics
Matches: 146, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
139 4 0.03
140 1 0.01
141 1 0.01
142 80 0.55
143 56 0.38
144 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (143 bp):
TGTAAGACCATGTTTGCAACATGACATCGGCAACATTATGAGAGCCAGTGTAAGACCATGTCTGG
AACATAGCATCAGCACATTATGAGAGCTAGTGTAAAACCATGTCTGGAACATAGCATCGGCAACG
ACATGTGACCTAG
Found at i:14398038 original size:43 final size:41
Alignment explanation
Indices: 14397990--14398144 Score: 170
Period size: 43 Copynumber: 3.7 Consensus size: 41
14397980 TGTTTTCTCA
* *
14397990 TGTAAGACCACATCTGGGATGTTGGCATTCATATGTGATTACG
1 TGTAAGACCACGTCTGGGAAGTTGGCA-TCATATGTGATT-CG
* * * *
14398033 TGTAAGACCATGTCTGGGAAATTGGCATCGTATTTGATTCG
1 TGTAAGACCACGTCTGGGAAGTTGGCATCATATGTGATTCG
*
14398074 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTGCA
1 TGTAAGACCAC-GTCTGGGA-AGTTGGCATC-ATATGTGATT-CG
*
14398117 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGAAGTTGGCAT
14398145 TGTATGATAT
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 26 0.28
42 20 0.21
43 47 0.50
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGAAGTTGGCATCATATGTGATTCG
Found at i:14401670 original size:33 final size:33
Alignment explanation
Indices: 14401633--14401707 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
14401623 ATCTCAGTAA
* * *
14401633 ACTTACTCTGTTCCATTTTTACTACCCCGACAG
1 ACTTACTCTGTTCCATGTTTACTAACCCAACAG
* *
14401666 ACTTACTCTGTTCCGTGTTTACTAACGCAACAG
1 ACTTACTCTGTTCCATGTTTACTAACCCAACAG
14401699 ACTTACTCT
1 ACTTACTCT
14401708 ATGGATGCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.36
Consensus pattern (33 bp):
ACTTACTCTGTTCCATGTTTACTAACCCAACAG
Found at i:14403189 original size:19 final size:20
Alignment explanation
Indices: 14403165--14403212 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
14403155 GCAGAAGCTT
*
14403165 AGGAAAACCG-TCACGTTTA
1 AGGAAAACCGTTCACATTTA
* *
14403184 AGGAAAACAGTTCACATTTT
1 AGGAAAACCGTTCACATTTA
14403204 AGGAAAACC
1 AGGAAAACC
14403213 TTGTTTTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
AGGAAAACCGTTCACATTTA
Found at i:14404197 original size:22 final size:22
Alignment explanation
Indices: 14404172--14404220 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
14404162 GCCCGTGGCC
* *
14404172 CACACGGCTACACTCCAGTGGT
1 CACACGGCTACACTCAAGTCGT
14404194 CACACGGCTACACTCAAGTCGT
1 CACACGGCTACACTCAAGTCGT
14404216 CACAC
1 CACAC
14404221 AGCCATGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.39, G:0.18, T:0.16
Consensus pattern (22 bp):
CACACGGCTACACTCAAGTCGT
Found at i:14418540 original size:70 final size:70
Alignment explanation
Indices: 14418427--14418561 Score: 243
Period size: 70 Copynumber: 1.9 Consensus size: 70
14418417 TGAACAATAT
* *
14418427 TTTATAAAGGTATCGATATGAATTGACTTGTTTCCAAAATTTTGAAAATGGCAAAATGTCAAAAC
1 TTTATAAAGGTATCGATATGAATTGACTTGTGTCCAAAATTTTGAAAATGGCAAAATGCCAAAAC
14418492 GATAC
66 GATAC
*
14418497 TTTATAAAGGTATCGATATGAATTGACTTGTGTCCAAAATTTTGAAAATGGCAGAATGCCAAAAC
1 TTTATAAAGGTATCGATATGAATTGACTTGTGTCCAAAATTTTGAAAATGGCAAAATGCCAAAAC
14418562 TATATCGATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (70 bp):
TTTATAAAGGTATCGATATGAATTGACTTGTGTCCAAAATTTTGAAAATGGCAAAATGCCAAAAC
GATAC
Found at i:14419867 original size:55 final size:55
Alignment explanation
Indices: 14419789--14419974 Score: 255
Period size: 55 Copynumber: 3.4 Consensus size: 55
14419779 CGTGCCCTTA
* * * * * *
14419789 GCCCATGTGCAACACTGACTTTAAAACACGGTCATGGCGTATGCCCGTGTGGCTT
1 GCCCGTGTACAACACTGACTTTAATACACGGCCATGGCGCATGCCCGTGTGGCCT
* * *
14419844 GCCCGTGTACAACACTGAATTTAATACACGGCCATGGTGCACGCCCGTGTGGCCT
1 GCCCGTGTACAACACTGACTTTAATACACGGCCATGGCGCATGCCCGTGTGGCCT
* * *
14419899 GCCCGTGTACAATACTGACTTTAATACAAGGCCATGGCACATGCCCGTGTGGCCT
1 GCCCGTGTACAACACTGACTTTAATACACGGCCATGGCGCATGCCCGTGTGGCCT
*
14419954 GCCCGTGTACAACAATGACTT
1 GCCCGTGTACAACACTGACTT
14419975 AAAATTTGAA
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 114 1.00
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (55 bp):
GCCCGTGTACAACACTGACTTTAATACACGGCCATGGCGCATGCCCGTGTGGCCT
Found at i:14427754 original size:62 final size:62
Alignment explanation
Indices: 14427678--14427880 Score: 379
Period size: 62 Copynumber: 3.3 Consensus size: 62
14427668 ATATATATCA
14427678 GACATTAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACA-TAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
*
14427741 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATAGTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
14427803 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
1 GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
*
14427865 GACATAAAGCAAAAAG
1 GACATAAAGCATAAAG
14427881 CTCTTTAATT
Statistics
Matches: 137, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
62 133 0.97
63 4 0.03
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (62 bp):
GACATAAAGCATAAAGTAAACAGTACATAAAGTAAGAATACTACTGATATTAGACATTATTT
Found at i:14437676 original size:27 final size:27
Alignment explanation
Indices: 14437572--14437829 Score: 285
Period size: 27 Copynumber: 9.7 Consensus size: 27
14437562 TACATCACGT
* * ** *
14437572 AGGGATAAATCAGTCATCTTACCATAAA
1 AGGGA-AAAACAGTCATTTTACCCCATA
* * * ** *
14437600 AGGGCAAAATAGTCATCTTACCATAAA
1 AGGGAAAAACAGTCATTTTACCCCATA
* *
14437627 AGGGCAAAACATTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
14437654 AGGGAAAAACAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
* *
14437681 AGGG--CAACAGCCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
*
14437706 AGGG--CAACAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
14437731 AGGGAAAAACAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
*
14437758 AGGGAAAAATAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
*
14437785 AGGG--CAACAGTCATTTTACCCCATA
1 AGGGAAAAACAGTCATTTTACCCCATA
* *
14437810 AGGGTAAAATAGTCATTTTA
1 AGGGAAAAACAGTCATTTTA
14437830 TCAATTTGAG
Statistics
Matches: 206, Mismatches: 20, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
25 70 0.34
27 132 0.64
28 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.24
Consensus pattern (27 bp):
AGGGAAAAACAGTCATTTTACCCCATA
Found at i:14437772 original size:104 final size:104
Alignment explanation
Indices: 14437626--14437813 Score: 340
Period size: 104 Copynumber: 1.8 Consensus size: 104
14437616 CTTACCATAA
* *
14437626 AAGGGCAAAACATTCATTTTACCCCATAAGGGAAAAACAGTCATTTTACCCCATAAGGGCAACAG
1 AAGGGAAAAACAGTCATTTTACCCCATAAGGGAAAAACAGTCATTTTACCCCATAAGGGCAACAG
14437691 CCATTTTACCCCATAAGGGCAACAGTCATTTTACCCCAT
66 CCATTTTACCCCATAAGGGCAACAGTCATTTTACCCCAT
*
14437730 AAGGGAAAAACAGTCATTTTACCCCATAAGGGAAAAATAGTCATTTTACCCCATAAGGGCAACAG
1 AAGGGAAAAACAGTCATTTTACCCCATAAGGGAAAAACAGTCATTTTACCCCATAAGGGCAACAG
*
14437795 TCATTTTACCCCATAAGGG
66 CCATTTTACCCCATAAGGG
14437814 TAAAATAGTC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 80 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (104 bp):
AAGGGAAAAACAGTCATTTTACCCCATAAGGGAAAAACAGTCATTTTACCCCATAAGGGCAACAG
CCATTTTACCCCATAAGGGCAACAGTCATTTTACCCCAT
Found at i:14437819 original size:52 final size:52
Alignment explanation
Indices: 14437599--14437829 Score: 304
Period size: 52 Copynumber: 4.4 Consensus size: 52
14437589 CTTACCATAA
* * ** * *
14437599 AAGGGCAAAATAGTCATCTTACCATAAAAGGGCAAAACATTCATTTTACCCCAT
1 AAGGGAAAAATAGTCATTTTACCCCATAAGGGC--AACAGTCATTTTACCCCAT
* *
14437653 AAGGGAAAAACAGTCATTTTACCCCATAAGGGCAACAGCCATTTTACCCCAT
1 AAGGGAAAAATAGTCATTTTACCCCATAAGGGCAACAGTCATTTTACCCCAT
* * *
14437705 AAGGG--CAACAGTCATTTTACCCCATAAGGGAAAAACAGTCATTTTACCCCAT
1 AAGGGAAAAATAGTCATTTTACCCCATAAGGG--CAACAGTCATTTTACCCCAT
14437757 AAGGGAAAAATAGTCATTTTACCCCATAAGGGCAACAGTCATTTTACCCCAT
1 AAGGGAAAAATAGTCATTTTACCCCATAAGGGCAACAGTCATTTTACCCCAT
*
14437809 AAGGGTAAAATAGTCATTTTA
1 AAGGGAAAAATAGTCATTTTA
14437830 TCAATTTGAG
Statistics
Matches: 158, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
50 24 0.15
52 84 0.53
54 50 0.32
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (52 bp):
AAGGGAAAAATAGTCATTTTACCCCATAAGGGCAACAGTCATTTTACCCCAT
