Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 57 of 344
Found at i:18384567 original size:18 final size:18
Alignment explanation
Indices: 18384544--18384598 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
18384534 TCCATTCCAA
18384544 TTTAACTTCATTTGATTC
1 TTTAACTTCATTTGATTC
* ** *
18384562 TTTAACTCCATTCCA--A
1 TTTAACTTCATTTGATTC
18384578 TTTAACTTCATTTGATTC
1 TTTAACTTCATTTGATTC
18384596 TTT
1 TTT
18384599 TTAATAGTAT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
16 12 0.44
18 15 0.56
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.53
Consensus pattern (18 bp):
TTTAACTTCATTTGATTC
Found at i:18384567 original size:34 final size:34
Alignment explanation
Indices: 18384529--18384598 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
18384519 CAGTAAATGA
18384529 TTAACTCCATTCCAATTTAACTTCATTTGATTCT
1 TTAACTCCATTCCAATTTAACTTCATTTGATTCT
18384563 TTAACTCCATTCCAATTTAACTTCATTTGATTCT
1 TTAACTCCATTCCAATTTAACTTCATTTGATTCT
18384597 TT
1 TT
18384599 TTAATAGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.49
Consensus pattern (34 bp):
TTAACTCCATTCCAATTTAACTTCATTTGATTCT
Found at i:18385707 original size:20 final size:21
Alignment explanation
Indices: 18385678--18385722 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
18385668 TTTTTTAAAA
18385678 TATTTATTTTATTTTAATATT
1 TATTTATTTTATTTTAATATT
**
18385699 TATTT-TTTTATTTTTTTATT
1 TATTTATTTTATTTTAATATT
18385719 TATT
1 TATT
18385723 GAAAGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (21 bp):
TATTTATTTTATTTTAATATT
Found at i:18398686 original size:17 final size:18
Alignment explanation
Indices: 18398661--18398696 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
18398651 TACCTTCAAA
*
18398661 ATAATATAATT-TATTTT
1 ATAAAATAATTGTATTTT
18398678 ATAAAATAATTGTATTTT
1 ATAAAATAATTGTATTTT
18398696 A
1 A
18398697 ATCATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATAAAATAATTGTATTTT
Found at i:18405714 original size:39 final size:39
Alignment explanation
Indices: 18405647--18405746 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
18405637 TCGTGATCTG
*
18405647 AAGCCCG-AAGTCTAACTGAAGCACATAAGTGCTAAACGA
1 AAGCCCGAAAG-CTAACTGAAGCAAATAAGTGCTAAACGA
* *
18405686 AAGCTCGAAAGCTAACTGAAGCAAATAAGTGCTAAACGG
1 AAGCCCGAAAGCTAACTGAAGCAAATAAGTGCTAAACGA
*
18405725 AAGCCCGAAGGCTAACTGAAGC
1 AAGCCCGAAAGCTAACTGAAGC
18405747 TCACCAGAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 52 0.95
40 3 0.05
ACGTcount: A:0.41, C:0.22, G:0.23, T:0.14
Consensus pattern (39 bp):
AAGCCCGAAAGCTAACTGAAGCAAATAAGTGCTAAACGA
Found at i:18413647 original size:39 final size:39
Alignment explanation
Indices: 18413593--18413681 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 39
18413583 AGCTCGAAGT
18413593 CTAACTGAAGCACATAAGTGCTAAAC-GAAAGCCCGAAAG
1 CTAACTGAAGCACATAAGTGCTAAACAG-AAGCCCGAAAG
*
18413632 CTAACTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGG
1 CTAACTGAAGCACATAAGTGCTAAACAGAAGCCCGAAAG
*
18413671 ATAACTGAAGC
1 CTAACTGAAGC
18413682 TCACAGAGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 46 0.98
40 1 0.02
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.13
Consensus pattern (39 bp):
CTAACTGAAGCACATAAGTGCTAAACAGAAGCCCGAAAG
Found at i:18415161 original size:11 final size:11
Alignment explanation
Indices: 18415145--18415179 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
18415135 TAAAAACACA
18415145 AAAAATTCAAG
1 AAAAATTCAAG
18415156 AAAAATTCAAG
1 AAAAATTCAAG
18415167 AAATAA-TCAAG
1 AAA-AATTCAAG
18415178 AA
1 AA
18415180 TTGAACTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 21 0.91
12 2 0.09
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (11 bp):
AAAAATTCAAG
Found at i:18416486 original size:64 final size:64
Alignment explanation
Indices: 18416385--18416509 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
18416375 TCATATATCT
*
18416385 ATGCTTATGCCAAATTATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATATG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATATG
* *
18416449 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGAT
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGAT
18416510 GTGTTATGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATATG
Found at i:18428063 original size:27 final size:28
Alignment explanation
Indices: 18428033--18428104 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 28
18428023 AAAGAAAGCC
*
18428033 AAATTATTACATAAATAAATTT-TAAGA
1 AAATTATTACATAAATAAATTTAAAAGA
* *
18428060 AAATTAATATATATAATAAATTTAAAAGA
1 AAATTATTACATA-AATAAATTTAAAAGA
*
18428089 AAAGATATTACATAAA
1 AAA-TTATTACATAAA
18428105 ATATTATGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 11 0.31
28 9 0.25
29 9 0.25
30 7 0.19
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (28 bp):
AAATTATTACATAAATAAATTTAAAAGA
Found at i:18428103 original size:28 final size:26
Alignment explanation
Indices: 18428037--18428103 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 26
18428027 AAAGCCAAAT
* *
18428037 TATTACATAAATAAATTTTAAGAAAAT
1 TATTACAT-AATAAATTTAAAGAAAAA
*
18428064 TAATATATATAATAAATTTAAAAGAAAAGA
1 T-AT-TACATAATAAATTT-AAAGAAAA-A
18428094 TATTACATAA
1 TATTACATAA
18428104 AATATTATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
27 1 0.03
28 17 0.53
29 13 0.41
30 1 0.03
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.34
Consensus pattern (26 bp):
TATTACATAATAAATTTAAAGAAAAA
Found at i:18447460 original size:14 final size:14
Alignment explanation
Indices: 18447441--18447470 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18447431 GTATTGATAC
18447441 TTTACCCCTTTAGA
1 TTTACCCCTTTAGA
18447455 TTTACCCCTTTAGA
1 TTTACCCCTTTAGA
18447469 TT
1 TT
18447471 AGGTTGTGAC
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:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (14 bp):
TTTACCCCTTTAGA
Found at i:18448941 original size:17 final size:17
Alignment explanation
Indices: 18448919--18448951 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18448909 GCCCTATTTT
18448919 CAAATTTTATTTTTTGA
1 CAAATTTTATTTTTTGA
18448936 CAAATTTTATTTTTTG
1 CAAATTTTATTTTTTG
18448952 GTGACCAAAA
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:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
CAAATTTTATTTTTTGA
Found at i:18449276 original size:108 final size:108
Alignment explanation
Indices: 18449083--18449404 Score: 527
Period size: 108 Copynumber: 3.0 Consensus size: 108
18449073 ACTATCTAAA
* *
18449083 AAAATGCAAAAATTGTCTCCGGTAGTGATTTATGGCCACCATGCTTTGTCATGCCAATCATCAAC
1 AAAATGCAAAAATTGTCTCCGATAGTGA-TTATGACCACCATGCTTTGTCATGCCAATCATCAAC
*
18449148 TCAAGTTCAAGCTTCGTCTATTTAAAGTTCTCATGGTTCTAGGG
65 TCAAGTTCAAGCTTCATCTATTTAAAGTTCTCATGGTTCTAGGG
* *
18449192 AAAATGCAAAAATTGTCTCTGATAGTGAGTATGACCACCATGCTTTGTCATGCCAATCATCAACT
1 AAAATGCAAAAATTGTCTCCGATAGTGATTATGACCACCATGCTTTGTCATGCCAATCATCAACT
* *
18449257 CAAGTTCAAGCTTCTTCTATTTAAAGTTCTCATTGTTCTAGGG
66 CAAGTTCAAGCTTCATCTATTTAAAGTTCTCATGGTTCTAGGG
* * *
18449300 TAAATGTAAAAATTGTCTCCGATAGTGATTATGACCACCATGCTCTGTCATGCCAATCATCAACT
1 AAAATGCAAAAATTGTCTCCGATAGTGATTATGACCACCATGCTTTGTCATGCCAATCATCAACT
* *
18449365 CAAGTTCATGCTTCATCTATTTAAAGTTTTCATGGTTCTA
66 CAAGTTCAAGCTTCATCTATTTAAAGTTCTCATGGTTCTA
18449405 CAACCAATTA
Statistics
Matches: 198, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
108 172 0.87
109 26 0.13
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (108 bp):
AAAATGCAAAAATTGTCTCCGATAGTGATTATGACCACCATGCTTTGTCATGCCAATCATCAACT
CAAGTTCAAGCTTCATCTATTTAAAGTTCTCATGGTTCTAGGG
Found at i:18455764 original size:33 final size:33
Alignment explanation
Indices: 18455726--18455868 Score: 94
Period size: 33 Copynumber: 4.3 Consensus size: 33
18455716 AATTGACGGA
* *
18455726 TAAGACCATGGCTGGGCCATGGCAATATATGTG
1 TAAGACCATAGCTAGGCCATGGCAATATATGTG
* * * *
18455759 TAAGACCATAGCTAAGCTATGGC-ATCCTGATG-A
1 TAAGACCATAGCTAGGCCATGGCAAT-AT-ATGTG
* ** ** *
18455792 TAAGACCATATCTAGGATATGGCACCACGA-GTG
1 TAAGACCATAGCTAGGCCATGGCAATA-TATGTG
* * * *
18455825 TAAGACCATGGCTGGGCCATGGCAATACACGTG
1 TAAGACCATAGCTAGGCCATGGCAATATATGTG
18455858 TAAGACCATAG
1 TAAGACCATAG
18455869 TTAGACTATG
Statistics
Matches: 81, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
32 4 0.05
33 74 0.91
34 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (33 bp):
TAAGACCATAGCTAGGCCATGGCAATATATGTG
Found at i:18456016 original size:91 final size:92
Alignment explanation
Indices: 18455886--18456053 Score: 203
Period size: 91 Copynumber: 1.8 Consensus size: 92
18455876 ATGGCATCAT
* * * * * ** *
18455886 ACAAAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCGCGAT-TCAAATGTGTAAGACC
1 ACAAAAAATGAATAAGACCATAGCTGAAAGACACCATGGCAACACGATAGAAAATGAGTAAGACC
*
18455950 ATGGTTGAAAGATACAATGGCAATGTG
66 ATAGTTGAAAGATACAATGGCAATGTG
* * * * *
18455977 ACAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGTAAGACC
1 ACAAAAAATGAATAAGACCATAGCTGAAAGACACCATGGCAACACGATAGAAAATGAGTAAGACC
18456042 ATAGTTGAAAGA
66 ATAGTTGAAAGA
18456054 CGCTATGGCA
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
91 38 0.61
92 24 0.39
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (92 bp):
ACAAAAAATGAATAAGACCATAGCTGAAAGACACCATGGCAACACGATAGAAAATGAGTAAGACC
ATAGTTGAAAGATACAATGGCAATGTG
Found at i:18456062 original size:46 final size:45
Alignment explanation
Indices: 18455889--18456068 Score: 162
Period size: 46 Copynumber: 4.0 Consensus size: 45
18455879 GCATCATACA
* * * **
18455889 AAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCGCGAT
1 AAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCAACATGAT
** * * * * ** *
18455934 TCAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAATGTGAC
1 AAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCAACATGAT
* * * *
18455979 AAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 AA-AAATGAGTAAGACCATAGTTGAAAGACACTATGGCAACATGAT
* *
18456025 AGAAAATGAGTAAGACCATAGTTGAAAGACGCTATGGCATCATG
1 A-AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCAACATG
18456069 TCAAAGATAA
Statistics
Matches: 107, Mismatches: 26, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
45 33 0.31
46 73 0.68
47 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (45 bp):
AAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCAACATGAT
Found at i:18459222 original size:20 final size:18
Alignment explanation
Indices: 18459197--18459233 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
18459187 AATCACATTA
18459197 ATATTACATATTCCAATTTC
1 ATATTACAT-TT-CAATTTC
18459217 ATATTACATTTCAATTT
1 ATATTACATTTCAATTT
18459234 TCACACTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTACATTTCAATTTC
Found at i:18459779 original size:20 final size:20
Alignment explanation
Indices: 18459756--18459803 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
18459746 TATTATAATA
*
18459756 AATATATATACATTAATGT-T
1 AATATATATACA-TAATATAT
* *
18459776 AATACATATATATAATATAT
1 AATATATATACATAATATAT
18459796 AATATATA
1 AATATATA
18459804 ATATATACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (20 bp):
AATATATATACATAATATAT
Found at i:18459795 original size:7 final size:7
Alignment explanation
Indices: 18459783--18459810 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
18459773 GTTAATACAT
18459783 ATATATA
1 ATATATA
18459790 ATATATA
1 ATATATA
18459797 ATATATA
1 ATATATA
18459804 ATATATA
1 ATATATA
18459811 CATGCATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATATA
Found at i:18460127 original size:9 final size:9
Alignment explanation
Indices: 18460115--18460146 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
18460105 TCCTTTCTCC
18460115 CTTTCTTTT
1 CTTTCTTTT
18460124 C-TT-TTTT
1 CTTTCTTTT
18460131 CTTTCTTTT
1 CTTTCTTTT
18460140 CTTTCTT
1 CTTTCTT
18460147 AATTTTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 5 0.24
8 4 0.19
9 12 0.57
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (9 bp):
CTTTCTTTT
Found at i:18460259 original size:7 final size:7
Alignment explanation
Indices: 18460247--18460277 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
18460237 GTTAATACAT
18460247 ATATATA
1 ATATATA
18460254 ATATATA
1 ATATATA
18460261 ATATATA
1 ATATATA
18460268 ATATATA
1 ATATATA
18460275 ATA
1 ATA
18460278 CATACAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATATA
Found at i:18465260 original size:18 final size:18
Alignment explanation
Indices: 18465233--18465267 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18465223 GGATCTAGGT
18465233 TTTCTTTTTTA-ATTTTC
1 TTTCTTTTTTATATTTTC
18465250 TTTCATTTTTTATATTTT
1 TTTC-TTTTTTATATTTT
18465268 TTCATACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTCTTTTTTATATTTTC
Found at i:18467364 original size:18 final size:18
Alignment explanation
Indices: 18467343--18467393 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
18467333 TTTAACAGTC
*
18467343 AATTATTCAGTAACGATA
1 AATTATTCAGTAACAATA
* *
18467361 AATTATTCAGTAATAATC
1 AATTATTCAGTAACAATA
18467379 AATTATTCAGTAACA
1 AATTATTCAGTAACA
18467394 TTTTTTACGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (18 bp):
AATTATTCAGTAACAATA
Found at i:18467577 original size:6 final size:6
Alignment explanation
Indices: 18467568--18467602 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
18467558 GAATACATCA
*
18467568 TAACGG TAACAG TAACAG TAACAG TAACAG TAACA
1 TAACAG TAACAG TAACAG TAACAG TAACAG TAACA
18467603 ATAGCGGTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
TAACAG
Found at i:18467683 original size:51 final size:52
Alignment explanation
Indices: 18467587--18467712 Score: 155
Period size: 51 Copynumber: 2.4 Consensus size: 52
18467577 CAGTAACAGT
* * *
18467587 AACAGTAACAGTAACAATAGCGGTACACAGAGTACCTCATCGGAACAAATTCGA
1 AACAGTAACAGTAACAGTA-AGGTA-ACAGAGTACCTCATCGGAACAAATCCGA
* * * *
18467641 AACAGTAACAGTAACAGTAAGGT-ACGGAGTACCTCTTCGGAACGAATCCGG
1 AACAGTAACAGTAACAGTAAGGTAACAGAGTACCTCATCGGAACAAATCCGA
*
18467692 AACAGTAACAGTAGCAGTAAG
1 AACAGTAACAGTAACAGTAAG
18467713 ACGACACTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
51 43 0.67
53 3 0.05
54 18 0.28
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (52 bp):
AACAGTAACAGTAACAGTAAGGTAACAGAGTACCTCATCGGAACAAATCCGA
Found at i:18468714 original size:19 final size:20
Alignment explanation
Indices: 18468692--18468732 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
18468682 CAAACCCTAA
*
18468692 TTCTCCCTT-TTTCTTTTCT
1 TTCTCCCTTCTTTCTTTCCT
*
18468711 TTCTCCTTTCTTTCTTTCCT
1 TTCTCCCTTCTTTCTTTCCT
18468731 TT
1 TT
18468733 TCGTTTGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (20 bp):
TTCTCCCTTCTTTCTTTCCT
Found at i:18468787 original size:18 final size:18
Alignment explanation
Indices: 18468749--18468787 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
18468739 GCCTATTCTG
*
18468749 TTTCTTTTCTTTGTTTCA
1 TTTCTTTTCTTTCTTTCA
18468767 TTTCTTTTTCTTTCTTT-A
1 TTTC-TTTTCTTTCTTTCA
18468785 TTT
1 TTT
18468788 ACTATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTCTTTTCTTTCTTTCA
Found at i:18478355 original size:18 final size:18
Alignment explanation
Indices: 18478314--18478356 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
18478304 TTCTTAATAA
*
18478314 ATATGTAGTTTATATAGT
1 ATATGTTGTTTATATAGT
* * *
18478332 AAATGTTGTTTATTTATT
1 ATATGTTGTTTATATAGT
18478350 ATATGTT
1 ATATGTT
18478357 TGAATTAACA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (18 bp):
ATATGTTGTTTATATAGT
Found at i:18480386 original size:18 final size:19
Alignment explanation
Indices: 18480355--18480390 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18480345 GTTTAAGAAC
18480355 ATATAATATATAAATTATT
1 ATATAATATATAAATTATT
*
18480374 ATAT-ATATGTAAATTAT
1 ATATAATATATAAATTAT
18480391 GAATGTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
ATATAATATATAAATTATT
Found at i:18490225 original size:43 final size:43
Alignment explanation
Indices: 18490178--18490375 Score: 158
Period size: 43 Copynumber: 4.6 Consensus size: 43
18490168 TCCTAGATAT
* *
18490178 GGTCTTACATGTTATCACATATCGATGCCACTGTCCTATACAG
1 GGTCTTACATGTAATCACATATCGATGCCACTGTCCTACACAG
* * * * *
18490221 GGTCTTACACG-AAGTCGA-TTAACGATGCCGA-TGTCCCACACAT
1 GGTCTTACATGTAA-TC-ACATATCGATGCC-ACTGTCCTACACAG
* * * *
18490264 GGTCTTACACGTAATCGCA-ATACAATGCCACTGT-CTGACACTG
1 GGTCTTACATGTAATCACATAT-CGATGCCACTGTCCT-ACACAG
* *
18490307 GGTCTTACATGTAATCACA-ATACAATGCCACTGTTCC-ATACAG
1 GGTCTTACATGTAATCACATAT-CGATGCCACTG-TCCTACACAG
*
18490350 GGTCTTACATGTAATCACATCTCGAT
1 GGTCTTACATGTAATCACATATCGAT
18490376 AACCTAATGT
Statistics
Matches: 124, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
42 4 0.03
43 113 0.91
44 6 0.05
45 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCACTGTCCTACACAG
Found at i:18492669 original size:3 final size:3
Alignment explanation
Indices: 18492661--18492687 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18492651 AGAATCTAGT
18492661 AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG
18492688 GGGATCTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:18492962 original size:41 final size:41
Alignment explanation
Indices: 18492905--18492987 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
18492895 GGGACAAAGG
18492905 TCCAGGGCTGGATGGGTGGGTACACACTAATTTGAGGATGA
1 TCCAGGGCTGGATGGGTGGGTACACACTAATTTGAGGATGA
18492946 TCCAGGGCTGGATGGGTGGGTACACACTAATTTGAGGATGA
1 TCCAGGGCTGGATGGGTGGGTACACACTAATTTGAGGATGA
18492987 T
1 T
18492988 TTTGTTGCCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.24, C:0.14, G:0.36, T:0.25
Consensus pattern (41 bp):
TCCAGGGCTGGATGGGTGGGTACACACTAATTTGAGGATGA
Found at i:18493188 original size:12 final size:12
Alignment explanation
Indices: 18493171--18493199 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
18493161 TTACCAATAG
18493171 AATAACAAAAAT
1 AATAACAAAAAT
18493183 AATAACAAAAAT
1 AATAACAAAAAT
18493195 AATAA
1 AATAA
18493200 GCTCAATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (12 bp):
AATAACAAAAAT
Found at i:18493629 original size:17 final size:18
Alignment explanation
Indices: 18493596--18493633 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
18493586 ATTTTTTCAT
*
18493596 AAATTTTATAAATATATA
1 AAATTTTATAAAAATATA
18493614 AAATTTTA-AAAAATATA
1 AAATTTTATAAAAATATA
18493631 AAA
1 AAA
18493634 ATGCTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTTATAAAAATATA
Found at i:18493635 original size:18 final size:18
Alignment explanation
Indices: 18493596--18493633 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
18493586 ATTTTTTCAT
*
18493596 AAATTTTATAAATATATA
1 AAATTTTAAAAATATATA
18493614 AAATTTTAAAAA-ATATA
1 AAATTTTAAAAATATATA
18493631 AAA
1 AAA
18493634 ATGCTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTTAAAAATATATA
Found at i:18494059 original size:11 final size:11
Alignment explanation
Indices: 18494030--18494076 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
18494020 ATATTTAAAC
*
18494030 AATAATAACAA
1 AATAATAGCAA
18494041 AATAATAGCAA
1 AATAATAGCAA
* *
18494052 CATAATAGTAA
1 AATAATAGCAA
*
18494063 AAT-GTAGCAA
1 AATAATAGCAA
18494073 AATA
1 AATA
18494077 GCGAAAAAGC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.21
Consensus pattern (11 bp):
AATAATAGCAA
Found at i:18498966 original size:33 final size:33
Alignment explanation
