Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 152 of 325
Found at i:46349729 original size:17 final size:17
Alignment explanation
Indices: 46349707--46349740 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
46349697 TTTATTTTAA
46349707 TTTTTATAATTT-TATAT
1 TTTTTA-AATTTATATAT
46349724 TTTTTAAATTTATATAT
1 TTTTTAAATTTATATAT
46349741 AAATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTAAATTTATATAT
Found at i:46349735 original size:15 final size:16
Alignment explanation
Indices: 46349702--46349738 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
46349692 TGTTTTTTAT
*
46349702 TTTA-ATTTTTATAAT
1 TTTATATTTTTATAAA
46349717 TTTATATTTTT-TAAA
1 TTTATATTTTTATAAA
46349732 TTTATAT
1 TTTATAT
46349739 ATAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATATTTTTATAAA
Found at i:46355251 original size:28 final size:29
Alignment explanation
Indices: 46355137--46355251 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
46355127 TACCTGTATC
* * *
46355137 TGGCCCATTAAGCCC-ATTCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
46355165 TGGCCCATTAGCCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
46355194 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
46355223 TGGCCCGTT-GGGCCAAGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
46355251 T
1 T
46355252 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 31 0.42
29 41 0.56
30 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:46359015 original size:46 final size:47
Alignment explanation
Indices: 46358960--46359126 Score: 173
Period size: 46 Copynumber: 3.6 Consensus size: 47
46358950 TGATATGTGT
46358960 GCTAGTGTAAGACATGTCTGGGACATGCATTGACCACATTATA-AGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGACCACATTATACAGA
* * * * *
46359006 GCCAGTGTAAGACATATCTGGGACATGTA-T--CGACATTAAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGACCACATT-ATAC-AGA
* * * *
46359052 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGACCAC-A-TTATACAGA
*
46359100 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
46359127 ATGTCAGCTT
Statistics
Matches: 97, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 54 0.56
48 26 0.27
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGACCACATTATACAGA
Found at i:46362179 original size:71 final size:71
Alignment explanation
Indices: 46362095--46362258 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
46362085 CGATTTGTCT
46362095 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
46362160 CTTTCA
66 CTTTCA
46362166 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
46362231 CTTTCA
66 CTTTCA
46362237 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
46362259 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:46362296 original size:71 final size:70
Alignment explanation
Indices: 46362095--46362292 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
46362085 CGATTTGTCT
* * * *
46362095 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46362160 CTTTCA
65 CTTTCA
* * * *
46362166 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46362231 CTTTCA
65 CTTTCA
* *
46362237 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
46362293 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:46369747 original size:71 final size:71
Alignment explanation
Indices: 46369663--46369826 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
46369653 CGATTTGTCT
46369663 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
46369728 CTTTCA
66 CTTTCA
46369734 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
46369799 CTTTCA
66 CTTTCA
46369805 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
46369827 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:46369864 original size:71 final size:70
Alignment explanation
Indices: 46369663--46369860 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
46369653 CGATTTGTCT
* * * *
46369663 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46369728 CTTTCA
65 CTTTCA
* * * *
46369734 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
46369799 CTTTCA
65 CTTTCA
* *
46369805 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
46369861 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:46380791 original size:55 final size:55
Alignment explanation
Indices: 46380692--46380798 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
46380682 TATGGAGGCC
* **
46380692 TACGCCCGTGTTAATTTAATAGGTTCGACCACGGGTACTTGGCACGGGCGTGGCG