Found at i:14440490 original size:17 final size:17
Alignment explanation
Indices: 14440453--14440496 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14440443 GGAGGATTTG
*
14440453 ATAAAATAAAATTAAAAA
1 ATAAAAT-AAGTTAAAAA
* *
14440471 ATATAATAAGTTAAAGA
1 ATAAAATAAGTTAAAAA
14440488 ATAAAATAA
1 ATAAAATAA
14440497 ACATAAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (17 bp):
ATAAAATAAGTTAAAAA
Found at i:14441420 original size:32 final size:32
Alignment explanation
Indices: 14441384--14441450 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
14441374 TGTATATGAT
14441384 TATGTTAAAAGGTTAAGAAATATATGAATTAC
1 TATGTTAAAAGGTTAAGAAATATATGAATTAC
* *
14441416 TATGTTACAAGGTTAAGAAGTATATGAATTAC
1 TATGTTAAAAGGTTAAGAAATATATGAATTAC
14441448 TAT
1 TAT
14441451 TCGATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.36
Consensus pattern (32 bp):
TATGTTAAAAGGTTAAGAAATATATGAATTAC
Found at i:14443007 original size:17 final size:17
Alignment explanation
Indices: 14442985--14443019 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
14442975 TGAATATTTG
14442985 AAGGATTTATTTATGAT
1 AAGGATTTATTTATGAT
14443002 AAGGATTTATTTATGAT
1 AAGGATTTATTTATGAT
14443019 A
1 A
14443020 TGCTTGATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (17 bp):
AAGGATTTATTTATGAT
Found at i:14445282 original size:18 final size:18
Alignment explanation
Indices: 14445256--14445302 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
14445246 ACTCACATCT
*
14445256 TATTCTCTCAAATCTTTC
1 TATTCTCTCAAATATTTC
*
14445274 TATTTTCTCAAATATTTC
1 TATTCTCTCAAATATTTC
14445292 TATTCTCTCAA
1 TATTCTCTCAA
14445303 CTCTCTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTCTCTCAAATATTTC
Found at i:14458020 original size:19 final size:20
Alignment explanation
Indices: 14457983--14458040 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
14457973 TCCAGATGAT
* * *
14457983 TTTTTATTATTAATTTTATG
1 TTTTTAATATAAATATTATG
14458003 TTTTTAATA-AAATATTATG
1 TTTTTAATATAAATATTATG
* *
14458022 TTTTTTATATAATTATTAT
1 TTTTTAATATAAATATTAT
14458041 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTTAATATAAATATTATG
Found at i:14460223 original size:3 final size:3
Alignment explanation
Indices: 14460217--14460263 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
14460207 GAAGGAAAAA
14460217 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAGG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG
14460263 A
1 A
14460264 TTTGTGTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14477694 original size:20 final size:21
Alignment explanation
Indices: 14477659--14477699 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14477649 TTTGCTTTCC
*
14477659 GTTAAGCTCTTATGAGCTTCA
1 GTTAAGCTCATATGAGCTTCA
*
14477680 GTTAA-CTCATATGAGTTTCA
1 GTTAAGCTCATATGAGCTTCA
14477700 TTTCAACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (21 bp):
GTTAAGCTCATATGAGCTTCA
Found at i:14478274 original size:2 final size:2
Alignment explanation
Indices: 14478267--14478302 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
14478257 ATGGCAATTA
14478267 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
14478303 AGTATATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:14487810 original size:21 final size:19
Alignment explanation
Indices: 14487770--14487823 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 19
14487760 AATGTATGAT
14487770 TTAAAATTAATAATATGTAAAA
1 TTAAAA-TAA-AATATGT-AAA
14487792 TTAAAATAAAATAATGTAAA
1 TTAAAATAAAAT-ATGTAAA
14487812 TTATAAATAAAA
1 TTA-AAATAAAA
14487824 AACAGTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.30
21 15 0.50
22 6 0.20
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (19 bp):
TTAAAATAAAATATGTAAA
Found at i:14490043 original size:32 final size:32
Alignment explanation
Indices: 14490007--14490072 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 32
14489997 ATTATTCAAC
*
14490007 TTTAAAAAATTTCTATTTATGTCACTGAACTA
1 TTTAAAAAATTTCTATTTAAGTCACTGAACTA
*** * *
14490039 TTTAAATTTTTTTTATTTAAGTCACTGAGCTA
1 TTTAAAAAATTTCTATTTAAGTCACTGAACTA
14490071 TT
1 TT
14490073 AATTTTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (32 bp):
TTTAAAAAATTTCTATTTAAGTCACTGAACTA
Found at i:14490081 original size:32 final size:32
Alignment explanation
Indices: 14490020--14490081 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
14490010 AAAAAATTTC
*
14490020 TATTTATGTCACTGAACTATTTAAATTTTTTT
1 TATTTAAGTCACTGAACTATTTAAATTTTTTT
*
14490052 TATTTAAGTCACTGAGCTA-TT-AATTTTTTT
1 TATTTAAGTCACTGAACTATTTAAATTTTTTT
14490082 AAAAAAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 9 0.32
31 2 0.07
32 17 0.61
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (32 bp):
TATTTAAGTCACTGAACTATTTAAATTTTTTT
Found at i:14490405 original size:64 final size:64
Alignment explanation
Indices: 14490304--14490432 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
14490294 ATAATATGCA
14490304 AGGGGTTGCCACTTGACAAGACCATTTTAGCCAAAGCATCAGCAATCTGATTGGTTTCCCTGGG
1 AGGGGTTGCCACTTGACAAGACCATTTTAGCCAAAGCATCAGCAATCTGATTGGTTTCCCTGGG
14490368 AGGGGTTGCCACTTGACAAGACCATTTTAGCCAAAGCATCAGCAATCTGATTGGTTTCCCTGGG
1 AGGGGTTGCCACTTGACAAGACCATTTTAGCCAAAGCATCAGCAATCTGATTGGTTTCCCTGGG
14490432 A
1 A
14490433 ACATAATTCA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (64 bp):
AGGGGTTGCCACTTGACAAGACCATTTTAGCCAAAGCATCAGCAATCTGATTGGTTTCCCTGGG
Found at i:14496770 original size:22 final size:22
Alignment explanation
Indices: 14496745--14496792 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
14496735 ACAAAACCCC
*
14496745 TGTCAACAAGCTCTTGCAACTG
1 TGTCAACAAGCTCTTACAACTG
***
14496767 TGTCTTTAAGCTCTTACAACTG
1 TGTCAACAAGCTCTTACAACTG
14496789 TGTC
1 TGTC
14496793 TTTAACTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (22 bp):
TGTCAACAAGCTCTTACAACTG
Found at i:14496793 original size:22 final size:22
Alignment explanation
Indices: 14496752--14496802 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
14496742 CCCTGTCAAC
*
14496752 AAGCTCTTGCAACTGTGTCTTT
1 AAGCTCTTACAACTGTGTCTTT
14496774 AAGCTCTTACAACTGTGTCTTT
1 AAGCTCTTACAACTGTGTCTTT
14496796 AA-CTCTT
1 AAGCTCTT
14496803 TTAATTCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (22 bp):
AAGCTCTTACAACTGTGTCTTT
Found at i:14501630 original size:35 final size:35
Alignment explanation
Indices: 14501579--14501650 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
14501569 TACTAGTTTG
14501579 TACCACAAGACACCTTATGTACACATGCCACAAAC
1 TACCACAAGACACCTTATGTACACATGCCACAAAC
*
14501614 TACCGCAAGACACCTTATGTACACATGCCACAAAC
1 TACCACAAGACACCTTATGTACACATGCCACAAAC
14501649 TA
1 TA
14501651 TGACACTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.18
Consensus pattern (35 bp):
TACCACAAGACACCTTATGTACACATGCCACAAAC
Found at i:14505792 original size:27 final size:27
Alignment explanation
Indices: 14505762--14505826 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
14505752 CCTAAAGATG
*
14505762 AAATAAAAATAGTATT-AAAGAGAAATA
1 AAATAAAAATAAT-TTAAAAGAGAAATA
*
14505789 AAATGAAAAATAATTTAAAAAGATAAATA
1 AAAT-AAAAATAATTT-AAAAGAGAAATA
14505818 AAGATAAAA
1 AA-ATAAAA
14505827 GTAAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 6 0.19
28 8 0.25
29 16 0.50
30 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (27 bp):
AAATAAAAATAATTTAAAAGAGAAATA
Found at i:14507180 original size:29 final size:30
Alignment explanation
Indices: 14507148--14507204 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
14507138 GCCATGAATA
* *
14507148 TAATTAAAATAACAA-ATTCAACCAAAAAC
1 TAATGAAAATAACAAGACTCAACCAAAAAC
* *
14507177 TAATGACATTAACAAGACTCAACCAAAA
1 TAATGAAAATAACAAGACTCAACCAAAA
14507205 GTAATCGAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 12 0.52
30 11 0.48
ACGTcount: A:0.58, C:0.19, G:0.04, T:0.19
Consensus pattern (30 bp):
TAATGAAAATAACAAGACTCAACCAAAAAC
Found at i:14516905 original size:16 final size:15
Alignment explanation
Indices: 14516884--14516914 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
14516874 AGAAATGAGT
14516884 ATTAATTTATAATTTA
1 ATTAATTT-TAATTTA