Indices: 18498929--18498995 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
18498919 TCTATATGGT
18498929 ACAACCTGAGGGTTATGTAGTTATAGGACAAGA
1 ACAACCTGAGGGTTATGTAGTTATAGGACAAGA
* *
18498962 ACAACTTGAGGGTTATGTAGTTCTAGGACAAGA
1 ACAACCTGAGGGTTATGTAGTTATAGGACAAGA
18498995 A
1 A
18498996 AAGAAAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (33 bp):
ACAACCTGAGGGTTATGTAGTTATAGGACAAGA
Found at i:18501344 original size:5 final size:5
Alignment explanation
Indices: 18501334--18501358 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18501324 AACACTTCCT
18501334 TCTCC TCTCC TCTCC TCTCC TCTCC
1 TCTCC TCTCC TCTCC TCTCC TCTCC
18501359 GTTTTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
TCTCC
Found at i:18507000 original size:33 final size:33
Alignment explanation
Indices: 18506959--18507055 Score: 106
Period size: 33 Copynumber: 3.0 Consensus size: 33
18506949 CCCAATGGAC
* *
18506959 TCTA-TCTGTGGTTATTGTCCCAGTAGACTATA
1 TCTATTCTGTGTTTACTGTCCCAGTAGACTATA
* * *
18506991 TCTATTCTGTGTTTACTGTCTCAGTGGACTATC
1 TCTATTCTGTGTTTACTGTCCCAGTAGACTATA
* * * *
18507024 TATGTTCTGTGTTTACTGTCCTAATAGACTAT
1 TCTATTCTGTGTTTACTGTCCCAGTAGACTAT
18507056 CTCTGTGGAT
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
32 4 0.08
33 49 0.92
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.44
Consensus pattern (33 bp):
TCTATTCTGTGTTTACTGTCCCAGTAGACTATA
Found at i:18515839 original size:12 final size:12
Alignment explanation
Indices: 18515822--18515847 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18515812 ATGTAAGTGA
18515822 TCTTGATGATTT
1 TCTTGATGATTT
18515834 TCTTGATGATTT
1 TCTTGATGATTT
18515846 TC
1 TC
18515848 ACATTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:18516758 original size:44 final size:47
Alignment explanation
Indices: 18516645--18516819 Score: 173
Period size: 47 Copynumber: 3.7 Consensus size: 47
18516635 TATTATAAGT
*
18516645 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATA
* * *
18516692 GCCAGTGTAAGACGTGTCTGGGACACGCATCGG-C-C-A-AGAGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATA
* * * *
18516735 TGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCATATATGAG--A
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CA-ACA-GAGATA
*
18516784 GCCAGTATAAGACAATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC
18516820 AATTTATTCC
Statistics
Matches: 106, Mismatches: 12, Indels: 17
0.79 0.09 0.13
Matches are distributed among these distances:
43 6 0.06
44 30 0.28
45 1 0.01
46 1 0.01
47 31 0.29
48 11 0.10
49 15 0.14
50 8 0.08
51 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATA
Found at i:18524480 original size:42 final size:42
Alignment explanation
Indices: 18524429--18524559 Score: 108
Period size: 42 Copynumber: 3.1 Consensus size: 42
18524419 TTGAGATGTC
18524429 TTTGTATATAAGGCAACTTTTGAATGTCGATATTAGTTTGAA
1 TTTGTATATAAGGCAACTTTTGAATGTCGATATTAGTTTGAA
* ** * * * **
18524471 TTTTTATAT-AGAATAGACTTAAATGAATGAT--ATTTTGAG-ATGTC
1 TTTGTATATAAG-GCA-ACTT--TTGAATG-TCGATATT-AGTTTGAA
18524515 TTTGTATATAAGGCAACTTTTGAATGTCGATATTAGTTTGAA
1 TTTGTATATAAGGCAACTTTTGAATGTCGATATTAGTTTGAA
18524557 TTT
1 TTT
18524560 CTATCTTTGA
Statistics
Matches: 63, Mismatches: 16, Indels: 20
0.64 0.16 0.20
Matches are distributed among these distances:
40 1 0.02
41 10 0.16
42 18 0.29
43 8 0.13
44 15 0.24
45 10 0.16
46 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (42 bp):
TTTGTATATAAGGCAACTTTTGAATGTCGATATTAGTTTGAA
Found at i:18524524 original size:44 final size:44
Alignment explanation
Indices: 18524391--18524524 Score: 118
Period size: 44 Copynumber: 3.1 Consensus size: 44
18524381 GTATGGCATG
18524391 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTA
1 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTA
** * * * ** *
18524435 TATA-AGGCA-ACTT--TTGAATG-TCGATATT-AGTTTGAATTTTTA
1 TATAGA-ATAGACTTAAATGAATGAT--ATTTTGAG-ATGTCTTTGTA
18524477 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTA
1 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTA
18524521 TATA
1 TATA
18524525 AGGCAACTTT
Statistics
Matches: 64, Mismatches: 16, Indels: 20
0.64 0.16 0.20
Matches are distributed among these distances:
40 1 0.02
41 8 0.12
42 16 0.25
43 10 0.16
44 20 0.31
45 8 0.12
46 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (44 bp):
TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTA
Found at i:18524536 original size:86 final size:86
Alignment explanation
Indices: 18524391--18524559 Score: 338
Period size: 86 Copynumber: 2.0 Consensus size: 86
18524381 GTATGGCATG
18524391 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGT
1 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGT
18524456 CGATATTAGTTTGAATTTTTA
66 CGATATTAGTTTGAATTTTTA
18524477 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGT
1 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGT
18524542 CGATATTAGTTTGAATTT
66 CGATATTAGTTTGAATTT
18524560 CTATCTTTGA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.43
Consensus pattern (86 bp):
TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGT
CGATATTAGTTTGAATTTTTA
Found at i:18524548 original size:44 final size:44
Alignment explanation
Indices: 18524413--18524548 Score: 126
Period size: 44 Copynumber: 3.1 Consensus size: 44
18524403 TTAAATGAAT
18524413 GATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGTC
1 GATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGTC
* * * *
18524457 GATATTAGTTTGA-AT-T-TTTATATAGAA--TAGAC--TTAAATGAAT-
1 GATA-T--TTTGAGATGTCTTTGTATATAAGGCA-ACTTTTGAATG--TC
18524499 GATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGTC
1 GATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGTC
18524543 GATATT
1 GATATT
18524549 AGTTTGAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 28
0.66 0.08 0.26
Matches are distributed among these distances:
39 5 0.07
40 2 0.03
41 8 0.11
42 14 0.20
43 6 0.09
44 20 0.29
45 8 0.11
46 2 0.03
47 5 0.07
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (44 bp):
GATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGTC
Found at i:18531759 original size:41 final size:42
Alignment explanation
Indices: 18531671--18531771 Score: 109
Period size: 41 Copynumber: 2.4 Consensus size: 42
18531661 GGCCTTTGAG
* * *
18531671 CCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGAG
1 CCTAGCAGGCTA-AATGCCAGTGAAATGATATCGGGCTTTAAA
*
18531714 CCTAGCAGGCGAAATGCCAGTG-AATGA-ACTCGGG-TTTAAAA
1 CCTAGCAGGCTAAATGCCAGTGAAATGATA-TCGGGCTTT-AAA
*
18531755 CCTAGCATGCTAAATGC
1 CCTAGCAGGCTAAATGC
18531772 TGGTGATTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
40 4 0.08
41 26 0.52
42 9 0.18
43 11 0.22
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (42 bp):
CCTAGCAGGCTAAATGCCAGTGAAATGATATCGGGCTTTAAA
Found at i:18532944 original size:17 final size:17
Alignment explanation
Indices: 18532922--18532955 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18532912 CTAGGCCGTG
18532922 TGACTCACACGGGCACA
1 TGACTCACACGGGCACA
18532939 TGACTCACACGGGCACA
1 TGACTCACACGGGCACA
18532956 AGACATGCCC
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:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (17 bp):
TGACTCACACGGGCACA
Found at i:18533272 original size:12 final size:13
Alignment explanation
Indices: 18533255--18533286 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18533245 ATAGCACATT
18533255 TCAAAAC-ATGCA
1 TCAAAACTATGCA
18533267 TCAAAACTATGCA
1 TCAAAACTATGCA
18533280 -CAAAACT
1 TCAAAACT
18533287 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:18536592 original size:28 final size:28
Alignment explanation
Indices: 18536537--18536652 Score: 146
Period size: 28 Copynumber: 4.2 Consensus size: 28
18536527 AGCATGGCTG
* *
18536537 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* * * * *
18536563 CCACATACAGATAATTGTAGCAGGGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
*
18536591 CCAGAAACAGATATTTGTGGTAGAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
18536619 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
18536647 CCAGAA
1 CCAGAA
18536653 CGCTTCCTCC
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
26 3 0.04
27 7 0.09
28 65 0.87
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:18537915 original size:18 final size:18
Alignment explanation
Indices: 18537864--18537918 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
18537854 ATTCAGCTAT
*
18537864 AGAGGAAAATAAGAA-TA-
1 AGAGGAAAA-AAGAAGAAG
* *
18537881 AGA-GAAAATAGATGAAG
1 AGAGGAAAAAAGAAGAAG
18537898 AGAGGAAAAAAGAAGAAG
1 AGAGGAAAAAAGAAGAAG
18537916 AGA
1 AGA
18537919 AAAGAATTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 3 0.10
16 6 0.20
17 6 0.20
18 15 0.50
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (18 bp):
AGAGGAAAAAAGAAGAAG
Found at i:18537920 original size:15 final size:16
Alignment explanation
Indices: 18537868--18537921 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
18537858 AGCTATAGAG
*
18537868 GAAAATAAGAATAAGA
1 GAAAATAAGAAGAAGA
18537884 GAAAATAGATGAAG-AGA
1 GAAAATA-A-GAAGAAGA
18537901 GGAAAA-AAGAAGAAGA
1 -GAAAATAAGAAGAAGA
18537917 GAAAA
1 GAAAA
18537922 GAATTGTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
15 9 0.27
16 11 0.33
17 5 0.15
18 8 0.24
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (16 bp):
GAAAATAAGAAGAAGA
Found at i:18538932 original size:3 final size:3
Alignment explanation
Indices: 18538924--18538972 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
18538914 TTAAACCTAC
*
18538924 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18538972 A
1 A