1 TACGCCCGTGTTAATTTAACAGGTTCGACCACGGGTACCAGGCACGGGCGTGGCG
* * * * * *
46380747 TACGCTCGTTTTAATTTAACAGGTTTGACCACGGTTTCCAGGCACGTGCGTG
1 TACGCCCGTGTTAATTTAACAGGTTCGACCACGGGTACCAGGCACGGGCGTG
46380799 TTGCACGCCC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (55 bp):
TACGCCCGTGTTAATTTAACAGGTTCGACCACGGGTACCAGGCACGGGCGTGGCG
Found at i:46386152 original size:37 final size:37
Alignment explanation
Indices: 46386102--46386204 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
46386092 GTCTTACCCG
*
46386102 CCACACGTAGTCATCGGGTCTTACTCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
46386139 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
46386176 CCACACGTAGTCATCGGGTCTCACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
46386205 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:46386320 original size:48 final size:48
Alignment explanation
Indices: 46386249--46386630 Score: 651
Period size: 48 Copynumber: 8.0 Consensus size: 48
46386239 TGTTACAACA
* *
46386249 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
46386297 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
46386345 TTCACATTAGCCATTCGGTTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
46386393 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA-
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
46386440 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
46386488 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA-
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
46386535 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
46386583 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
46386631 ACATATCTCA
Statistics
Matches: 312, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 90 0.29
48 222 0.71
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:46386491 original size:95 final size:95
Alignment explanation
Indices: 46386248--46386630 Score: 694
Period size: 95 Copynumber: 4.0 Consensus size: 95
46386238 ATGTTACAAC
* * * * *
46386248 ATTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATATTTCACATTCGCCATTC
1 ATTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTC
*
46386313 GGCTTTACGACATATACATATCTCATATAT
66 GGCTTTACCACATATACATATCTCATATAT
*
46386343 ATTTCACATTAGCCATTCGGTTTTACCACATATACATATCACACATATATTTCACATTAGCCATT
1 A-TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATT
46386408 CGGCTTTACCACATATACATATCTCATATAT
65 CGGCTTTACCACATATACATATCTCATATAT
46386439 ATTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTC
1 ATTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTC
46386504 GGCTTTACCACATATACATATCTCATATAT
66 GGCTTTACCACATATACATATCTCATATAT
46386534 ATTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTC
1 ATTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTC
46386599 GGCTTTACCACATATACATATCTCATATAT
66 GGCTTTACCACATATACATATCTCATATAT
46386629 AT
1 AT
46386631 ACATATCTCA
Statistics
Matches: 279, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
95 191 0.68
96 88 0.32
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (95 bp):
ATTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTC
GGCTTTACCACATATACATATCTCATATAT
Found at i:46386492 original size:143 final size:143
Alignment explanation
Indices: 46386248--46386630 Score: 651
Period size: 143 Copynumber: 2.7 Consensus size: 143
46386238 ATGTTACAAC
* * *
46386248 ATTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATATTTCACATTCGCCATTC
1 ATTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
* *
46386313 GGCTTTACGACATATACATATCTCATATATATTTCACATTAGCCATTCGGTTTTACCACATATAC
66 GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
46386378 ATATCACACATAT
131 ATATCACACATAT
46386391 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA-TTCACATTAGCCATT
1 A-TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATT
* *
46386455 CGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATA
65 CGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATA
* *
46386520 CATATCTCATATAT
130 CATATCACACATAT
* *
46386534 ATTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTC
1 ATTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
46386599 GGCTTTACCACATATACATATCTCATATATAT
66 GGCTTTACCACATATACATATCTCATATATAT
46386631 ACATATCTCA
Statistics
Matches: 225, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
142 45 0.20
143 135 0.60
144 45 0.20
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (143 bp):
ATTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ATATCACACATAT
Found at i:46386632 original size:17 final size:17
Alignment explanation
Indices: 46386610--46386647 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
46386600 GCTTTACCAC
46386610 ATATACATATCTCATAT
1 ATATACATATCTCATAT
46386627 ATATACATATCTCATAT
1 ATATACATATCTCATAT
46386644 ATAT
1 ATAT
46386648 TTCACATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATACATATCTCATAT
Found at i:46386634 original size:65 final size:65
Alignment explanation
Indices: 46386562--46386696 Score: 234
Period size: 65 Copynumber: 2.1 Consensus size: 65
46386552 GCTTTACCAC
* *
46386562 ATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 ATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
* *
46386627 ATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
46386692 ATATA
1 ATATA
46386697 TATTTATCTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (65 bp):
ATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
Found at i:46389429 original size:19 final size:18
Alignment explanation
Indices: 46389407--46389442 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
46389397 TTCATTACTC
46389407 TTCTTTTTCTTCTTCTTTG
1 TTCTTTTTCTT-TTCTTTG
46389426 TTCTTTTTCTTTTCTTT
1 TTCTTTTTCTTTTCTTT
46389443 TAATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (18 bp):
TTCTTTTTCTTTTCTTTG
Found at i:46401591 original size:47 final size:47
Alignment explanation
Indices: 46401474--46401600 Score: 159
Period size: 46 Copynumber: 2.7 Consensus size: 47
46401464 AATCGGTAAG
* * * *
46401474 TACCTATACCATGGCCTATAGCCAAATCAAGGTAACTTATCCTAGAG
1 TACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCTAAAA
* * *
46401521 T-CCTATACCATAGCCCGTAGCCAAATCAAGGTAACTCCT-CTCAAAA
1 TACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCT-AAAA
*
46401567 TACCTATATCATGGCCTGTAGCCAAATCAAGGTA
1 TACCTATACCATGGCCTGTAGCCAAATCAAGGTA
46401601 TTATTCACAC
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 2 0.03
46 36 0.53
47 30 0.44
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (47 bp):
TACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCTAAAA
Found at i:46415424 original size:42 final size:44
Alignment explanation
Indices: 46415316--46415472 Score: 198
Period size: 43 Copynumber: 3.6 Consensus size: 44
46415306 AGCTTATACA
*
46415316 ATGCCAACGTCCCAGACATGGTCTTACATGTAAA-CAGATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* *
46415359 ATGCC-ACTGTCCCAGACAGGGTCTTGCATG-AAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* *
46415401 ATGCCAATGTCCCAAACATGGTCTTACATGTAAATCACAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCA-AATATCG
* *
46415445 ATGCCAACGTCCCAGACGTTGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
46415473 CGATAACACA
Statistics
Matches: 97, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
42 31 0.32
43 38 0.39
44 28 0.29
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
Found at i:46427660 original size:22 final size:22
Alignment explanation
Indices: 46427635--46427679 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
46427625 AGGGACAAAG
46427635 TAAAATCAAGAGCAGCCTTTAA
1 TAAAATCAAGAGCAGCCTTTAA
46427657 TAAAATCAAGAGCAGCCTTTAA
1 TAAAATCAAGAGCAGCCTTTAA
46427679 T
1 T
46427680 GCTTAGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.24
Consensus pattern (22 bp):
TAAAATCAAGAGCAGCCTTTAA
Found at i:46431556 original size:13 final size:13
Alignment explanation
Indices: 46431538--46431565 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46431528 ACACTCCTGA
46431538 TTGTATTGTAGAG
1 TTGTATTGTAGAG
46431551 TTGTATTGTAGAG
1 TTGTATTGTAGAG
46431564 TT
1 TT
46431566 CCATCGCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (13 bp):
TTGTATTGTAGAG
Found at i:46448373 original size:27 final size:27
Alignment explanation
Indices: 46448333--46448443 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
46448323 AAGAAGCGTC
*
46448333 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
46448360 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
46448387 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
46448415 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
46448441 CTG
1 CTG
46448444 ACAGCCATGC
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 49 0.66
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:46448439 original size:54 final size:54
Alignment explanation
Indices: 46448333--46448443 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