14516900 ATTAATTTTAATTTA
1 ATTAATTTTAATTTA
14516915 TTCCCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTAATTTTAATTTA
Found at i:14523047 original size:18 final size:18
Alignment explanation
Indices: 14523024--14523058 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
14523014 CCTATCCAAT
14523024 ATACCTATCAGAAGTACC
1 ATACCTATCAGAAGTACC
14523042 ATACCTATCAGAAGTAC
1 ATACCTATCAGAAGTAC
14523059 TTCAATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (18 bp):
ATACCTATCAGAAGTACC
Found at i:14523689 original size:35 final size:35
Alignment explanation
Indices: 14523593--14523739 Score: 154
Period size: 35 Copynumber: 4.1 Consensus size: 35
14523583 GTCCAACCAC
* * *
14523593 AACACACCAGATGCTCATATGAGCTTA-TCC-CTCAAA
1 AACACACC-GATGCTCATAAGAGC-TAGTCCAATC-GA
* * * *
14523629 AACACACTGGATACTAATAAGAGCTAGTCTAATCGA
1 AACACAC-CGATGCTCATAAGAGCTAGTCCAATCGA
14523665 AACACACCGATGCTCATAAGAGCTAGTCCAATCGA
1 AACACACCGATGCTCATAAGAGCTAGTCCAATCGA
* * *
14523700 AACACGCCGATGCTCATAAGATCTAGTCCAACCGA
1 AACACACCGATGCTCATAAGAGCTAGTCCAATCGA
14523735 AACAC
1 AACAC
14523740 GCTAAACAGA
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
35 63 0.67
36 29 0.31
37 2 0.02
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.19
Consensus pattern (35 bp):
AACACACCGATGCTCATAAGAGCTAGTCCAATCGA
Found at i:14523740 original size:35 final size:35
Alignment explanation
Indices: 14523645--14523741 Score: 158
Period size: 35 Copynumber: 2.8 Consensus size: 35
14523635 CTGGATACTA
* *
14523645 ATAAGAGCTAGTCTAATCGAAACACACCGATGCTC
1 ATAAGAGCTAGTCCAATCGAAACACGCCGATGCTC
14523680 ATAAGAGCTAGTCCAATCGAAACACGCCGATGCTC
1 ATAAGAGCTAGTCCAATCGAAACACGCCGATGCTC
* *
14523715 ATAAGATCTAGTCCAACCGAAACACGC
1 ATAAGAGCTAGTCCAATCGAAACACGC
14523742 TAAACAGAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.37, C:0.28, G:0.18, T:0.18
Consensus pattern (35 bp):
ATAAGAGCTAGTCCAATCGAAACACGCCGATGCTC
Found at i:14524844 original size:62 final size:62
Alignment explanation
Indices: 14524769--14524892 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
14524759 GTTAGTGTTA
14524769 GGCAATATTTTACCTCTTTTTTTTAATTTAGTCCTTTTTATTTAATTAACTATCTAAATGGT
1 GGCAATATTTTACCTCTTTTTTTTAATTTAGTCCTTTTTATTTAATTAACTATCTAAATGGT
14524831 GGCAATATTTTACCTCTTTTTTTTAATTTAGTCCTTTTTATTTAATTAACTATCTAAATGGT
1 GGCAATATTTTACCTCTTTTTTTTAATTTAGTCCTTTTTATTTAATTAACTATCTAAATGGT
14524893 AATATTTCCG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.53
Consensus pattern (62 bp):
GGCAATATTTTACCTCTTTTTTTTAATTTAGTCCTTTTTATTTAATTAACTATCTAAATGGT
Found at i:14533458 original size:7 final size:7
Alignment explanation
Indices: 14533446--14533487 Score: 66
Period size: 7 Copynumber: 5.7 Consensus size: 7
14533436 GGTATTCTAC
14533446 TTTTTCT
1 TTTTTCT
14533453 TTTTTCT
1 TTTTTCT
14533460 TTTTTCT
1 TTTTTCT
14533467 TTGTTTCTT
1 TT-TTTC-T
14533476 TTTTTCT
1 TTTTTCT
14533483 TTTTT
1 TTTTT
14533488 AGAATCTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 22 0.67
8 8 0.24
9 3 0.09
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:14533463 original size:8 final size:8
Alignment explanation
Indices: 14533446--14533487 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
14533436 GGTATTCTAC
14533446 TTTTTC-T
1 TTTTTCTT
14533453 TTTTTC-T
1 TTTTTCTT
14533460 TTTTTCTT
1 TTTTTCTT
*
14533468 TGTTTCTT
1 TTTTTCTT
14533476 TTTTTCTT
1 TTTTTCTT
14533484 TTTT
1 TTTT
14533488 AGAATCTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 13 0.41
8 19 0.59
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:14536407 original size:59 final size:57
Alignment explanation
Indices: 14536341--14536529 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
14536331 ATTTTATTAA
14536341 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
14536400 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
14536461 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
14536520 ATCATATATT
1 ATCATATATT
14536530 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:14536438 original size:66 final size:64
Alignment explanation
Indices: 14536368--14536566 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
14536358 AAATATATTT
*
14536368 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
14536433 G
64 G
* * * * **
14536434 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
14536488 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
14536553 G
64 G
*
14536554 AATATTGATTATT
1 AATATTAATTATT
14536567 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:14536460 original size:120 final size:120
Alignment explanation
Indices: 14536330--14536627 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
14536320 AATTATTTTA
* * *
14536330 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
14536394 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
14536450 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
14536515 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
14536570 AATTTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTATGTTTAAAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
14536628 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
120 157 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:14536470 original size:61 final size:61
Alignment explanation
Indices: 14536403--14536590 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
14536393 TTATAGTATC
*
14536403 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
14536464 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
14536522 C
61 T
*
14536523 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
14536584 CTATATT
1 ATATATT
14536591 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:14536490 original size:15 final size:15
Alignment explanation
Indices: 14536455--14536506 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14536445 TTAAGAATTT
*
14536455 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14536469 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14536483 TATTTAATAATAAT-
1 TATTTAATTATAATA
14536497 TATGTTAATT
1 TAT-TTAATT
14536507 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14536865 original size:16 final size:16
Alignment explanation
Indices: 14536841--14536892 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
14536831 GATTTGCTAT
14536841 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
14536857 TACAACTCTAATCCAA
1 TACACCTCTAATCCAA
14536873 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14536889 TACA
1 TACA
14536893 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14544589 original size:9 final size:9
Alignment explanation
Indices: 14544575--14544603 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
14544565 GTTAGCGTAC
14544575 ATGTTTGAA
1 ATGTTTGAA
14544584 ATGTTTGAA
1 ATGTTTGAA
14544593 ATGTTTGAA
1 ATGTTTGAA
14544602 AT
1 AT
14544604 AGGTGGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
ATGTTTGAA
Found at i:14544741 original size:13 final size:13
Alignment explanation
Indices: 14544723--14544748 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14544713 TGTTGGGAAT
14544723 TAATGTGTATGCA
1 TAATGTGTATGCA
14544736 TAATGTGTATGCA
1 TAATGTGTATGCA
14544749 ACGAACAAGT
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:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TAATGTGTATGCA
Found at i:14551669 original size:19 final size:19
Alignment explanation
Indices: 14551645--14551703 Score: 109
Period size: 19 Copynumber: 3.1 Consensus size: 19
14551635 CTTAAAGAGC
14551645 TCGTATGAAAGCAATTTAA
1 TCGTATGAAAGCAATTTAA
14551664 TCGTATGAAAGCAATTTAA
1 TCGTATGAAAGCAATTTAA
*
14551683 TCATATGAAAGCAATTTAA
1 TCGTATGAAAGCAATTTAA
14551702 TC
1 TC
14551704 ATGTTTTTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (19 bp):
TCGTATGAAAGCAATTTAA
Found at i:14558806 original size:56 final size:56
Alignment explanation
Indices: 14558720--14558832 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
14558710 TGTGAAATCG
14558720 ACTTAATAAACATTTCCTTGTCACCTTGAGAAAGCATTGGAACATTCCAATTTTAT
1 ACTTAATAAACATTTCCTTGTCACCTTGAGAAAGCATTGGAACATTCCAATTTTAT