18538973 CATCCAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:18542851 original size:24 final size:24
Alignment explanation
Indices: 18542819--18542866 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
18542809 TTTTCATACT
* *
18542819 TTAGTCCATATGTTCAAAAACTAA
1 TTAGGCCATATATTCAAAAACTAA
18542843 TTAGGCCATATATTCAAAAACTAA
1 TTAGGCCATATATTCAAAAACTAA
18542867 CATTTAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (24 bp):
TTAGGCCATATATTCAAAAACTAA
Found at i:18545124 original size:16 final size:16
Alignment explanation
Indices: 18545103--18545146 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
18545093 GTTAGTTATT
18545103 TATTTATTTTTATTAA
1 TATTTATTTTTATTAA
18545119 TATTTATTTTTATTAA
1 TATTTATTTTTATTAA
18545135 T-TATTATTTTTA
1 TAT-TTATTTTTA
18545147 ACTAGTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 1 0.04
16 26 0.96
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTATTTTTATTAA
Found at i:18545137 original size:20 final size:20
Alignment explanation
Indices: 18545099--18545143 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
18545089 TCTTGTTAGT
*
18545099 TATTTATTTATTTTTATTAA
1 TATTTATTTATTTTAATTAA
*
18545119 TATTTATTT-TTATTAATTAT
1 TATTTATTTATT-TTAATTAA
18545139 TATTT
1 TATTT
18545144 TTAACTAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TATTTATTTATTTTAATTAA
Found at i:18546549 original size:19 final size:20
Alignment explanation
Indices: 18546525--18546568 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
18546515 TCCAAACACT
18546525 AGAAAAGTAAATCATTTT-C
1 AGAAAAGTAAATCATTTTCC
18546544 AGAAAAGTAAATCATTTTCC
1 AGAAAAGTAAATCATTTTCC
18546564 AGAAA
1 AGAAA
18546569 TTATATTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.27
Consensus pattern (20 bp):
AGAAAAGTAAATCATTTTCC
Found at i:18547213 original size:39 final size:39
Alignment explanation
Indices: 18547157--18547242 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
18547147 TACATTGCGC
*
18547157 CACCATCAACACGCAAGACACGCCAAAATCCGGCGTTGG
1 CACCATCAACACGCAAGACACGCCAAAATCCGGCGCTGG
* * *
18547196 CACCATCAACGCTCAAGACACGCTAAAATCCGGCGCTGG
1 CACCATCAACACGCAAGACACGCCAAAATCCGGCGCTGG
*
18547235 CTCCATCA
1 CACCATCA
18547243 GCGCGCAGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.31, C:0.37, G:0.19, T:0.13
Consensus pattern (39 bp):
CACCATCAACACGCAAGACACGCCAAAATCCGGCGCTGG
Found at i:18548249 original size:19 final size:19
Alignment explanation
Indices: 18548227--18548292 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 19
18548217 TTTTCTCAAA
*
18548227 ATTATTATTTTTTATATGT
1 ATTATTATTTTTTATATAT
18548246 ATTATTATATTTTT-TCATAT
1 ATTATTAT-TTTTTAT-ATAT
*
18548266 ATTATATATTTATTTATACAT
1 ATTAT-TATTT-TTTATATAT
18548287 ATTATT
1 ATTATT
18548293 TTTACATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 9 0.22
20 16 0.40
21 14 0.35
22 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTATTATTTTTTATATAT
Found at i:18548291 original size:41 final size:37
Alignment explanation
Indices: 18548211--18548292 Score: 92
Period size: 41 Copynumber: 2.1 Consensus size: 37
18548201 ATAATTTATA
**
18548211 TATTAATTTTCTCAAAATTATTATTTTTTATATGTAT
1 TATTAATTTTCTCAAAATTATTATTTTTTATACATAT
* *
18548248 TATTATATTTTTTCATATATTATATATTTATTTATACATAT
1 TATTA-ATTTTCTCA-AAATTAT-TATTT-TTTATACATAT
18548289 TATT
1 TATT
18548293 TTTACATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 5 0.14
38 8 0.22
39 6 0.16
40 5 0.14
41 13 0.35
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (37 bp):
TATTAATTTTCTCAAAATTATTATTTTTTATACATAT
Found at i:18548384 original size:16 final size:15
Alignment explanation
Indices: 18548363--18548418 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 15
18548353 TATTGTACAA
18548363 TATTTATTATGTATTAT
1 TATTTA-TAT-TATTAT
18548380 T-TTTATATTACTTAT
1 TATTTATATTA-TTAT
18548395 TATTTATA-TA-TAT
1 TATTTATATTATTAT
*
18548408 TATGTATATTA
1 TATTTATATTA
18548419 CATATTACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 10 0.29
14 4 0.11
15 10 0.29
16 10 0.29
17 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (15 bp):
TATTTATATTATTAT
Found at i:18548417 original size:22 final size:22
Alignment explanation
Indices: 18548362--18548418 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 22
18548352 TTATTGTACA
*
18548362 ATATTTATTATGTAT-T-ATTT
1 ATATATATTATGTATATTATTT
*
18548382 -T-TATATTA-CT-TATTATTT
1 ATATATATTATGTATATTATTT
18548400 ATATATATTATGTATATTA
1 ATATATATTATGTATATTA
18548419 CATATTACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 10
0.68 0.07 0.24
Matches are distributed among these distances:
16 1 0.04
17 2 0.07
18 10 0.36
19 2 0.07
20 7 0.25
21 1 0.04
22 5 0.18
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (22 bp):
ATATATATTATGTATATTATTT
Found at i:18548665 original size:14 final size:14
Alignment explanation
Indices: 18548604--18548669 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 14
18548594 ACTTTTATTT
18548604 TATA-TATATTTTA
1 TATATTATATTTTA
18548617 TATAATTATTATTCTCT-
1 TAT-ATTA-TATT-T-TA
* *
18548634 TATA-AATATTTTG
1 TATATTATATTTTA
18548647 T-TATTATATTTTA
1 TATATTATATTTTA
18548660 TATATTATAT
1 TATATTATAT
18548670 AGCAAATACT
Statistics
Matches: 42, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
12 3 0.07
13 13 0.31
14 13 0.31
15 3 0.07
16 5 0.12
17 4 0.10
18 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (14 bp):
TATATTATATTTTA
Found at i:18560859 original size:122 final size:120
Alignment explanation
Indices: 18560368--18560849 Score: 673
Period size: 119 Copynumber: 4.0 Consensus size: 120
18560358 ATAAGCCGCA
* * * *
18560368 ATATAGCAGATCT-AGCTTTCAGATATTTATACTGAAACAGATCCAAGATGATTTGGTATTCTTT
1 ATATAGCAGATCTAAAC-TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
* *
18560432 TGTTTACAAGAAACAAATCGAGGACATAGCAGATCTGACTCTCAGATGTTCTCAA-
65 TGTTTACAAGAAACAAATCGAGGACATAACAGATTTGACTCTCAGATGTTCTCAAC
* * * *
18560487 ATATAGCAGATCCAAACTTCAGATGATTATACTGAAGTAGATCCAAGATGATTTGGTATTCTTAT
1 ATATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
* * * * *
18560552 GTTTACAAGGAACAAATAGAGGACATAACAGATTTGACTCTCAGACGTTC-CCAG
66 GTTTACAAGAAACAAATCGAGGACATAACAGATTTGACTCTCAGATGTTCTCAAC
18560606 ATATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
1 ATATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
* *
18560671 GTTTACAAGGAACAAATCGAGGGCATAACAGATTTGACTCTCAGATGTTCTCAGAC
66 GTTTACAAGAAACAAATCGAGGACATAACAGATTTGACTCTCAGATGTTCTCA-AC
* * * * **
18560727 ACATGGCAGATCTAACCTTTAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTG
1 ATATAGCAGATCTAAACTTCAGATGTTTATACTGAAG-CAGATCCAAGATGATTTGGTATTCTTG
* **
18560792 TGTTTACAAGAAACAAGTCGAGGACATAGTAGATTTGACTCTCAGATGTTCTCCAAC
65 TGTTTACAAGAAACAAATCGAGGACATAACAGATTTGACTCTCAGATGTTCT-CAAC
18560849 A
1 A
18560850 GACTCCAGAT
Statistics
Matches: 324, Mismatches: 33, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
118 2 0.01
119 208 0.64
120 3 0.01
121 34 0.10
122 75 0.23
123 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (120 bp):
ATATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGT
GTTTACAAGAAACAAATCGAGGACATAACAGATTTGACTCTCAGATGTTCTCAAC
Found at i:18561668 original size:39 final size:39
Alignment explanation
Indices: 18561637--18561717 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
18561627 CCATAGACGT
*
18561637 GCAAGACACGCCAAAATCCGGCGTTGGCACCATCAATGC
1 GCAAGACACGCCAAAATCCGGCGTTGGCACCATCAACGC
* * *
18561676 GCAAGACACGCCAAAATCCGGCGTTAGCTCCATCAGCGC
1 GCAAGACACGCCAAAATCCGGCGTTGGCACCATCAACGC
18561715 GCA
1 GCA
18561718 GACTCCAGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.30, C:0.35, G:0.23, T:0.12
Consensus pattern (39 bp):
GCAAGACACGCCAAAATCCGGCGTTGGCACCATCAACGC
Found at i:18565046 original size:11 final size:11
Alignment explanation
Indices: 18565032--18565056 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18565022 ATGATAAATA
18565032 CTTGATTTGTT
1 CTTGATTTGTT
18565043 CTTGATTTGTT
1 CTTGATTTGTT
18565054 CTT
1 CTT
18565057 AATTATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.12, G:0.16, T:0.64
Consensus pattern (11 bp):
CTTGATTTGTT
Found at i:18568154 original size:3 final size:3
Alignment explanation
Indices: 18568146--18568177 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
18568136 TTTAATTGTT
*
18568146 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18568178 TCTTTATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:18568198 original size:17 final size:16
Alignment explanation
Indices: 18568149--18568208 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 16
18568139 AATTGTTTTA
*
18568149 TTATTACTATTAT-TA
1 TTATTACTATTATATC
* *
18568164 TTATTATTATTATTTC
1 TTATTACTATTATATC
*
18568180 TTTATTACTATTCTATC
1 -TTATTACTATTATATC
*
18568197 TTATTTCTATTA
1 TTATTACTATTA
18568209 GATTTATATA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.33
16 11 0.31
17 13 0.36
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTACTATTATATC
Found at i:18577822 original size:24 final size:24
Alignment explanation
Indices: 18577777--18577826 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
18577767 AGTTGGACCG
18577777 ATTTTTATATGTTTTAATATTTCT
1 ATTTTTATATGTTTTAATATTTCT
*
18577801 ATTTTTA-ATGTTTTAATAATT-T
1 ATTTTTATATGTTTTAATATTTCT
18577823 ATTT
1 ATTT
18577827 GCTTTGAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.20
23 13 0.52
24 7 0.28
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (24 bp):
ATTTTTATATGTTTTAATATTTCT
Found at i:18581383 original size:30 final size:30
Alignment explanation
Indices: 18581339--18581395 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
18581329 TAAAGGGTTT
* *