46448323 AAGAAGCGTC
* *
46448333 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
46448387 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
46448441 CTG
1 CTG
46448444 ACAGCCATGC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:46454035 original size:17 final size:18
Alignment explanation
Indices: 46454003--46454036 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46453993 GGGATAAGGG
46454003 GAGGTAAAAGTGGAGTTT
1 GAGGTAAAAGTGGAGTTT
*
46454021 GAGGTATAA-TGGAGTT
1 GAGGTAAAAGTGGAGTT
46454037 GTACCGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.29
Consensus pattern (18 bp):
GAGGTAAAAGTGGAGTTT
Found at i:46465245 original size:35 final size:35
Alignment explanation
Indices: 46465198--46465265 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
46465188 CCTATCCCTT
* *
46465198 AACCAACTTGATGAGGATTTGGCACGAGGTATGAC
1 AACCAACCTGATGAGGATTTGCCACGAGGTATGAC
*
46465233 AACCAACCTGATGAGGATTTGCCATGAGGTATG
1 AACCAACCTGATGAGGATTTGCCACGAGGTATG
46465266 GCACCTGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (35 bp):
AACCAACCTGATGAGGATTTGCCACGAGGTATGAC
Found at i:46469326 original size:289 final size:289
Alignment explanation
Indices: 46468807--46469377 Score: 1115
Period size: 289 Copynumber: 2.0 Consensus size: 289
46468797 TTTCAGACAA
*
46468807 AGATCTGAGGTTCACTTCGAGGTTCTGGAAAAAGTTACAAGAAGCCTTGGGTACAAAGTTGAGCT
1 AGATCTGAGGTTCACTTCAAGGTTCTGGAAAAAGTTACAAGAAGCCTTGGGTACAAAGTTGAGCT
46468872 TTAGTACAACTTTTCACCTGCAAACCAATGGTCAGTCTAAGCAGATGATTCAGATTCTTGAGGAT
66 TTAGTACAACTTTTCACCTGCAAACCAATGGTCAGTCTAAGCAGATGATTCAGATTCTTGAGGAT
46468937 ATGTTGCGATGCTGCATTCTCGAATTCTAGGGTAGCTGGGAAAAATACTTTCCATTGGTAAAATT
131 ATGTTGCGATGCTGCATTCTCGAATTCTAGGGTAGCTGGGAAAAATACTTTCCATTGGTAAAATT
46469002 TTCCTACAACAACAGTTTTCAAACGAGTTTGAAGATGGGACCTTATGAGGCTTTGTATCGCAGAA
196 TTCCTACAACAACAGTTTTCAAACGAGTTTGAAGATGGGACCTTATGAGGCTTTGTATCGCAGAA
46469067 AGTGCCGAACTCCATTATATTGTAGTCTG
261 AGTGCCGAACTCCATTATATTGTAGTCTG
46469096 AGATCTGAGGTTCACTTCAAGGTTCTGGAAAAAGTTACAAGAAGCCTTGGGTACAAAGTTGAGCT
1 AGATCTGAGGTTCACTTCAAGGTTCTGGAAAAAGTTACAAGAAGCCTTGGGTACAAAGTTGAGCT
* *
46469161 TTAGTACAGCTTTTCACCTGCAAACCAATGGTCAGTCTGAGCAGATGATTCAGATTCTTGAGGAT
66 TTAGTACAACTTTTCACCTGCAAACCAATGGTCAGTCTAAGCAGATGATTCAGATTCTTGAGGAT
46469226 ATGTTGCGATGCTGCATTCTCGAATTCTAGGGTAGCTGGGAAAAATACTTTCCATTGGTAAAATT
131 ATGTTGCGATGCTGCATTCTCGAATTCTAGGGTAGCTGGGAAAAATACTTTCCATTGGTAAAATT
46469291 TTCCTACAACAACAGTTTTCAAACGAGTTTGAAGATGGGACCTTATGAGGCTTTGTATCGCAGAA
196 TTCCTACAACAACAGTTTTCAAACGAGTTTGAAGATGGGACCTTATGAGGCTTTGTATCGCAGAA
46469356 AGTGCCGAACTCCATTATATTG
261 AGTGCCGAACTCCATTATATTG
46469378 GAAAGAACTC
Statistics
Matches: 279, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
289 279 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (289 bp):
AGATCTGAGGTTCACTTCAAGGTTCTGGAAAAAGTTACAAGAAGCCTTGGGTACAAAGTTGAGCT
TTAGTACAACTTTTCACCTGCAAACCAATGGTCAGTCTAAGCAGATGATTCAGATTCTTGAGGAT
ATGTTGCGATGCTGCATTCTCGAATTCTAGGGTAGCTGGGAAAAATACTTTCCATTGGTAAAATT
TTCCTACAACAACAGTTTTCAAACGAGTTTGAAGATGGGACCTTATGAGGCTTTGTATCGCAGAA
AGTGCCGAACTCCATTATATTGTAGTCTG
Found at i:46475686 original size:11 final size:11
Alignment explanation
Indices: 46475664--46475696 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
46475654 CTCGCAAAGG
46475664 TTGGAG-ATCA
1 TTGGAGCATCA
46475674 TTGGAGCATCA
1 TTGGAGCATCA
46475685 TTGGAGCATCA
1 TTGGAGCATCA
46475696 T
1 T
46475697 CACACTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (11 bp):
TTGGAGCATCA
Found at i:46480010 original size:37 final size:36
Alignment explanation
Indices: 46479960--46480046 Score: 122
Period size: 37 Copynumber: 2.3 Consensus size: 36
46479950 TACGAAGTCT
*
46479960 TACCCGGACATAATCTCC-ACACGTAGTCATCGGGTC
1 TACCCGGACATAATC-CCTACACGTAGTCATCAGGTC
46479996 GTACCCGGACATAATCCCTACACGTAGTCATCAGGTC
1 -TACCCGGACATAATCCCTACACGTAGTCATCAGGTC
46480033 TCACCCGGAACATA
1 T-ACCCGG-ACATA
46480047 TTTCCAAGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
36 3 0.07
37 38 0.83
38 5 0.11
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCCCTACACGTAGTCATCAGGTC
Found at i:46480219 original size:49 final size:49
Alignment explanation
Indices: 46480115--46480367 Score: 416
Period size: 49 Copynumber: 5.1 Consensus size: 49
46480105 TTTACCACAT
* *
46480115 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
46480164 ATATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCATATCAC
1 --ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