14558776 ACTTAATAAACATTTCCTTGTCACCTTGAGAAAGCATTGGAACATTCCAATTTTAT
1 ACTTAATAAACATTTCCTTGTCACCTTGAGAAAGCATTGGAACATTCCAATTTTAT
14558832 A
1 A
14558833 TCCTACTATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (56 bp):
ACTTAATAAACATTTCCTTGTCACCTTGAGAAAGCATTGGAACATTCCAATTTTAT
Found at i:14559821 original size:27 final size:27
Alignment explanation
Indices: 14559791--14559844 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
14559781 ATATATAATT
*
14559791 ATTA-TAAAATAATTAAATTGTACTTAA
1 ATTATTAAAATAATAAAATT-TACTTAA
* *
14559818 ATTATTAACATGATAAAATTTACTTAA
1 ATTATTAAAATAATAAAATTTACTTAA
14559845 TTCTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (27 bp):
ATTATTAAAATAATAAAATTTACTTAA
Found at i:14565750 original size:17 final size:18
Alignment explanation
Indices: 14565717--14565764 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
14565707 TTTCATTTTC
*
14565717 AATTAATTTAA-TTTTAA
1 AATTATTTTAATTTTTAA
*
14565734 AGTT-TTTTAATTTTTAA
1 AATTATTTTAATTTTTAA
14565751 AATTATTTT-ATTTT
1 AATTATTTTAATTTT
14565765 GTTTATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 5 0.19
17 17 0.65
18 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AATTATTTTAATTTTTAA
Found at i:14569163 original size:24 final size:24
Alignment explanation
Indices: 14569136--14569186 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
14569126 AAAGAAAGAA
*
14569136 ATAAAAAAGAAGACGAGGGTGGAG
1 ATAAAAAAGAAGACGAGGGTCGAG
* *
14569160 ATAAAGATGAAGACGAGGGTCGAG
1 ATAAAAAAGAAGACGAGGGTCGAG
14569184 ATA
1 ATA
14569187 GAGATGAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.06, G:0.35, T:0.12
Consensus pattern (24 bp):
ATAAAAAAGAAGACGAGGGTCGAG
Found at i:14569191 original size:24 final size:24
Alignment explanation
Indices: 14569144--14569218 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
14569134 AAATAAAAAA
*
14569144 GAAGACGAGGGTGGAGATAAAGAT
1 GAAGACGAGGGTCGAGATAAAGAT
*
14569168 GAAGACGAGGGTCGAGATAGAGAT
1 GAAGACGAGGGTCGAGATAAAGAT
* * * *
14569192 GAAGACAAGGATTGAGATGAAGAT
1 GAAGACGAGGGTCGAGATAAAGAT
14569216 GAA
1 GAA
14569219 TACAAGGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.43, C:0.05, G:0.39, T:0.13
Consensus pattern (24 bp):
GAAGACGAGGGTCGAGATAAAGAT
Found at i:14569223 original size:24 final size:23
Alignment explanation
Indices: 14569157--14569225 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
14569147 GACGAGGGTG
* *
14569157 GAGATAAAGATGAAGACGAGGGTC
1 GAGAT-AAGATGAAGACAAGGATC
*
14569181 GAGATAGAGATGAAGACAAGGATT
1 GAGATA-AGATGAAGACAAGGATC
*
14569205 GAGATGAAGATGAATACAAGG
1 GAGAT-AAGATGAAGACAAGG
14569226 TTTATGAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.03
24 37 0.95
25 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.35, T:0.14
Consensus pattern (23 bp):
GAGATAAGATGAAGACAAGGATC
Found at i:14570550 original size:21 final size:21
Alignment explanation
Indices: 14570509--14570603 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
14570499 AGAATACTAC
* * *
14570509 TTAT-TTTGAATCGATTGTCT
1 TTATGTTTAAATCAATTATCT
*
14570529 TTATGTTTAAATAAATTATCT
1 TTATGTTTAAATCAATTATCT
* *
14570550 TTATGTTTAAATCGATTGTCT
1 TTATGTTTAAATCAATTATCT
* *
14570571 TTCTGTTTAAATCAA-T-TCA
1 TTATGTTTAAATCAATTATCT
14570590 TTATTGTTTAAATC
1 TTA-TGTTTAAATC
14570604 TATTCTTTGT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
19 4 0.06
20 15 0.24
21 43 0.69
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (21 bp):
TTATGTTTAAATCAATTATCT
Found at i:14570578 original size:42 final size:40
Alignment explanation
Indices: 14570509--14570603 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 40
14570499 AGAATACTAC
* *
14570509 TTAT-TTTGAATCGATTGTCTTTATGTTTAAATAAATTATCT
1 TTATGTTTAAATCGATTGTCTTTATGTTTAAATAAA-T-TCA
* *
14570550 TTATGTTTAAATCGATTGTCTTTCTGTTTAAATCAATTCA
1 TTATGTTTAAATCGATTGTCTTTATGTTTAAATAAATTCA
14570590 TTATTGTTTAAATC
1 TTA-TGTTTAAATC
14570604 TATTCTTTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 5 0.10
41 15 0.31
42 28 0.58
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (40 bp):
TTATGTTTAAATCGATTGTCTTTATGTTTAAATAAATTCA
Found at i:14570619 original size:20 final size:20
Alignment explanation
Indices: 14570576--14570620 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
14570566 TGTCTTTCTG
*
14570576 TTTAAATCAATTCATTATTG
1 TTTAAATCAATTCATTATTA
* * *
14570596 TTTAAATCTATTCTTTGTTA
1 TTTAAATCAATTCATTATTA
14570616 TTTAA
1 TTTAA
14570621 CCTAATTCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTAAATCAATTCATTATTA
Found at i:14579779 original size:151 final size:151
Alignment explanation
Indices: 14579505--14579807 Score: 597
Period size: 151 Copynumber: 2.0 Consensus size: 151
14579495 CGAGTTATGA
14579505 TTTGTTAGCCAACAACATACCATGTAATTTGGGTGAAGGGCATGTGCCATGTCAGCCGAAACAAG
1 TTTGTTAGCCAACAACATACCATGTAATTTGGGTGAAGGGCATGTGCCATGTCAGCCGAAACAAG
14579570 GAAACTTCTCTGGATAGCTTTTGCTAGCATCTGAAAAGAAACAATGTCAATCTATATGCTCAGAT
66 GAAACTTCTCTGGATAGCTTTTGCTAGCATCTGAAAAGAAACAATGTCAATCTATATGCTCAGAT
14579635 ATGTGCTAACTGCTCTCAAAT
131 ATGTGCTAACTGCTCTCAAAT
*
14579656 TTTGTTAGCCAACAACATACCATGTAATTTGGGTGAAGGGCATGTGCCATGTCAGCTGAAACAAG
1 TTTGTTAGCCAACAACATACCATGTAATTTGGGTGAAGGGCATGTGCCATGTCAGCCGAAACAAG
14579721 GAAACTTCTCTGGATAGCTTTTGCTAGCATCTGAAAAGAAACAATGTCAATCTATATGCTCAGAT
66 GAAACTTCTCTGGATAGCTTTTGCTAGCATCTGAAAAGAAACAATGTCAATCTATATGCTCAGAT
14579786 ATGTGCTAACTGCTCTCAAAT
131 ATGTGCTAACTGCTCTCAAAT
14579807 T
1 T
14579808 GGAAAATCTG
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (151 bp):
TTTGTTAGCCAACAACATACCATGTAATTTGGGTGAAGGGCATGTGCCATGTCAGCCGAAACAAG
GAAACTTCTCTGGATAGCTTTTGCTAGCATCTGAAAAGAAACAATGTCAATCTATATGCTCAGAT
ATGTGCTAACTGCTCTCAAAT
Found at i:14582794 original size:17 final size:18
Alignment explanation
Indices: 14582769--14582802 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14582759 AAAATTATTA
*
14582769 ATTATTATAA-AAAAATT
1 ATTAGTATAATAAAAATT
14582786 ATTAGTATAATAAAAAT
1 ATTAGTATAATAAAAAT
14582803 GATTCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTAGTATAATAAAAATT
Found at i:14585595 original size:30 final size:30
Alignment explanation
Indices: 14585559--14585618 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
14585549 AGTCTGAGGA
*
14585559 AGCTATGAGAAAGCAGTGCCCTAACGTATT
1 AGCTATGAGAAAGCAGTGCCCTAACCTATT
14585589 AGCTATGAGAAAGCAGTGCCCTAACCTATT
1 AGCTATGAGAAAGCAGTGCCCTAACCTATT
14585619 CACTAGTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (30 bp):
AGCTATGAGAAAGCAGTGCCCTAACCTATT
Found at i:14586577 original size:21 final size:23
Alignment explanation
Indices: 14586537--14586578 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14586527 AAAATATCCC
*
14586537 TAATATATATTTTGGATTGAATT
1 TAATAAATATTTTGGATTGAATT
14586560 TAATAAATA-TTT-GATTGAA
1 TAATAAATATTTTGGATTGAA
14586579 CGAGTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 3 0.17
23 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (23 bp):
TAATAAATATTTTGGATTGAATT
Found at i:14586831 original size:40 final size:40
Alignment explanation
Indices: 14586787--14586932 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
14586777 TTGACAACAA
* *
14586787 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
1 TCGGCTATATATGACACTTAGTGTGCGATTCGAGATAGCT
* * * *
14586827 TCGGCTATATATGGCACTTAGTGTGCAAAATCAAGATAGCT
1 TCGGCTATATATGACACTTAGTGTGC-GATTCGAGATAGCT
*
14586868 TCGGCTATATATGACACTTAGTGTGCGATTTGAGATAGCT
1 TCGGCTATATATGACACTTAGTGTGCGATTCGAGATAGCT
* **
14586908 TTGGCTATATACAACACTTAGTGTG
1 TCGGCTATATATGACACTTAGTGTG
14586933 TGAGATATTG
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 58 0.62
41 35 0.38
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (40 bp):
TCGGCTATATATGACACTTAGTGTGCGATTCGAGATAGCT
Found at i:14586878 original size:41 final size:40
Alignment explanation
Indices: 14586787--14586893 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 40
14586777 TTGACAACAA
* * *
14586787 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCAAATCAACATAGCT
*