18581339 TAGTTGAGCTATAAAAACTAAGAAGGATTC
1 TAGTTAAGCCATAAAAACTAAGAAGGATTC
*
18581369 TAGTTAAGCCATAAAAACTAGGAAGGA
1 TAGTTAAGCCATAAAAACTAAGAAGGA
18581396 GGTTCTATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.23
Consensus pattern (30 bp):
TAGTTAAGCCATAAAAACTAAGAAGGATTC
Found at i:18582130 original size:6 final size:6
Alignment explanation
Indices: 18582119--18582161 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
18582109 ATCATTAACC
* * *
18582119 ATAATT ATAATT ATAATA ATAATT AAAATT ATAATA ATAATT A
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT A
18582162 ATATACTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
ATAATT
Found at i:18582173 original size:18 final size:18
Alignment explanation
Indices: 18582119--18582162 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
18582109 ATCATTAACC
*
18582119 ATAATTATAATTATAATA
1 ATAATTAAAATTATAATA
18582137 ATAATTAAAATTATAATA
1 ATAATTAAAATTATAATA
18582155 ATAATTAA
1 ATAATTAA
18582163 TATACTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAATTAAAATTATAATA
Found at i:18583047 original size:15 final size:15
Alignment explanation
Indices: 18583027--18583061 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
18583017 ACACACGGCC
*
18583027 GTGTCGCATGGTCGT
1 GTGTCGCATGGCCGT
18583042 GTGTCGCATGGCCGT
1 GTGTCGCATGGCCGT
18583057 GTGTC
1 GTGTC
18583062 ACACACAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.23, G:0.40, T:0.31
Consensus pattern (15 bp):
GTGTCGCATGGCCGT
Found at i:18601248 original size:15 final size:15
Alignment explanation
Indices: 18601228--18601256 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18601218 CAAGAAAATT
18601228 TGAAAAAAAAAAGAA
1 TGAAAAAAAAAAGAA
18601243 TGAAAAAAAAAAGA
1 TGAAAAAAAAAAGA
18601257 GTAATCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (15 bp):
TGAAAAAAAAAAGAA
Found at i:18609544 original size:3 final size:3
Alignment explanation
Indices: 18609501--18609594 Score: 79
Period size: 3 Copynumber: 31.3 Consensus size: 3
18609491 TTTTATTTAG
* *
18609501 ATT ATAT ATAT ATT A-T ATT A-T ATA ATT GATT ATT ATA ATT ATT AATT
1 ATT AT-T AT-T ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT -ATT
* * *
18609548 GTT ATG GTT -TT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18609594 A
1 A
18609595 AATAAATTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
2 8 0.11
3 54 0.72
4 13 0.17
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:18609935 original size:33 final size:33
Alignment explanation
Indices: 18609860--18609935 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
18609850 ATATTTTATT
* * * *
18609860 TAAATTAGTAGATATTTATTATTTACTATTATTA
1 TAAATAAG-AGATATTTATTAATTACAATAATTA
*
18609894 TAATTAAGAGATATTTATTAATTA-AATAATTA
1 TAAATAAGAGATATTTATTAATTACAATAATTA
18609926 TAACATAAGA
1 TAA-ATAAGA
18609936 TTTTTATGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 9 0.26
33 20 0.57
34 6 0.17
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (33 bp):
TAAATAAGAGATATTTATTAATTACAATAATTA
Found at i:18611216 original size:45 final size:45
Alignment explanation
Indices: 18611166--18611269 Score: 172
Period size: 45 Copynumber: 2.3 Consensus size: 45
18611156 CTACTGTTAT
* * *
18611166 TGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATAC
1 TGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAATAC
*
18611211 TGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTTGAATAC
1 TGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAATAC
18611256 TGTTACTGTTACTG
1 TGTTACTGTTACTG
18611270 CTACTGCTAC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (45 bp):
TGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAATAC
Found at i:18611221 original size:51 final size:50
Alignment explanation
Indices: 18611148--18611281 Score: 143
Period size: 45 Copynumber: 2.7 Consensus size: 50
18611138 CAGGCACTTA
* * * *
18611148 TGTGCCGACTACTGTTATTGTTACCGTTACTGTTACCGATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTA-CGTTACTGTTACCGATTCAACACTTTG
*
18611199 TGTGTCGAATACTGTTAC---T--GTTACTGTTACAGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACGTTACTGTTACCGATTCAACACTTTG
* * *
18611244 TGTGTTGAATACTGTTACTGTTACTGCTACTGCTACCG
1 TGTGTCGAATACTGTTACTGTTAC-GTTACTGTTACCG
18611282 TTACTGATTA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
45 41 0.60
48 2 0.03
51 25 0.37
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.40
Consensus pattern (50 bp):
TGTGTCGAATACTGTTACTGTTACGTTACTGTTACCGATTCAACACTTTG
Found at i:18611284 original size:18 final size:18
Alignment explanation
Indices: 18611253--18611287 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18611243 GTGTGTTGAA
* *
18611253 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
18611271 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
18611288 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:18612320 original size:31 final size:31
Alignment explanation
Indices: 18612282--18612340 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
18612272 TTAGATTGGT
18612282 CATTCCAATGGCTAATCATTTACAAACCGGC
1 CATTCCAATGGCTAATCATTTACAAACCGGC
18612313 CATTCCAATGGCTAATCATTTACAAACC
1 CATTCCAATGGCTAATCATTTACAAACC
18612341 CTTTTCTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.27
Consensus pattern (31 bp):
CATTCCAATGGCTAATCATTTACAAACCGGC
Found at i:18614811 original size:12 final size:11
Alignment explanation
Indices: 18614783--18614816 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
18614773 TCTCTGTTTC
18614783 TTCTTTTTTTT
1 TTCTTTTTTTT
*
18614794 TGCTTTTTTCTT
1 TTCTTTTTT-TT
18614806 TTCTTTTTTTT
1 TTCTTTTTTTT
18614817 ACATTCGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:18615733 original size:44 final size:44
Alignment explanation
Indices: 18615663--18615821 Score: 128
Period size: 44 Copynumber: 3.6 Consensus size: 44
18615653 ATCCGACCTG
* *
18615663 CTGCAACTTCAGAGGTAT-AGAATTTGTAGTTTTAATCTGCTCTA
1 CTGCAATTTCAGAGGGATAAG-ATTTGTAGTTTTAATCTGCTCTA
* * * *
18615707 TTGTAATTTCAGAGGGATAAGATTTGTTA-TTTTCAATCCGCTCCA
1 CTGCAATTTCAGAGGGATAAGATTTG-TAGTTTT-AATCTGCTCTA
* * * *
18615752 CTGCAACTTT-AG-GGAGATAGGATTTATAGCTTTACTCTGCTCTA
1 CTGCAA-TTTCAGAGG-GATAAGATTTGTAGTTTTAATCTGCTCTA
* **
18615796 CTGCAAATTCAGAATGATAAGATTTG
1 CTGCAATTTCAGAGGGATAAGATTTG
18615822 CTATTCTCAG
Statistics
Matches: 88, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
43 2 0.02
44 52 0.59
45 31 0.35
46 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (44 bp):
CTGCAATTTCAGAGGGATAAGATTTGTAGTTTTAATCTGCTCTA
Found at i:18615791 original size:89 final size:89
Alignment explanation
Indices: 18615663--18615859 Score: 236
Period size: 89 Copynumber: 2.2 Consensus size: 89
18615653 ATCCGACCTG
* * * * * * *
18615663 CTGCAACTTCAGAGG-TATAGAATTTGTAGTTTTAATCTGCTCTATTGTAATTTCAGAGGGATAA
1 CTGCAACTTCAG-GGAGATAGAATTTATAGCTTTAATCTGCTCTACTGCAAATTCAGAAGGATAA
* *
18615727 GATTTGTTATTTTCAATC-CGCTCCA
65 GATTTGCTATTCTCAATCTC-CTCCA
* * * *
18615752 CTGCAACTTTAGGGAGATAGGATTTATAGCTTTACTCTGCTCTACTGCAAATTCAGAATGATAAG
1 CTGCAACTTCAGGGAGATAGAATTTATAGCTTTAATCTGCTCTACTGCAAATTCAGAAGGATAAG
*
18615817 ATTTGCTATTCTCAGTCTCCTCCA
66 ATTTGCTATTCTCAATCTCCTCCA
18615841 CTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGGGAGATA
18615860 AAACTTGTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
88 2 0.02
89 88 0.97
90 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (89 bp):
CTGCAACTTCAGGGAGATAGAATTTATAGCTTTAATCTGCTCTACTGCAAATTCAGAAGGATAAG
ATTTGCTATTCTCAATCTCCTCCA
Found at i:18615860 original size:45 final size:44
Alignment explanation
Indices: 18615714--18615905 Score: 110
Period size: 44 Copynumber: 4.3 Consensus size: 44
18615704 CTATTGTAAT
*
18615714 TTCAGAGG-GATAAGATTTGTTATTTTCAATC-CGCTCCACTGCAAC
1 TTCAG-GGAGATAAGATTTGATA-TTTCAATCTC-CTCCACTGCAAC
* * * * * *
18615759 TTTAGGGAGATAGGATTT-ATAGCTTT-ACTCTGCTCTACTGCAAA
1 TTCAGGGAGATAAGATTTGATA--TTTCAATCTCCTCCACTGCAAC
* * *
18615803 TTCA-GAATGATAAGATTTGCTATTCTCAGTCTCCTCCACTGCAAC
1 TTCAGGGA-GATAAGATTTGATATT-TCAATCTCCTCCACTGCAAC
* * * * **
18615848 TTCAGGGAGATAAAACTTG-TAACTTCAA-CGCACTCCACTATAAC
1 TTCAGGGAGATAAGATTTGAT-ATTTCAATCTC-CTCCACTGCAAC
18615892 TTCAGGGAGATAAG
1 TTCAGGGAGATAAG
18615906 GTTAGTGGCT
Statistics
Matches: 112, Mismatches: 25, Indels: 21
0.71 0.16 0.13
Matches are distributed among these distances:
43 6 0.05
44 57 0.51
45 47 0.42
46 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
TTCAGGGAGATAAGATTTGATATTTCAATCTCCTCCACTGCAAC
Found at i:18615983 original size:88 final size:88
Alignment explanation
Indices: 18615910--18616430 Score: 645
Period size: 88 Copynumber: 5.9 Consensus size: 88
18615900 GATAAGGTTA
* * * * *
18615910 GTGGCTTCGATCTGCTCCAGTGTCATTTCAAGGAGAAAAGATTTGTAGCCTCGATCTACTTCGCT
1 GTGGCTTCGAGCAGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTTCGCT
*
18615975 GAAACTTCAAGGAGATACGAACC
66 GAAACTTCAAGGAGATACGAACT
* * *
18615998 GTGGCTTCGAGCAGCTCCAATACCATTCCAAGGAGAAGAGATTTGTAGCCTCGTTCTAC-TCTGC
1 GTGGCTTCGAGCAGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTTC-GC
18616062 TGAAACTTCAAGGAGATACGAACT
65 TGAAACTTCAAGGAGATACGAACT
* * * *
18616086 GTAGCTTCGAGCAGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCT
1 GTGGCTTCGAGCAGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTTCGCT
18616151 GAAACTTCAAGGAGATACGAACT
66 GAAACTTCAAGGAGATACGAACT
* * * * * *
18616174 GTAGTTTCGAGCTGCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAG-CTACGATCTACTTTGC
1 GTGGCTTCGAGCAGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCCT-CGATCTACTTCGC
*
18616238 TGAAACTTCAAGGAGATACGAATT
65 TGAAACTTCAAGGAGATACGAACT
* * * * *