46480215 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
46480264 ATATGTATACATTTTCACATTCATCACGTCGGCTATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
46480313 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
46480362 ATATAT
1 ATATAT
46480368 TATTATGTAC
Statistics
Matches: 190, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
49 144 0.76
51 46 0.24
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:46483272 original size:40 final size:40
Alignment explanation
Indices: 46483228--46483316 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
46483218 TCGATTGTCC
* * *
46483228 TCGGGACA-TAGCCCGG-TTATAGTGATTCGCACAATTGCCT
1 TCGGGA-ATTAGCCCGGATT-TAGTAACTCGCACAAATGCCT
46483268 TCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCT
1 TCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCT
46483308 TCGGGAATT
1 TCGGGAATT
46483317 GACCCGTGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.02
40 41 0.93
41 2 0.05
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (40 bp):
TCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGCCT
Found at i:46486126 original size:25 final size:25
Alignment explanation
Indices: 46486052--46486129 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
46486042 CTCGGCCCTG
46486052 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
46486077 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
46486099 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
46486124 TCACAT
1 TCACAT
46486130 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:46486175 original size:49 final size:47
Alignment explanation
Indices: 46486001--46486462 Score: 587
Period size: 47 Copynumber: 9.7 Consensus size: 47
46485991 CCCTTCGGGA
* * * * *
46486001 CTTATCACATTTATACACTTTCACATCCATCACGT-TGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCT-GCCATTAGGC
* * * *
46486048 CCTGTCACATATATACACCTTCACATTCATCACAT-TGGCTATTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCT-GCCATT-AGGC
*
46486095 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
*
46486142 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCTGCCATTAGGC
46486191 CTTATCACATATATACACACTTTCACATTCATCACAT-TGGCCATTCA-GC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCT-GCCATT-AGGC
* *
46486240 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
*
46486287 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCTGCCATTAGGC
46486336 CTTATCACATATATACACACTTTCACATTCATCACAT-TGGCCATTCA-GC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCT-GCCATT-AGGC
* *
46486385 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
*
46486432 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACTTTCACATTCATC
46486463 GCGTAAAATC
Statistics
Matches: 374, Mismatches: 22, Indels: 38
0.86 0.05 0.09
Matches are distributed among these distances:
46 3 0.01
47 191 0.51
48 1 0.00
49 177 0.47
50 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
Found at i:46486198 original size:96 final size:94
Alignment explanation
Indices: 46486001--46486462 Score: 628
Period size: 96 Copynumber: 4.8 Consensus size: 94
46485991 CCCTTCGGGA
* * * * * * * *
46486001 CTTATCACATTTATACACTTTCACATCCATCACGT-TGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATACA
* *
46486065 CCTTCACATTCATCACATTGGCTATTCAGC
65 CCTTCACATTCATCACATCGGCCATTCAGC
46486095 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCAC--ATATATAC
*
46486160 ACTTTCACATTCATCACATCGGCCATT-AGGC
64 ACCTTCACATTCATCACATCGGCCATTCA-GC
46486191 CTTATCACATATATACACACTTTCACATTCATCACAT-TGGCCATTCA-GCCTTATCACATATAT
1 CTTATCACATATATACAC-C-TTCACATTCATCACATCT-GCCATT-AGGCCTTATCACATATAT
46486254 ACACCTTCACATTCATCACATCGGCCATT-AGGC
62 ACACCTTCACATTCATCACATCGGCCATTCA-GC
* *
46486287 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATAC
*
46486352 ACACTTTCACATTCATCACATTGGCCATTCAGC
64 AC-C-TTCACATTCATCACATCGGCCATTCAGC
*
46486385 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATACAC
*
46486450 ATTCACATTCATC
66 CTTCACATTCATC
46486463 GCGTAAAATC
Statistics
Matches: 336, Mismatches: 17, Indels: 30
0.88 0.04 0.08
Matches are distributed among these distances:
94 57 0.17
95 3 0.01
96 196 0.58
97 3 0.01
98 75 0.22
99 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTCAGC
Found at i:46486273 original size:145 final size:145
Alignment explanation
Indices: 46486001--46486462 Score: 792
Period size: 145 Copynumber: 3.2 Consensus size: 145
46485991 CCCTTCGGGA
* * * * * * *