14586827 TCGGCTATATATGGCACTTAGTGTGCAAAATCAAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGC-AAATCAACATAGCT
*
14586868 TCGGCTATATATGACACTTAGTGTGC
1 TCGGCTATATATGGCACTTAGTGTGC
14586894 GATTTGAGAT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
40 26 0.43
41 35 0.57
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCAAATCAACATAGCT
Found at i:14588468 original size:145 final size:144
Alignment explanation
Indices: 14588147--14588531 Score: 470
Period size: 145 Copynumber: 2.6 Consensus size: 144
14588137 AATGCTCACA
* *
14588147 TTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTTAAAAAAACAAATTTTTATTTTTTAAAA
1 TTTGTTTTAAAA-TTTAAACTTTCCTTTAAAATAAC-TAAAAAAACAAATTTTTAATTTTTAAAA
* * *
14588212 TCTAAACTCTCTCCTTTTTTAAAAAAATACTATTTTTCTTAAAAGATTGAAGCGTTTATTTTGAA
64 TCTAAACTTTCTCC---TTT-AAAAAA-A-TATTTTTCTTAAAAGATTAAAGCGTTTACTTTGAA
* * *
14588277 ATAGTTGGAAAAAAATCGAAAT
123 ATAGTTGAAAAAAAATCAAAAC
* * * * * *
14588299 TTTATTTTCAAATTTTAAAATTTCCTTTAAAATAACTAAAAAAATATATTTTTAATTTTCAAAAT
1 TTTGTTTT-AAAATTTAAACTTTCCTTTAAAATAACTAAAAAAACAAATTTTTAATTTTTAAAAT
* *
14588364 CTAAACTTTCTCCTTTAAAAAAATATTTTTCTT-AAAGATTAAAGCTTTTACTTTGAAGTAGTTG
65 CTAAACTTTCTCCTTTAAAAAAATATTTTTCTTAAAAGATTAAAGCGTTTACTTTGAAATAGTTG
14588428 AAAAAAAAATCAAAAC
130 -AAAAAAAATCAAAAC
*
14588444 TTTGTTTTAAGAATTTAAACTTTCCTTTAAAATAATTAAAAAAACAAATTTTT-ATTTGTTAAAA
1 TTTGTTTTAA-AATTTAAACTTTCCTTTAAAATAACTAAAAAAACAAATTTTTAATTT-TTAAAA
* *
14588508 TCAAAAATTTCT-CTTTAAAAAAAT
64 TCTAAACTTTCTCCTTTAAAAAAAT
14588532 CACAACTTTT
Statistics
Matches: 204, Mismatches: 25, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
144 45 0.22
145 81 0.40
146 1 0.00
147 6 0.03
148 3 0.01
151 37 0.18
152 28 0.14
153 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (144 bp):
TTTGTTTTAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAACAAATTTTTAATTTTTAAAATC
TAAACTTTCTCCTTTAAAAAAATATTTTTCTTAAAAGATTAAAGCGTTTACTTTGAAATAGTTGA
AAAAAAATCAAAAC
Found at i:14588708 original size:2 final size:2
Alignment explanation
Indices: 14588701--14588725 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14588691 CTATGGGTAA
14588701 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14588726 GAAGAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14597949 original size:17 final size:17
Alignment explanation
Indices: 14597919--14597990 Score: 56
Period size: 17 Copynumber: 4.0 Consensus size: 17
14597909 ATTTATAGTA
* *
14597919 TTTATATTTCATTATAT
1 TTTATTTTTTATTATAT
14597936 TTTATTTTTTATTACATAT
1 TTTATTTTTTATT--ATAT
**
14597955 TACATTTTATTA-TATAT
1 TTTATTTT-TTATTATAT
14597972 TTTATTTTATTTATTATAT
1 TTTA-TTT-TTTATTATAT
14597991 GGTTTATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
17 17 0.40
18 6 0.14
19 17 0.40
20 3 0.07
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATTTTTTATTATAT
Found at i:14597954 original size:29 final size:29
Alignment explanation
Indices: 14597922--14597977 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
14597912 TATAGTATTT
* * *
14597922 ATATTTCATTATATTTTATTTTTTATTAC
1 ATATTACATTATATTATATATTTTATTAC
*
14597951 ATATTACATTTTATTATATATTTTATT
1 ATATTACATTATATTATATATTTTATT
14597978 TTATTTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (29 bp):
ATATTACATTATATTATATATTTTATTAC
Found at i:14597975 original size:12 final size:12
Alignment explanation
Indices: 14597958--14598006 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
14597948 TACATATTAC
14597958 ATTTTATTATAT
1 ATTTTATTATAT
14597970 ATTTTATT-T-T
1 ATTTTATTATAT
14597980 A-TTTATTATAT
1 ATTTTATTATAT
*
14597991 GGTTTATATTATAT
1 -ATTT-TATTATAT
14598005 AT
1 AT
14598007 ATTTTGCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
9 6 0.20
10 3 0.10
11 2 0.07
12 8 0.27
13 3 0.10
14 8 0.27
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (12 bp):
ATTTTATTATAT
Found at i:14597996 original size:21 final size:21
Alignment explanation
Indices: 14597960--14598002 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14597950 CATATTACAT
* *
14597960 TTTATTATATATTTTATTTTA
1 TTTATTATATAGTTTATATTA
*
14597981 TTTATTATATGGTTTATATTA
1 TTTATTATATAGTTTATATTA
14598002 T
1 T
14598003 ATATATTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTATTATATAGTTTATATTA
Found at i:14601934 original size:105 final size:105
Alignment explanation
Indices: 14601752--14601963 Score: 424
Period size: 105 Copynumber: 2.0 Consensus size: 105
14601742 ATCGTCAGAC
14601752 AAAGGACGAGAATTAGCATTGTTATTAGATAGGGTTAAGACTCTAGGCCTACAGGTAAAAGTGTA
1 AAAGGACGAGAATTAGCATTGTTATTAGATAGGGTTAAGACTCTAGGCCTACAGGTAAAAGTGTA
14601817 TTTGTAATCCGTTTTATGAAAAGATTTTTGTTCCTTAAAT
66 TTTGTAATCCGTTTTATGAAAAGATTTTTGTTCCTTAAAT
14601857 AAAGGACGAGAATTAGCATTGTTATTAGATAGGGTTAAGACTCTAGGCCTACAGGTAAAAGTGTA
1 AAAGGACGAGAATTAGCATTGTTATTAGATAGGGTTAAGACTCTAGGCCTACAGGTAAAAGTGTA
14601922 TTTGTAATCCGTTTTATGAAAAGATTTTTGTTCCTTAAAT
66 TTTGTAATCCGTTTTATGAAAAGATTTTTGTTCCTTAAAT
14601962 AA
1 AA
14601964 CGTTTTCTAA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 107 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (105 bp):
AAAGGACGAGAATTAGCATTGTTATTAGATAGGGTTAAGACTCTAGGCCTACAGGTAAAAGTGTA
TTTGTAATCCGTTTTATGAAAAGATTTTTGTTCCTTAAAT
Found at i:14608160 original size:13 final size:14
Alignment explanation
Indices: 14608144--14608179 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
14608134 CAATCTCATA
14608144 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
14608157 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
14608170 TCTC-ATTTCA
1 TCTCAATTTCA
14608180 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:14608371 original size:21 final size:20
Alignment explanation
Indices: 14608347--14608427 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 20
14608337 GACACATAAA
14608347 GTGCCTAAAAATACACACGAG
1 GTGCCT-AAAATACACACGAG
* **
14608368 GTGCCTGATACGACACACGAG
1 GTGCCT-AAAATACACACGAG
* *
14608389 GTGCCTGATATGACACACGAG
1 GTGCCTAAAAT-ACACACGAG
*
14608410 GTGCCTGAAATACGACAC
1 GTGCCTAAAATAC-ACAC
14608428 ATAAAGTGCC
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
20 2 0.04
21 46 0.96
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (20 bp):
GTGCCTAAAATACACACGAG
Found at i:14608384 original size:42 final size:43
Alignment explanation
Indices: 14608333--14608438 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 43
14608323 CCTGATCAGT
14608333 ATACGACACATAAAGTGCCTAAAAAT-ACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCT-AAAATGACACACGAGGTGCCTGA
** * * *
14608375 ATACGACACACGAGGTGCCTGATATGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAATGACACACGAGGTGCCTG-A
14608419 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
14608439 CATCAATAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.06
42 33 0.62
44 17 0.32
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAATGACACACGAGGTGCCTGA
Found at i:14608385 original size:23 final size:21
Alignment explanation
Indices: 14608359--14608428 Score: 113
Period size: 21 Copynumber: 3.2 Consensus size: 21
14608349 GCCTAAAAAT
14608359 ACACACGAGGTGCCTGATACG
1 ACACACGAGGTGCCTGATACG
*
14608380 ACACACGAGGTGCCTGATATG
1 ACACACGAGGTGCCTGATACG
14608401 ACACACGAGGTGCCTGAAATACG
1 ACACACGAGGTGCCTG--ATACG
14608424 ACACA
1 ACACA
14608429 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 36 0.80
23 9 0.20
ACGTcount: A:0.33, C:0.27, G:0.26, T:0.14
Consensus pattern (21 bp):
ACACACGAGGTGCCTGATACG
Found at i:14608822 original size:15 final size:14
Alignment explanation
Indices: 14608797--14608837 Score: 64
Period size: 15 Copynumber: 2.8 Consensus size: 14
14608787 ATATATATTT
14608797 TATAATTCAATCAA
1 TATAATTCAATCAA
14608811 TATAATTTCAATCAA
1 TATAA-TTCAATCAA
14608826 TATAAATTCAAT
1 TAT-AATTCAAT
14608838 AAAACAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.20
15 18 0.72
16 2 0.08
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (14 bp):
TATAATTCAATCAA
Found at i:14609000 original size:2 final size:2
Alignment explanation
Indices: 14608993--14609022 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14608983 ATATCTCATT