18616262 GTGGCTTCGAGCCGCTCTAGTGCCATTTC-AGGAAGAAGGGATTTGTAGCCTCGATCTACTCCGC
1 GTGGCTTCGAGCAGCTCCAATGCCATTTCAAGG-AGAAGAGATTTGTAGCCTCGATCTACTTCGC
* *
18616326 TAAAACTTCAAAGAGATACGAACT
65 TGAAACTTCAAGGAGATACGAACT
* * * * * * * *
18616350 ATGGCTTCGAGCCGCTCCAACT-CCATTTTAGGGAAAAGAGATTTGTAGCATCGATCTACTCCAC
1 GTGGCTTCGAGCAGCTCCAA-TGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTTCGC
* *
18616414 TAAAACTTTAAGGAGAT
65 TGAAACTTCAAGGAGAT
18616431 CTGAATTGTT
Statistics
Matches: 379, Mismatches: 47, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
87 5 0.01
88 368 0.97
89 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (88 bp):
GTGGCTTCGAGCAGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTTCGCT
GAAACTTCAAGGAGATACGAACT
Found at i:18615984 original size:44 final size:44
Alignment explanation
Indices: 18615936--18616271 Score: 139
Period size: 44 Copynumber: 7.6 Consensus size: 44
18615926 CCAGTGTCAT
*
18615936 TTCAAGGAGAAAAGATTTGTAGCCTCGATCTACTTCGCTGAAAC
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTTCGCTGAAAC
* * *** * *
18615980 TTCAAGGAGATACGAACCGTGGCTTCGAGC-AGC-TC-C--AATACC
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTA-CTTCGCTGAA-A-C
* * *
18616022 ATTCCAAGGAGAAGAGATTTGTAGCCTCGTTCTAC-TCTGCTGAAAC
1 -TT-CAAGGAGAAAAGATTTGTAGCTTCGATCTACTTC-GCTGAAAC
* * ** * * ** ** *
18616068 TTCAAGGAGATACGAACTGTAGCTTCGAGC-AGCTCCAATGCCAT
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTA-CTTCGCTGAAAC
* * *
18616112 TTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAAC
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTTCGCTGAAAC
* * ** * * * * * ** *
18616156 TTCAAGGAGATACGAACTGTAGTTTCGAGCTGCTCCAAC-GCCAT
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTTC-GCTGAAAC
* * * *
18616200 TTCAGGGAGAAGAGATTTGTAGCTACGATCTACTTTGCTGAAAC
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTTCGCTGAAAC
* * * *
18616244 TTCAAGGAGATACGAATTGTGGCTTCGA
1 TTCAAGGAGAAAAGATTTGTAGCTTCGA
18616272 GCCGCTCTAG
Statistics
Matches: 197, Mismatches: 80, Indels: 30
0.64 0.26 0.10
Matches are distributed among these distances:
40 2 0.01
41 1 0.01
42 2 0.01
43 7 0.04
44 174 0.88
45 6 0.03
46 2 0.01
47 1 0.01
48 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (44 bp):
TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTTCGCTGAAAC
Found at i:18616322 original size:264 final size:264
Alignment explanation
Indices: 18615915--18616430 Score: 732
Period size: 264 Copynumber: 2.0 Consensus size: 264
18615905 GGTTAGTGGC
* ** *
18615915 TTCGATCTGCTCCAGTGTCATTTCAAGGAGAAAAGATTTGTAGCCTCGATCTACTTCGCTGAAAC
1 TTCGAGCTGCTCCAACGCCATTTCAAGGAGAAAAGATTTGTAGCCTCGATCTACTTCGCTGAAAC
18615980 TTCAAGGAGATACGAACCGTGGCTTCGAGCAGCTCCAATACCATTCCAAGGAGAAGAGATTTGTA
66 TTCAAGGAGATACGAACCGTGGCTTCGAGCAGCTCCAATACCATTCCAAGGAGAAGAGATTTGTA
* * * * *
18616045 GCCTCGTTCTACTCTGCTGAAACTTCAAGGAGATACGAACTGTAGCTTCGAGCAGCTCCAA-TGC
131 GCCTCGATCTACTCCGCTAAAACTTCAAAGAGATACGAACTATAGCTTCGAGCAGCTCCAACT-C
* * * *
18616109 CATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGATACGAACT
195 CATTTCAGGGAAAAGAGATTTGTAGCATCGATCTACTCCACTAAAACTTCAAGGAGATACGAACT
18616174 GTAGT
260 GTAGT
* * *
18616179 TTCGAGCTGCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAG-CTACGATCTACTTTGCTGAAA
1 TTCGAGCTGCTCCAACGCCATTTCAAGGAGAAAAGATTTGTAGCCT-CGATCTACTTCGCTGAAA
** * * * * * *
18616243 CTTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCTAGTGCCATTTC-AGGAAGAAGGGATTTG
65 CTTCAAGGAGATACGAACCGTGGCTTCGAGCAGCTCCAATACCATTCCAAGG-AGAAGAGATTTG
* *
18616307 TAGCCTCGATCTACTCCGCTAAAACTTCAAAGAGATACGAACTATGGCTTCGAGCCGCTCCAACT
129 TAGCCTCGATCTACTCCGCTAAAACTTCAAAGAGATACGAACTATAGCTTCGAGCAGCTCCAACT
* *
18616372 CCATTTTAGGGAAAAGAGATTTGTAGCATCGATCTACTCCACTAAAACTTTAAGGAGAT
194 CCATTTCAGGGAAAAGAGATTTGTAGCATCGATCTACTCCACTAAAACTTCAAGGAGAT
18616431 CTGAATTGTT
Statistics
Matches: 221, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
263 5 0.02
264 215 0.97
265 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (264 bp):
TTCGAGCTGCTCCAACGCCATTTCAAGGAGAAAAGATTTGTAGCCTCGATCTACTTCGCTGAAAC
TTCAAGGAGATACGAACCGTGGCTTCGAGCAGCTCCAATACCATTCCAAGGAGAAGAGATTTGTA
GCCTCGATCTACTCCGCTAAAACTTCAAAGAGATACGAACTATAGCTTCGAGCAGCTCCAACTCC
ATTTCAGGGAAAAGAGATTTGTAGCATCGATCTACTCCACTAAAACTTCAAGGAGATACGAACTG
TAGT
Found at i:18616507 original size:44 final size:43
Alignment explanation
Indices: 18616458--18616689 Score: 136
Period size: 44 Copynumber: 5.3 Consensus size: 43
18616448 ACCTGCTCTA
18616458 CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACC
1 CTACTGCTTAGGGAGACAAGATCT-TAATTTTCAGCCTGTTACC
* * ** * * * **
18616502 TTACTGCTTAGGGGGTTAAG-GCTTACCATCTTTGA-TCTACT-CC
1 CTACTGCTTAGGGAGACAAGATCTTA--AT-TTTCAGCCTGTTACC
* * *
18616545 ACTACTGCTTAGGGAGACAAGATCTGTAATTTTTAGCTTGTTATC
1 -CTACTGCTTAGGGAGACAAGATCT-TAATTTTCAGCCTGTTACC
* ** * * * * *
18616590 CTACTACTTAGGG-GTTAAG-GCTCACCATCTTTGA-TCTGCT-CC
1 CTACTGCTTAGGGAGACAAGATCTTA--AT-TTTCAGCCTGTTACC
18616632 ACTACTGCTTAGGGAGACAAGATCTATAATTTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGACAAGATCT-TAATTTTCAGCCTGTTACC
18616677 CTACTGCTTAGGG
1 CTACTGCTTAGGG
18616690 GGTTAAGGTT
Statistics
Matches: 133, Mismatches: 38, Indels: 34
0.65 0.19 0.17
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 33 0.25
44 80 0.60
45 11 0.08
46 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (43 bp):
CTACTGCTTAGGGAGACAAGATCTTAATTTTCAGCCTGTTACC
Found at i:18616748 original size:175 final size:175
Alignment explanation
Indices: 18616450--18616864 Score: 649
Period size: 175 Copynumber: 2.4 Consensus size: 175
18616440 TGATTTCAAC
* *
18616450 CTGCTCTACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCTTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
* *
18616515 GGTTAAGGCTTACCATCTTTGATCTACTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTTA
66 GGTTAAGGCTTACCATCTTTGATCTACTCCACTACTACTTAGGGAGACAAGATCTGTAATTTTCA
18616580 G-CTTGTTA-TCCTACTACTTAGGGGTTAAGGCTCACCATCTTTGAT
131 GTC-TGTTACT-CTACTACTTAGGGGTTAAGGCTCACCATCTTTGAT
*
18616625 CTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATTTTCAGCCTGTTACCCTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
* *
18616690 GGTTAAGG-TTCACCGTCTTTGATCTGCTCCACTACTACTTAGGGAGACAAGATCTGTAATTTTC
66 GGTTAAGGCTT-ACCATCTTTGATCTACTCCACTACTACTTAGGGAGACAAGATCTGTAATTTTC
*
18616754 AGTCTGTTACTCTACTACTTAGGGGTTAAGGCTCACCGTCTTTGAT
130 AGTCTGTTACTCTACTACTTAGGGGTTAAGGCTCACCATCTTTGAT
* * * **
18616800 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTACT-CCACTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACC-CTACTGCTTAGG
18616864 G
65 G
18616865 AGATAGGATG
Statistics
Matches: 222, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
174 4 0.02
175 216 0.97
176 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (175 bp):
CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
GGTTAAGGCTTACCATCTTTGATCTACTCCACTACTACTTAGGGAGACAAGATCTGTAATTTTCA
GTCTGTTACTCTACTACTTAGGGGTTAAGGCTCACCATCTTTGAT
Found at i:18616856 original size:87 final size:87
Alignment explanation
Indices: 18616450--18616915 Score: 614
Period size: 87 Copynumber: 5.3 Consensus size: 87
18616440 TGATTTCAAC
* *
18616450 CTGCTCTACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCTTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTA-GG
* *
18616515 GGTTAAGGCTTACCATCTTTGAT
65 GGTTAAGGCTCACCGTCTTTGAT
* * * * *
18616538 CTACTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTTAGCTTGTTATCCTACTACTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
*
18616603 GTTAAGGCTCACCATCTTTGAT
66 GTTAAGGCTCACCGTCTTTGAT
*
18616625 CTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATTTTCAGCCTGTTACCCTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTA-GG
*
18616690 GGTTAAGGTTCACCGTCTTTGAT
65 GGTTAAGGCTCACCGTCTTTGAT
* * * *
18616713 CTGCTCCACTACTACTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACTCTACTACTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
18616778 GTTAAGGCTCACCGTCTTTGAT
66 GTTAAGGCTCACCGTCTTTGAT
* * * **
18616800 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTACT-CCACTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACC-CTACTGCTTAGG
* * * * * **
18616864 GAGAT-AGGATGA-TGGCTTAAAT
65 G-GTTAAGGCTCACCGTCTTTGAT
*
18616886 CTGCTCCACTACTGGTTAGGGAGACAAGAT
1 CTGCTCCACTACTGCTTAGGGAGACAAGAT
18616916 TTGCCGTCTT
Statistics
Matches: 335, Mismatches: 40, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
86 35 0.10
87 163 0.49
88 137 0.41
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (87 bp):
CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
GTTAAGGCTCACCGTCTTTGAT
Found at i:18616866 original size:44 final size:43
Alignment explanation
Indices: 18616803--18616961 Score: 155
Period size: 44 Copynumber: 3.7 Consensus size: 43
18616793 CTTTGATCTG
18616803 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGC-ATCTTCAGCCTA
* * ** *
18616847 CTCCACTACTGCTTAGGGAGATAGGA--TG-ATGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAT--CTTCAGCCTA
* * * *
18616889 CTCCACTACTGGTTAGGGAGACAAGATTTGCCGTCTTC-GACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTG-CATCTTCAG-CCTA
*
18616933 CTCTACTACTGCTTAGGGAGATAAGATCT
1 CTCCACTACTGCTTAGGGAGATAAGATCT
18616962 ATGAATTCAC
Statistics
Matches: 91, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
40 2 0.02
42 31 0.34
44 57 0.63
46 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (43 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGCATCTTCAGCCTA
Found at i:18617130 original size:64 final size:64
Alignment explanation
Indices: 18617029--18617156 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
18617019 TCATGTATCT