14608993 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
14609023 TATATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14609833 original size:9 final size:9
Alignment explanation
Indices: 14609819--14609851 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
14609809 GTTTCTTTCC
14609819 TCTTTTTAT
1 TCTTTTTAT
14609828 TCTTTTTAT
1 TCTTTTTAT
14609837 TCTTTTGT-T
1 TCTTTT-TAT
14609846 TCTTTT
1 TCTTTT
14609852 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 22 0.96
10 1 0.04
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (9 bp):
TCTTTTTAT
Found at i:14613435 original size:44 final size:44
Alignment explanation
Indices: 14613385--14613673 Score: 287
Period size: 44 Copynumber: 6.5 Consensus size: 44
14613375 TTTACATCGA
* * *
14613385 AGCAGATCGAAGATACCAGATTTGGCGTCTCTGTATTGGCAGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAG
*** * * * **
14613429 AGCAGATCGAAGATGTAGTTGATTTGGCTTTCACGTGT-TTACGTTGA-
1 AGCAGATCGAAGA--TAACAGATTTGGC-ATCTC-TGTATT-GGCAGAG
* * *
14613476 AGCAAATCGAAGATAACAGATTTGGTATCTCTGTATTGGCGGAG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAG
* * * *
14613520 AGCAGATCCAAGACAGCAGATTTGGCATCCCTGTATTGGCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAG
* *
14613564 AGTAGATCGAAGACAACAGATTTGGCATCTCTGTATTGGCAGAG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAG
* * * *
14613608 AGCAGATCGAAGACAGCAGATTTGGCATCTCTATATTGGTAGAG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAG
14613652 AGCAGA-CTGAAGATAACAGATT
1 AGCAGATC-GAAGATAACAGATT
14613674 GGTGTTCTTG
Statistics
Matches: 201, Mismatches: 36, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
43 7 0.03
44 153 0.76
45 9 0.04
46 10 0.05
47 17 0.08
48 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (44 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAG
Found at i:14613916 original size:8 final size:8
Alignment explanation
Indices: 14613890--14613928 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
14613880 CCCATACATT
*
14613890 AATAAATA
1 AATAAAAA
* *
14613898 AATGAATA
1 AATAAAAA
14613906 AATAAAAA
1 AATAAAAA
14613914 AATAAAAA
1 AATAAAAA
14613922 AATAAAA
1 AATAAAA
14613929 GTTTATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (8 bp):
AATAAAAA
Found at i:14615273 original size:7 final size:7
Alignment explanation
Indices: 14615256--14615355 Score: 53
Period size: 7 Copynumber: 13.6 Consensus size: 7
14615246 ACATCCATTA
14615256 TATTATAT
1 TATT-TAT
14615264 TATTTAT
1 TATTTAT
14615271 TATTTAT
1 TATTTAT
*
14615278 TATTTTT
1 TATTTAT
14615285 TATTT-T
1 TATTTAT
*
14615291 TAAATTA-
1 T-ATTTAT
*
14615298 CATGTTAT
1 TAT-TTAT
14615306 TATATT-T
1 TAT-TTAT
14615313 TATTATAT
1 TATT-TAT
*
14615321 ATATAATAT
1 -TAT-TTAT
14615330 TATTATAT
1 TATT-TAT
*
14615338 TTTTTAT
1 TATTTAT
*
14615345 TATGTAT
1 TATTTAT
14615352 TATT
1 TATT
14615356 ACAAAATTAT
Statistics
Matches: 71, Mismatches: 12, Indels: 19
0.70 0.12 0.19
Matches are distributed among these distances:
6 4 0.06
7 43 0.61
8 18 0.25
9 6 0.08
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (7 bp):
TATTTAT
Found at i:14615441 original size:24 final size:24
Alignment explanation
Indices: 14615414--14615480 Score: 57
Period size: 24 Copynumber: 2.9 Consensus size: 24
14615404 TTTATATTTC
14615414 ATTATATTTTATTTTTTATTACAT
1 ATTATATTTTATTTTTTATTACAT
* * ** *
14615438 ATTACATATTACATTTTATTATAT
1 ATTATATTTTATTTTTTATTACAT
* *
14615462 ATT-T-TTATATTATTTATTA
1 ATTATATTTTATTTTTTATTA
14615481 TATGGTTTAT
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
22 10 0.31
24 22 0.69
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTATATTTTATTTTTTATTACAT
Found at i:14615489 original size:12 final size:11
Alignment explanation
Indices: 14615452--14615512 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
14615442 CATATTACAT
14615452 TTTATTATATA
1 TTTATTATATA
14615463 TTT-TTATATTA
1 TTTATTATA-TA
*
14615474 TTTATTATATGG
1 TTTATTATAT-A
14615486 TTTA-TAT-TA
1 TTTATTATATA
14615495 -TTA-TATATA
1 TTTATTATATA
*
14615504 TTTCTTATA
1 TTTATTATA
14615513 AGTTATATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
8 6 0.15
9 2 0.05
10 8 0.20
11 16 0.39
12 9 0.22
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (11 bp):
TTTATTATATA
Found at i:14615511 original size:21 final size:19
Alignment explanation
Indices: 14615456--14615512 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 19
14615446 TTACATTTTA
14615456 TTATATATTTTTATATTAT
1 TTATATATTTTTATATTAT
*
14615475 TTATTATATGGTTTATATTAT
1 TTA-TATAT-TTTTATATTAT
14615496 TATATATATTTCTTATA
1 T-TATATATTT-TTATA
14615513 AGTTATATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 3 0.09
20 6 0.19
21 21 0.66
22 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
TTATATATTTTTATATTAT
Found at i:14627712 original size:20 final size:20
Alignment explanation
Indices: 14627674--14627712 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14627664 TGGAGTAGGA
**
14627674 ATATCGATACCTTGGAAAAC
1 ATATCGATACCTTAAAAAAC
14627694 ATATCGATACCTTAAAAAA
1 ATATCGATACCTTAAAAAA
14627713 ATTATCAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (20 bp):
ATATCGATACCTTAAAAAAC
Found at i:14638141 original size:47 final size:47
Alignment explanation
Indices: 14638083--14638212 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 47
14638073 GTACGAATAA
* * **
14638083 TACCTTGATTTGGCTACGGGCCATGGTTTAGGTA-T-TTGGAAAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGAAA-G-GT
* *
14638130 TACCTTGATTTGGCTATAGGCCATGGTATAGGTACTCCGGGATAGGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGAAAGGT
* *
14638177 TACCTTGATTTGTCTATGGGCCATGGTATAAGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
14638213 TATTGATTGT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
47 66 0.92
48 2 0.03
49 4 0.06
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGAAAGGT
Found at i:14643330 original size:25 final size:25
Alignment explanation
Indices: 14643302--14643349 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
14643292 CATCAACGAG
*
14643302 TTAGTCACATAAGTGCATGTAATAT
1 TTAGTCACACAAGTGCATGTAATAT
14643327 TTAGTCACACAAGTGCATGTAAT
1 TTAGTCACACAAGTGCATGTAAT
14643350 CATCCATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (25 bp):
TTAGTCACACAAGTGCATGTAATAT
Found at i:14643657 original size:24 final size:24
Alignment explanation
Indices: 14643630--14643722 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 24
14643620 AGATATGATC
*
14643630 AGTAAGCTCTTCCTGAGCTG-AAAT
1 AGTAAGCTCTTAC-GAGCTGAAAAT
* *
14643654 AGTAAGCTCTGACGAGTTGAAAAT
1 AGTAAGCTCTTACGAGCTGAAAAT
* * *
14643678 AGTAAGCTCTTGCGAACTGATATAT
1 AGTAAGCTCTTACGAGCTGA-AAAT
* *
14643703 CGGTAAGCTCATACGAGCTG
1 -AGTAAGCTCTTACGAGCTG
14643723 TGGTGAGTCT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
23 5 0.09
24 31 0.57
25 3 0.06
26 15 0.28
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (24 bp):
AGTAAGCTCTTACGAGCTGAAAAT
Found at i:14652690 original size:4 final size:4
Alignment explanation
Indices: 14652681--14652705 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14652671 TTACTACTAA
14652681 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
14652706 TTTTTTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:14653881 original size:25 final size:27
Alignment explanation
Indices: 14653822--14653882 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 27
14653812 TTTAATAAAA
* *
14653822 ATTTTAA-AATGTAAAAATGAAATAGT
1 ATTTTAAGAAAGTAAAAATGAAAAAGT
**
14653848 ATTAAAAGAAAGT-AAAAT-AAAAAGT
1 ATTTTAAGAAAGTAAAAATGAAAAAGT
14653873 ATTTTAAGAA
1 ATTTTAAGAA
14653883 GATAAATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 14 0.50
26 10 0.36
27 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (27 bp):
ATTTTAAGAAAGTAAAAATGAAAAAGT
Found at i:14668338 original size:26 final size:26
Alignment explanation
Indices: 14668309--14668367 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
14668299 GTGTACATTT
* *
14668309 TCTCAATTCAAGCATTCATCATTCAA
1 TCTCAATTCAAGCATTAAGCATTCAA
14668335 TCTCAATTCAAGCATTAAGCATTCAA
1 TCTCAATTCAAGCATTAAGCATTCAA
*
14668361 TGTCAAT
1 TCTCAAT
14668368 CAATTTGTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
TCTCAATTCAAGCATTAAGCATTCAA
Found at i:14669964 original size:24 final size:23
Alignment explanation
Indices: 14669889--14669979 Score: 137
Period size: 23 Copynumber: 3.9 Consensus size: 23
14669879 AGTTGATGGG
*
14669889 CAGTAAGCTCTAATGAGCTGAAA
1 CAGTAAGCTCTGATGAGCTGAAA
*
14669912 CAGTAAGCTTTGATGAGCTGAAA
1 CAGTAAGCTCTGATGAGCTGAAA
14669935 CAGTAAGCTCTGATGAGCTGAAAA
1 CAGTAAGCTCTGATGAGCTG-AAA
* *
14669959 CAGTAAGCTCTTACGAGCTGA
1 CAGTAAGCTCTGATGAGCTGA
14669980 TATATTGGTA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 41 0.66
24 21 0.34
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (23 bp):
CAGTAAGCTCTGATGAGCTGAAA
Found at i:14684289 original size:11 final size:12
Alignment explanation
Indices: 14684275--14684309 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
14684265 AGAAAAAAAA
14684275 AAGAGAG-AGGG
1 AAGAGAGAAGGG
14684286 AAGAGAGAAGGG
1 AAGAGAGAAGGG
14684298 -AGAGAGAAGGG
1 AAGAGAGAAGGG
14684309 A
1 A
14684310 GGGGAATCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:14685870 original size:175 final size:175
Alignment explanation
Indices: 14685486--14686416 Score: 1106
Period size: 175 Copynumber: 5.3 Consensus size: 175
14685476 CCAAATACAT
* * * * * * * * * *
14685486 GAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCG
1 GAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCT
* * * * * * ** * * *
14685550 TCAATCCACTTC-CTACCAATATAGGAAGACCAGATCTGCTACCTTTGATCTACTTC-ACGCCAA
64 TCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAA
*** * * * * *
14685613 TACATGAAGACAAGATCTGCTTTC-TGCAATCTACTTCGCCACCAATATGG
128 TATGGGAAGACAAGATCTGC-ATCGT-CGATCCACTTC-CTACCAATATAG
14685663 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
14685728 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
14685793 GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAG
131 GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAG
* * * *
14685838 GAAGATAGGATCTGCATCGTCGATCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
14685903 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
14685968 GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAG
131 GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAG
* * *
14686013 GAAGATAGGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
*
14686078 GATCTATTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
66 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
14686143 GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAG
131 GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAG
* * * * * * * * **
14686188 GAAGACAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCT
* * *** * * * *
14686252 TCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTACCAA
64 TCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAA
* * * * * *
14686315 TATAGGAAGACAGGACCTGCTATCTTCGATCTACTT-C-ACGTCAATATGG
128 TATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTCCTAC--CAATATAG
* * *
14686364 GAAGACAAGATTTGTATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGA
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGA
14686417 CCTATTTACG
Statistics
Matches: 670, Mismatches: 73, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
174 3 0.00
175 442 0.66
176 164 0.24
177 61 0.09
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (175 bp):
GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT
GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAG
Found at i:14686141 original size:307 final size:308
Alignment explanation
Indices: 14685411--14686374 Score: 1418
Period size: 307 Copynumber: 3.1 Consensus size: 308
14685401 AAAATTTGCC
* * * * *
14685411 ATCTTCGATCTTCTTCGCTGCCAAATACAGGAAGGCAAGATCTG-TAATCTTCGATCTACTTCAC
1 ATCTTCGATCTACTTCAC-ACC-AATACAGGAAGACAAGATCTGCT-ACCTTCGATCTACTTCAC
* *
14685475 GCCAAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
63 GCC-AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
* *
14685540 ATCTGCATCGTCAATCCACTTCCTACCAATATAGGAAGACCA-GATCTGCTACCTTTGATCTACT
127 ATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGA-CAGGATCTGCTACCTTCGATCTACT
* *
14685604 TCACGCCAATACATGAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGAC
191 TCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGAC
*
14685669 AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
256 AAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
* * * ** * *
14685722 ACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTACCTTCGATCTACTTC-ACGC
*** * * * * * * *
14685787 CAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAAGATAGGATC
65 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
* *
14685850 TGCATCGTCGATCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCAC
130 TGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTACCTTCGATCTACTTCAC
14685915 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGA
195 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGA
14685980 TCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGC-
260 TCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
* * * * * *
14686028 ATCGTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTATTTCACGC
1 ATCTTCGATCTACTTCAC-ACCAATACAGGAAGACAAGATCTGCTACCTTCGATCTACTTCACGC
14686092 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
65 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
* *
14686157 TGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCAC
130 TGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTACCTTCGATCTACTTCAC
14686222 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGA
195 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGA
* *
14686287 TCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCT
260 TCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
** **
14686336 ATCTTCGATCTACTTCACGTCAATATGGGAAGACAAGAT
1 ATCTTCGATCTACTTCACACCAATACAGGAAGACAAGAT
14686375 TTGTATCTTT
Statistics
Matches: 582, Mismatches: 63, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
305 23 0.04
306 61 0.10
307 380 0.65
308 43 0.07
309 53 0.09
310 7 0.01
311 15 0.03
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (308 bp):
ATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTACCTTCGATCTACTTCACGCC
AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
GCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTACCTTCGATCTACTTCACG
CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCT
Found at i:14686352 original size:132 final size:133
Alignment explanation
Indices: 14685411--14686411 Score: 969
Period size: 132 Copynumber: 7.6 Consensus size: 133
14685401 AAAATTTGCC
* * * * *
14685411 ATCTTCGATCTTCTTCGCTGCCAAATACAGGAAGGCAAGATCTG-TAATCTTCGATCTACTTCAC
1 ATCTTCGATCTACTTC-CTACC-AATATAGGAAGACAAGATCTGCT-ATCTTCGATCTACTTCCC
* * * * * * * *
14685475 GCCAAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
63 ACC-AATATAGGAAGACAAGATCTGCTATCGTCGATCTACTTCGCCACCAATATAGGAAGACAAG
14685540 ATCTGC-
127 ATCTGCT
* * * * * * * *
14685546 ATCGTCAATCCACTTCCTACCAATATAGGAAGACCAGATCTGCTACCTTTGATCTACTTCACGCC
1 ATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCACC
* * * * *
14685611 AATACATGAAGACAAGATCTGCTTTC-TGCAATCTACTTCGCCACCAATATGGGAAGACAAGATC
66 AATATAGGAAGACAAGATCTGCTATCGT-CGATCTACTTCGCCACCAATATAGGAAGACAAGATC
14685675 TGC-
130 TGCT
* * * * * *
14685678 ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCC
1 ATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCACC
* * * * *
14685743 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
66 AATATAGGAAGACAAGATCTGCTATCGTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCT
14685808 GC-
131 GCT
* * * * * *
14685810 ATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGC-ATCGTCGATCTACTTCCTACC
1 ATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCACC
* * * * * * * *
14685874 AATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCT
66 AATATAGGAAGACAAGATCTGCTATCGTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCT
14685938 GCT
131 GCT
* * * * * *
14685941 TTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTCCTAC
1 ATCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCAC
* * * * * *
14686005 CAATATAGGAAGATAGGATCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAAGATAGGATC
65 CAATATAGGAAGACAAGATCTGCTATCGTCGATCTACTTCGCCACCAATATAGGAAGACAAGATC
14686068 TGCT
130 TGCT
* * * * * *
14686072 ACCTTCGATCTATTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 ATCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-CCA
* * * * *
14686136 CCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAAGACAGGAC
64 CCAATATAGGAAGACAAGATCTGCTATCGTCGATCTACTTCGCCACCAATATAGGAAGACAAGAT
14686199 CTGCT
129 CTGCT
* * * *
14686204 ATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 ATCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-CCA
* * * * *
14686268 CCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAAGACAGGAC
64 CCAATATAGGAAGACAAGATCTGCTATCGTCGATCTACTTCGCCACCAATATAGGAAGACAAGAT
14686331 CTGCT
129 CTGCT
* * * * *
14686336 ATCTTCGATCTACTT-C-ACGTCAATATGGGAAGACAAGATTTG-TATCTTTGATCCACTTCCTA
1 ATCTTCGATCTACTTCCTAC--CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCA
14686398 CCAATATAGGAAGA
64 CCAATATAGGAAGA
14686412 TAGGACCTAT
Statistics
Matches: 773, Mismatches: 84, Indels: 23
0.88 0.10 0.03
Matches are distributed among these distances:
130 60 0.08
131 138 0.18
132 520 0.67
133 38 0.05
134 5 0.01
135 12 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (133 bp):
ATCTTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCCCACC
AATATAGGAAGACAAGATCTGCTATCGTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCT
GCT
Found at i:14707566 original size:13 final size:13
Alignment explanation
Indices: 14707548--14707572 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14707538 TGTTGGTTCA
14707548 CACGGCCGTGTCG
1 CACGGCCGTGTCG
14707561 CACGGCCGTGTC
1 CACGGCCGTGTC
14707573 CTACTTCGTT
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:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:14721118 original size:26 final size:26
Alignment explanation
Indices: 14721089--14721147 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
14721079 GTCTACATTT
* *
14721089 TCTCAATTCAAGCATTCATCATTCAA
1 TCTCAATTCAAGCATTAAGCATTCAA
14721115 TCTCAATTCAAGCATTAAGCATTCAA
1 TCTCAATTCAAGCATTAAGCATTCAA
*
14721141 TGTCAAT
1 TCTCAAT
14721148 CAATTTGTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
TCTCAATTCAAGCATTAAGCATTCAA
Found at i:14728545 original size:20 final size:21
Alignment explanation
Indices: 14728496--14728545 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
14728486 CCCATCCCCT
*
14728496 TGCAATATGTCATGCATCGTA
1 TGCAATATATCATGCATCGTA
*
14728517 T-C-ATAATATCATTCAT-GTA
1 TGCAAT-ATATCATGCATCGTA
14728536 TGCAATATAT
1 TGCAATATAT
14728546 ATGAAATGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
19 6 0.25
20 15 0.62
21 3 0.12
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (21 bp):
TGCAATATATCATGCATCGTA
Found at i:14741709 original size:15 final size:15
Alignment explanation
Indices: 14741685--14741721 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
14741675 GATCCATTAC
*
14741685 TATACGAAAACATAG
1 TATACAAAAACATAG
14741700 TATACAAAAACATAG
1 TATACAAAAACATAG
*
14741715 TTTACAA
1 TATACAA
14741722 TGTCAGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.24
Consensus pattern (15 bp):
TATACAAAAACATAG
Found at i:14743505 original size:23 final size:22
Alignment explanation
Indices: 14743475--14743540 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
14743465 GCTGATGGGC
14743475 AGTAAGCTTTAATGAGCT-AAACT
1 AGTAAGCTTT-ATGAGCTGAAA-T
* *
14743498 AGTAAGCTTTGACGACCTGAAAT
1 AGTAAGCTTT-ATGAGCTGAAAT
14743521 AGTAAGCTCTTATGAGCTGA
1 AGTAAGCT-TTATGAGCTGA
14743541 TATATCGGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 31 0.86
24 5 0.14
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (22 bp):
AGTAAGCTTTATGAGCTGAAAT
Found at i:14746662 original size:27 final size:27
Alignment explanation
Indices: 14746604--14746711 Score: 139
Period size: 27 Copynumber: 4.0 Consensus size: 27
14746594 ATGGCTGCCA
* *
14746604 AACAGATAA-TGTGACAGAGTCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
*
14746630 ATACAGATAATCGTGGCAGAGCCACCAG
1 A-ACAGATAATTGTGGCAGAGCCACCAG
14746658 AACAGA-AATATGTGGCAGAGCCACCAG
1 AACAGATAAT-TGTGGCAGAGCCACCAG
* *
14746685 ATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATAATTGTGGCAGAGCCACCAG
14746712 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 4 0.06
27 50 0.69
28 18 0.25
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
AACAGATAATTGTGGCAGAGCCACCAG
Found at i:14746700 original size:54 final size:54
Alignment explanation
Indices: 14746604--14746711 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
14746594 ATGGCTGCCA
* *
14746604 AACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAG
1 AACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
* * *
14746658 AACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAG
1 AACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
14746712 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 30 0.62
55 18 0.38
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
AACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
Found at i:14748152 original size:23 final size:23
Alignment explanation
Indices: 14748123--14748191 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
14748113 CTAGATTTCC
**
14748123 TCCCTTATCTGCTCCTAATCCTA
1 TCCCTTATCAACTCCTAATCCTA
*
14748146 TCCCTTATCAACTCCAAATCCTA
1 TCCCTTATCAACTCCTAATCCTA
14748169 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCT-AATCCT
14748192 CTCCTGACAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 35 0.85
24 6 0.15
ACGTcount: A:0.25, C:0.39, G:0.01, T:0.35
Consensus pattern (23 bp):
TCCCTTATCAACTCCTAATCCTA
Found at i:14754441 original size:27 final size:26
Alignment explanation
Indices: 14754406--14754518 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 26
14754396 AGCATGGCTG
*
14754406 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
14754432 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
*
14754460 CCAGAACAGAAATATGTGGA-AGAGCCA
1 CCAGAACAGATA-ATGT-GACAGAGCCA
* * *
14754487 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
14754514 CCAGA
1 CCAGA
14754519 CGCTTCCTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
26 7 0.10
27 48 0.66
28 18 0.25
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:14754497 original size:54 final size:54
Alignment explanation
Indices: 14754406--14754518 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
14754396 AGCATGGCTG
* *
14754406 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* *
14754460 CCAGAACAGAAATATGTGGA-AGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGT-GACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
14754514 CCAGA
1 CCAGA
14754519 CGCTTCCTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 35 0.66
55 16 0.30
56 2 0.04
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:14755961 original size:24 final size:24
Alignment explanation
Indices: 14755934--14756004 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
14755924 CTAGATTTCC
**
14755934 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
14755958 TCCCTTATCAACTCCTAAGTCCTA
1 TCCCTTATCAACTCCTAAATCCTA
14755982 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
14756005 CTCCTGACAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.24, C:0.38, G:0.03, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:14756472 original size:14 final size:15
Alignment explanation
Indices: 14756445--14756477 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
14756435 TATGACCCAT
14756445 TCATTCCTTCATTAA
1 TCATTCCTTCATTAA
*
14756460 TCATTCC-TCATTAC
1 TCATTCCTTCATTAA
14756474 TCAT
1 TCAT
14756478 CATTCCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.45
Consensus pattern (15 bp):
TCATTCCTTCATTAA
Done.