*
18617029 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
*
18617093 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
18617157 TTATGAATGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:18618351 original size:12 final size:12
Alignment explanation
Indices: 18618327--18618362 Score: 63
Period size: 12 Copynumber: 2.9 Consensus size: 12
18618317 CCTTGGCCTC
18618327 TCCTTTTTCTTTT
1 TCCTTTTT-TTTT
18618340 TCCTTTTTTTTT
1 TCCTTTTTTTTT
18618352 TCCTTTTTTTT
1 TCCTTTTTTTT
18618363 AGAAGGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TCCTTTTTTTTT
Found at i:18622401 original size:30 final size:30
Alignment explanation
Indices: 18622367--18622427 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
18622357 ACATAGGTAC
18622367 AGATGTATCTCGAAAACGATCCACTATTCT
1 AGATGTATCTCGAAAACGATCCACTATTCT
*
18622397 AGATGTATCTCGAAAGCGATCCACTATTCT
1 AGATGTATCTCGAAAACGATCCACTATTCT
18622427 A
1 A
18622428 CACGGAGGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (30 bp):
AGATGTATCTCGAAAACGATCCACTATTCT
Found at i:18623637 original size:3 final size:3
Alignment explanation
Indices: 18623629--18623667 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
18623619 TGCATGAAAT
**
18623629 ATA ATA ATA ATA ATA ATA ATA ATA ACG ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18623668 ATCATTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:18626291 original size:22 final size:22
Alignment explanation
Indices: 18626246--18626286 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
18626236 AACATGTTCT
18626246 AAGCTTAATTTCTATCAATTTC
1 AAGCTTAATTTCTATCAATTTC
18626268 AAGCTTAA-TTC-ATCAATTT
1 AAGCTTAATTTCTATCAATTT
18626287 ATCAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.44
Consensus pattern (22 bp):
AAGCTTAATTTCTATCAATTTC
Found at i:18629946 original size:39 final size:39
Alignment explanation
Indices: 18629857--18629933 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
18629847 ATTTTTTAAG
*
18629857 ATACATTTTTTTAGGATTATCACCGTATGTACAAGTGTAA
1 ATAC-TTTTTTTAGGATTATCACCGTATATACAAGTGTAA
* *
18629897 ATACGTTTTTTAGGATTATCACCGTATATACGAGTGT
1 ATACTTTTTTTAGGATTATCACCGTATATACAAGTGT
18629934 TAAGTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 30 0.88
40 4 0.12
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (39 bp):
ATACTTTTTTTAGGATTATCACCGTATATACAAGTGTAA
Found at i:18631649 original size:45 final size:43
Alignment explanation
Indices: 18631584--18631744 Score: 170
Period size: 43 Copynumber: 3.7 Consensus size: 43
18631574 ATATGTGTTA
18631584 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTCTGTTTT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TTCTGTTTT
* *
18631628 TGCGTGTAAGACCACGTCTGGGACATTGGCATCG-TATCTG-ATT
1 T-CGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TCTGTTTT
* * *
18631671 TCGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATGTTTG-ATT
1 TCGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGAT-TCTGTTTT
* *
18631714 ACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCAT
18631745 TGTATATGCT
Statistics
Matches: 101, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.28
43 35 0.35
44 6 0.06
45 31 0.31
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTCTGTTTT
Found at i:18631732 original size:43 final size:42
Alignment explanation
Indices: 18631587--18631749 Score: 136
Period size: 42 Copynumber: 3.8 Consensus size: 42
18631577 TGTGTTATCG
* * *
18631587 TGTAAGACCACGTCTGGGAC-GTTGGCATCG-ACTTCTGTTTTTGCG
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGTA--TCTG--ATTACA
* * *
18631632 TGTAAGACCACGTCTGGGACATTGGCATCGTATCTGATTTCG
1 TGTAAGACCACGTCTGGGACAGTGGCATCGTATCTGATTACA
* * *
18631674 TGTAAGACC-CTGTCTGGGATAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATCTGATTACA
*
18631717 TGTAAGACCACGTCTGGGAC-GTTGGCATTGTAT
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGTAT
18631750 ATGCTTTCTG
Statistics
Matches: 100, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 33 0.33
43 32 0.32
44 5 0.05
45 28 0.28
46 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGTATCTGATTACA
Found at i:18633874 original size:26 final size:26
Alignment explanation
Indices: 18633842--18633893 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
18633832 AAATCTATCC
18633842 TTAATAAATGTCTTTTATGAAGCTTA
1 TTAATAAATGTCTTTTATGAAGCTTA
18633868 TTAATAAATGTCTTTTATGAAGCTTA
1 TTAATAAATGTCTTTTATGAAGCTTA
18633894 GCACCTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (26 bp):
TTAATAAATGTCTTTTATGAAGCTTA
Found at i:18634544 original size:27 final size:27
Alignment explanation
Indices: 18634474--18634544 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
18634464 GACAGATTAC
* * *
18634474 CCCATGTTTAACGTCCTGTCGGGCTAT
1 CCCATGTTTAACATCTTGTCGGACTAT
** *
18634501 CCTGTGTTTAACATCTTGTTGGACTAT
1 CCCATGTTTAACATCTTGTCGGACTAT
*
18634528 CCCATGTTTAACTTCTT
1 CCCATGTTTAACATCTT
18634545 ACTAAACTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (27 bp):
CCCATGTTTAACATCTTGTCGGACTAT
Found at i:18651090 original size:29 final size:30
Alignment explanation
Indices: 18651040--18651097 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
18651030 ACTTTATCAA
18651040 TTTTCTTATACCTACAAATAATGTTAAAATT
1 TTTTCTTATACCTAC-AATAATGTTAAAATT
*
18651071 TTTTCTTATACCTAC-TTAATGTTAAAA
1 TTTTCTTATACCTACAATAATGTTAAAA
18651098 AAAAATCTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.42
31 15 0.58
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (30 bp):
TTTTCTTATACCTACAATAATGTTAAAATT
Found at i:18653075 original size:22 final size:23
Alignment explanation
Indices: 18653022--18653080 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
18653012 CACCCTTTAG
*
18653022 TGGTATCGCGATATCCTCTTTTT
1 TGGTATCGCGATATCCTCTTCTT
18653045 TGGTATCGCGATATCCTCTTCTT
1 TGGTATCGCGATATCCTCTTCTT
18653068 T-GTATCGCGATAT
1 TGGTATCGCGATAT
18653081 TTATAGCGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 12 0.34
23 23 0.66
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (23 bp):
TGGTATCGCGATATCCTCTTCTT
Found at i:18656395 original size:32 final size:32
Alignment explanation
Indices: 18656349--18656412 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
18656339 TCAGGCAATG
* *
18656349 CTAATGAAAGTAACCAAATAGAGGTTAACTAT
1 CTAATAAAACTAACCAAATAGAGGTTAACTAT
18656381 CTAATAAAACTAACCAAATAGAGGTTAACTAT
1 CTAATAAAACTAACCAAATAGAGGTTAACTAT
18656413 GTAGAGAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.25
Consensus pattern (32 bp):
CTAATAAAACTAACCAAATAGAGGTTAACTAT
Found at i:18656646 original size:27 final size:27
Alignment explanation
Indices: 18656607--18656668 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
18656597 GAGGATGTGC
*
18656607 CAGAGGCGGCACTGGTGAAGCCTCTGT
1 CAGAGGCGACACTGGTGAAGCCTCTGT
18656634 CAGAGGCGACACTGGTGAAGCCTCTGT
1 CAGAGGCGACACTGGTGAAGCCTCTGT
18656661 CAGAGGCG
1 CAGAGGCG
18656669 GCACCAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.21, C:0.26, G:0.37, T:0.16
Consensus pattern (27 bp):
CAGAGGCGACACTGGTGAAGCCTCTGT
Found at i:18669740 original size:219 final size:219
Alignment explanation
Indices: 18669361--18669794 Score: 715
Period size: 219 Copynumber: 2.0 Consensus size: 219
18669351 CTCCTTACAG
* * *
18669361 TTGCTCAATATGGGAATAAGAACGTGCTCCCAATAGCATTTGCCATCGTAGATAAGGAGAACATG
1 TTGCTCAATATGGCAATAAGAACCTGCTCCCAATAGCATTTGCCATCATAGATAAGGAGAACATG
* *
18669426 GAATCTTAGGAATTCTTCTTTACCAACTTGCAGAGGTATGTTATTAGCAACGATAATATTTACAT
66 GAATCTTAGGAATTCTTCCTTACCAACTTGCAGAGGTATGTTATTAGCAACAATAATATTTACAT
* *
18669491 CATCTCCGATAGAGGGAAAAGATTAATTGCCGCAATTAGGCATTCCGGTGTACTATGGAGATCTG
131 CATCTCCGATAGAGGGAAAAGATTAATTGCCGCAATTAGGAATTCCGGTGTACTATGGAGATCCG
18669556 TTTACTGCATCCGTCACATTACGA
196 TTTACTGCATCCGTCACATTACGA
* * *
18669580 TTGCTCAATATGGCAATAAGAACCTGCTCCCAATAGCATTTTCCATTATAGATAAGGCGAACATG
1 TTGCTCAATATGGCAATAAGAACCTGCTCCCAATAGCATTTGCCATCATAGATAAGGAGAACATG
* * **
18669645 GAATCTTGGGAATTCTTCCTTACCAACTTGCGGAGGTATGTTATTAGCAACAATAATATTTGTAT
66 GAATCTTAGGAATTCTTCCTTACCAACTTGCAGAGGTATGTTATTAGCAACAATAATATTTACAT
* * *
18669710 CATTTCCGATAGAGGGAAAAGATTAATTGCCTCAATTAGGAATTCCGGTGTGCTATGGAGATCCG
131 CATCTCCGATAGAGGGAAAAGATTAATTGCCGCAATTAGGAATTCCGGTGTACTATGGAGATCCG
18669775 TTTACTGCATCCGTCACATT
196 TTTACTGCATCCGTCACATT
18669795 GCAGCTAACT
Statistics
Matches: 198, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
219 198 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (219 bp):
TTGCTCAATATGGCAATAAGAACCTGCTCCCAATAGCATTTGCCATCATAGATAAGGAGAACATG
GAATCTTAGGAATTCTTCCTTACCAACTTGCAGAGGTATGTTATTAGCAACAATAATATTTACAT
CATCTCCGATAGAGGGAAAAGATTAATTGCCGCAATTAGGAATTCCGGTGTACTATGGAGATCCG
TTTACTGCATCCGTCACATTACGA
Found at i:18671343 original size:33 final size:33
Alignment explanation
Indices: 18671268--18671414 Score: 127
Period size: 33 Copynumber: 4.5 Consensus size: 33
18671258 GGAGTGGAGA
* * *
18671268 ACTGCAGTGGATACGGGC-CAGAGGTAGTGCTGT
1 ACTGCGGTGGATACGGGCTGAGA-GAAGTGCTGT
** * *
18671301 GTTACGGTGGATACGGGCTGAGAG-AGTTCCTGT
1 ACTGCGGTGGATACGGGCTGAGAGAAG-TGCTGT
* * * * *
18671334 ACTGTGGTGGATATGGGCCGAGGGTAGTGCTGT
1 ACTGCGGTGGATACGGGCTGAGAGAAGTGCTGT
** *
18671367 ACTGCGGTGGATACAAGCTGGGAGAAGTGCTGT
1 ACTGCGGTGGATACGGGCTGAGAGAAGTGCTGT
18671400 ACTGCGGTGGATACG
1 ACTGCGGTGGATACG
18671415 ACCCAAAGAT
Statistics
Matches: 88, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
32 2 0.02
33 81 0.92
34 5 0.06
ACGTcount: A:0.20, C:0.16, G:0.41, T:0.24
Consensus pattern (33 bp):
ACTGCGGTGGATACGGGCTGAGAGAAGTGCTGT
Found at i:18671344 original size:66 final size:66
Alignment explanation
Indices: 18671268--18671414 Score: 172
Period size: 66 Copynumber: 2.2 Consensus size: 66
18671258 GGAGTGGAGA
* ** **
18671268 ACTGCAGTGGATACGGGCC-AGAGGTAGTGCTGTGTTACGGTGGATACGGGCTGAGAG-AGTTCC
1 ACTGCGGTGGATACGGGCCGAG-GGTAGTGCTGTACTACGGTGGATACAAGCTGAGAGAAG-TCC
18671331 TGT
64 TGT
* * * * *
18671334 ACTGTGGTGGATATGGGCCGAGGGTAGTGCTGTACTGCGGTGGATACAAGCTGGGAGAAGTGCTG
1 ACTGCGGTGGATACGGGCCGAGGGTAGTGCTGTACTACGGTGGATACAAGCTGAGAGAAGTCCTG
18671399 T
66 T
18671400 ACTGCGGTGGATACG
1 ACTGCGGTGGATACG
18671415 ACCCAAAGAT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
66 63 0.94
67 4 0.06
ACGTcount: A:0.20, C:0.16, G:0.41, T:0.24
Consensus pattern (66 bp):
ACTGCGGTGGATACGGGCCGAGGGTAGTGCTGTACTACGGTGGATACAAGCTGAGAGAAGTCCTG
T
Found at i:18673965 original size:16 final size:16
Alignment explanation
Indices: 18673897--18673978 Score: 76
Period size: 16 Copynumber: 5.1 Consensus size: 16
18673887 TCAAAAAAAA
18673897 TTATTTTTTT-GTATT
1 TTATTTTTTTAGTATT
*
18673912 TTATTTATTTTCGTATT
1 TTATTT-TTTTAGTATT
* * **
18673929 TTATTTTTTCATTAAG
1 TTATTTTTTTAGTATT
*
18673945 ATATTTTTTTAGTATT
1 TTATTTTTTTAGTATT
* *
18673961 TTATTTTTATACTATT
1 TTATTTTTTTAGTATT
18673977 TT
1 TT
18673979 TGTAAAAAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
15 6 0.12
16 35 0.67
17 11 0.21
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.71
Consensus pattern (16 bp):
TTATTTTTTTAGTATT
Found at i:18674501 original size:20 final size:20
Alignment explanation
Indices: 18674478--18674515 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18674468 CCTTCTCCTT
18674478 CTTC-TTCTTCTCTTCTTTTC
1 CTTCTTTCTTCT-TTCTTTTC
18674498 CTTCTTTCTTCTTTCTTT
1 CTTCTTTCTTCTTTCTTT
18674516 CAGCCGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (20 bp):
CTTCTTTCTTCTTTCTTTTC
Found at i:18675807 original size:47 final size:47
Alignment explanation
Indices: 18675735--18676001 Score: 260
Period size: 47 Copynumber: 5.8 Consensus size: 47
18675725 CCTTGATTGG
*
18675735 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACACCGGGATA
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
* ** ** * ** * *
18675782 AGTTACATTGATTTGGCTATTGGCCATGAAATAGGTATTTTGAGATG
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
* *
18675829 AGTTACATTGATTTGGCTACGGGCCATGGTATGGGTACTCCGGGATA
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
** * * ** * *
18675876 AGTTACCTTGATTT-G--A----CCATGAAATAAGTATTTTGAGAGA
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
*
18675916 AGTTACCTTGGTTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
** *
18675963 AGTTAGTTTGATTTGGCTATGGGCCATGGTATAGGTACT
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
18676002 TATTGATTAT
Statistics
Matches: 169, Mismatches: 44, Indels: 14
0.74 0.19 0.06
Matches are distributed among these distances:
40 28 0.17
41 1 0.01
43 1 0.01
44 1 0.01
46 1 0.01
47 137 0.81
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.33
Consensus pattern (47 bp):
AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
Found at i:18675953 original size:87 final size:87
Alignment explanation
Indices: 18675805--18675977 Score: 276
Period size: 87 Copynumber: 2.0 Consensus size: 87
18675795 TGGCTATTGG
* *
18675805 CCATGAAATAGGTATTTTGAGATGAGTTACATTGATTTGGCTACGGGCCATGGTATGGGTACTCC
1 CCATGAAATAAGTATTTTGAGATGAGTTACATTGATTTGGCTACGGGCCATGGTATAGGTACTCC
18675870 GGGATAAGTTACCTTGATTTGA
66 GGGATAAGTTACCTTGATTTGA
* *
18675892 CCATGAAATAAGTATTTTGAGA-GAAGTTACCTTGGTTTGGCTACGGGCCATGGTATAGGTACTC
1 CCATGAAATAAGTATTTTGAGATG-AGTTACATTGATTTGGCTACGGGCCATGGTATAGGTACTC
**
18675956 CGGGATAAGTTAGTTTGATTTG
65 CGGGATAAGTTACCTTGATTTG
18675978 GCTATGGGCC
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 1 0.01
87 78 0.99
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (87 bp):
CCATGAAATAAGTATTTTGAGATGAGTTACATTGATTTGGCTACGGGCCATGGTATAGGTACTCC
GGGATAAGTTACCTTGATTTGA
Found at i:18677175 original size:13 final size:13
Alignment explanation
Indices: 18677152--18677183 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
18677142 GACACACAGG
18677152 CGTGT-GGTCAGC
1 CGTGTGGGTCAGC
18677164 CGTGTGGGTCAGC
1 CGTGTGGGTCAGC
18677177 CGTGTGG
1 CGTGTGG
18677184 CCCAAATCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.06, C:0.22, G:0.47, T:0.25
Consensus pattern (13 bp):
CGTGTGGGTCAGC
Found at i:18681569 original size:40 final size:40
Alignment explanation
Indices: 18681506--18681625 Score: 129
Period size: 40 Copynumber: 3.0 Consensus size: 40
18681496 CTATGTTCGA
* *
18681506 CACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAAT-A-G
1 CACTAAGTGTGCGAATTGGAATAGCTTCGGCTAT--ATGAGG
*
18681546 CACTAAGTGTGCGAATTGGAATAGGTTCGGCTATATGAGG
1 CACTAAGTGTGCGAATTGGAATAGCTTCGGCTATATGAGG
* * *
18681586 CACTAAGTGTGCG-ATATCGAGATAGCTTCGGTTATTTGAG
1 CACTAAGTGTGCGAAT-TGGA-ATAGCTTCGGCTATATGAG
18681626 ATGGCACTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
38 2 0.03
39 3 0.04
40 48 0.70
41 16 0.23
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (40 bp):
CACTAAGTGTGCGAATTGGAATAGCTTCGGCTATATGAGG
Found at i:18688944 original size:40 final size:40
Alignment explanation
Indices: 18688872--18688947 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
18688862 ACTATGTTCG
* * *
18688872 GCACTAAGTGTGTGATTTGAAATAGCTCCGGCTATAAATA
1 GCACTAAGTGTGCGAATTGAAATACCTCCGGCTATAAATA
* *
18688912 GCACTAAGTGTGCGAATTGGAATACCTTCGGCTATA
1 GCACTAAGTGTGCGAATTGAAATACCTCCGGCTATA
18688948 TGAGGCAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (40 bp):
GCACTAAGTGTGCGAATTGAAATACCTCCGGCTATAAATA
Found at i:18694917 original size:43 final size:43
Alignment explanation
Indices: 18694803--18694950 Score: 115
Period size: 43 Copynumber: 3.4 Consensus size: 43
18694793 TCCTAGAAAT
* * * * * *
18694803 GGTCTTACATGTTATCAC-ATATCAATGGCACTGTCCCAGACAG
1 GGTCTTACACGTAATCACAATA-CAATGCCAATGTTCCAGACAC
* * *
18694846 GGTCTTACACGAAATCGATTAAT--GATGCCAATGTTCCAGACAC
1 GGTCTTACACGTAATC-A-CAATACAATGCCAATGTTCCAGACAC
* *
18694889 GGTCTTACACGTAATCACAATACAATGCCAATG-TCCTAGATAT
1 GGTCTTACACGTAATCACAATACAATGCCAATGTTCC-AGACAC
* *
18694932 GGTCTTACATGTGATCACA
1 GGTCTTACACGTAATCACA
18694951 TCTCGATAAC
Statistics
Matches: 83, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
41 3 0.04
42 4 0.05
43 73 0.88
44 1 0.01
46 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATCACAATACAATGCCAATGTTCCAGACAC
Found at i:18721841 original size:22 final size:22
Alignment explanation
Indices: 18721797--18721842 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
18721787 GTGGGAGCAT
*
18721797 TTTGGCACTTCGGTGCGACTCA
1 TTTGGCACTTCAGTGCGACTCA
* *
18721819 TTTGGCACTTCAGTGTGATTCA
1 TTTGGCACTTCAGTGCGACTCA
18721841 TT
1 TT
18721843 CTAGCACTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (22 bp):
TTTGGCACTTCAGTGCGACTCA
Found at i:18724091 original size:3 final size:3
Alignment explanation
Indices: 18724083--18724107 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18724073 AATATTTTCT
18724083 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
18724108 GAATTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18726151 original size:47 final size:47
Alignment explanation
Indices: 18726080--18726175 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
18726070 TTCCACACAC
*
18726080 CTCTTGTTACCATTTCATTTCTTTATTACTTTTTCACTTACAAATTT
1 CTCTTGTTACCATTTCATTCCTTTATTACTTTTTCACTTACAAATTT
18726127 CTCTTGTTACCATTTCATTCCTTTATTACTTTTTCACTTACAAATTT
1 CTCTTGTTACCATTTCATTCCTTTATTACTTTTTCACTTACAAATTT
18726174 CT
1 CT
18726176 AACTTATCTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.21, C:0.23, G:0.02, T:0.54
Consensus pattern (47 bp):
CTCTTGTTACCATTTCATTCCTTTATTACTTTTTCACTTACAAATTT
Found at i:18734764 original size:56 final size:56
Alignment explanation
Indices: 18734633--18734824 Score: 278
Period size: 56 Copynumber: 3.4 Consensus size: 56
18734623 TCCCAAACAG
* * * * *
18734633 GGTCTTACTTGCACACGTAAATCGGAATCACATATCGATGCCAACGTACT-AAAGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAAAGT
**
18734688 GGTCTTACTCGCACACATATATCGAAATCACATATCGATTTCAACGTATTAAAAGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAAAGT
* * *
18734744 GGTCTTACTCGTACAAATATATCGAAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAAAGT
*
18734800 GGTCTTACTTGCACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
18734825 TGCCATGGTC
Statistics
Matches: 121, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
55 43 0.36
56 78 0.64
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAAAGT
Found at i:18746259 original size:140 final size:142
Alignment explanation
Indices: 18746017--18746286 Score: 445
Period size: 140 Copynumber: 1.9 Consensus size: 142
18746007 TGTTACCTCT
* *
18746017 GGATCTCCACACTCTTTTGCGTTCGCCTAAGGATCTCTCCTATTTTTTTTGTTCGTCCCCTTTAG
1 GGATCTCCACACTCTTTTGCGTTCGCCTAAGGATCTCTCCTACTTTTTTTGTTCGCCCCCTTTAG
* *
18746082 GGTTTCCTCTTTTGGTTTTTTATAATATTTTTCCTTAGGGTAAATCCAACTA-CCCAAGATATCT
66 GGTTTCCTCTTTTGGATTTTTATAATATTTTTCCTTAGGGTAAATCCAAATAGCCCAAGATATCT
18746146 ATTGTTGTGTCC
131 ATTGTTGTGTCC
* * * *
18746158 GGATCTCCACACTTTTTTGTGTTTGCCTAAGGATCTCTCCT-CTTTTTTTGTTTGCCCCCTTTAG
1 GGATCTCCACACTCTTTTGCGTTCGCCTAAGGATCTCTCCTACTTTTTTTGTTCGCCCCCTTTAG
*
18746222 GGTTTCCTCTTTTGGATTTTTATAATATTTTTCCTTAGGGTAAATCCAAATAGCCCATGATATCT
66 GGTTTCCTCTTTTGGATTTTTATAATATTTTTCCTTAGGGTAAATCCAAATAGCCCAAGATATCT
18746287 TCTCCTTTTT
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
140 70 0.59
141 49 0.41
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (142 bp):
GGATCTCCACACTCTTTTGCGTTCGCCTAAGGATCTCTCCTACTTTTTTTGTTCGCCCCCTTTAG
GGTTTCCTCTTTTGGATTTTTATAATATTTTTCCTTAGGGTAAATCCAAATAGCCCAAGATATCT
ATTGTTGTGTCC
Done.