46486001 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
46486064 AC-C-TTCACATTCATCACATTGGCTATTCAGCCTTATCACATATATACACCTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
*
46486127 CATCTGCCATTAGGC
131 CATCGGCCATTAGGC
46486142 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
46486207 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
46486272 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
46486287 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
46486352 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
46486417 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
*
46486432 CTTATCAC--ATATATACACATTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
46486463 GCGTAAAATC
Statistics
Matches: 307, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 69 0.22
144 1 0.00
145 226 0.74
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (145 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACACCTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:46490077 original size:29 final size:29
Alignment explanation
Indices: 46490012--46490091 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 29
46490002 GTGTATGATT
* * * *
46490012 CAAGCCCGCACACATAGTGCCATATAGTC
1 CAAGCTCGCACACTTAGTGCCATACAGTA
* * *
46490041 CAAACTCGCACACTTAGTGCCGTACATTA
1 CAAGCTCGCACACTTAGTGCCATACAGTA
*
46490070 CAAGCTCGCACACTCAGTGCCA
1 CAAGCTCGCACACTTAGTGCCA
46490092 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.19
Consensus pattern (29 bp):
CAAGCTCGCACACTTAGTGCCATACAGTA
Found at i:46497803 original size:30 final size:27
Alignment explanation
Indices: 46497767--46497824 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 27
46497757 AGCATGAACA
46497767 TAGCATCTATTAGCCATGAACTCAAGGTAC
1 TAGCATCTATTAGCCAT---CTCAAGGTAC
46497797 TAGCATCTATTAGCCATCTCAAGGTAC
1 TAGCATCTATTAGCCATCTCAAGGTAC
46497824 T
1 T
46497825 TACTCTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 11 0.39
30 17 0.61
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (27 bp):
TAGCATCTATTAGCCATCTCAAGGTAC
Found at i:46497966 original size:29 final size:28
Alignment explanation
Indices: 46497932--46498034 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
46497922 TACTCAATCA
*
46497932 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
46497961 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
46497990 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
46498019 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
46498035 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:46500271 original size:55 final size:55
Alignment explanation
Indices: 46500158--46500274 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
46500148 CTACAATTGT
* * * *
46500158 AAGTCAGTCTAAAGCACGGCCAAGGCACACGGGCGTGTGGTTAGCCGTGTGGCCC
1 AAGTCAGGCTAAACCACGGCCAAGGCACACGGGCGTGTCGTTAGCCGTGTGGACC
* * * * *
46500213 AAGTCAGGCTCAACCACGGCCAAGGCACATGGGCGTGTCTTGTGGCCGTGT-GATC
1 AAGTCAGGCTAAACCACGGCCAAGGCACACGGGCGTGTCGT-TAGCCGTGTGGACC
46500268 AAGTCAG
1 AAGTCAG
46500275 TATGTATGCC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 44 0.85
56 8 0.15
ACGTcount: A:0.22, C:0.26, G:0.33, T:0.18
Consensus pattern (55 bp):
AAGTCAGGCTAAACCACGGCCAAGGCACACGGGCGTGTCGTTAGCCGTGTGGACC
Found at i:46504771 original size:40 final size:40
Alignment explanation
Indices: 46504716--46504883 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
46504706 TGAATGATAC
* *
46504716 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
46504756 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
46504796 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
46504836 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
46504876 CC-GGCTAA
1 CCGGGCTAA
46504884 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:46512778 original size:40 final size:40
Alignment explanation
Indices: 46512723--46512890 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
46512713 TGAATGATAC
* *
46512723 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
46512763 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
46512803 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
46512843 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
46512883 CC-GGCTAA
1 CCGGGCTAA
46512891 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:46514311 original size:48 final size:48
Alignment explanation
Indices: 46514255--46514627 Score: 647
Period size: 48 Copynumber: 7.8 Consensus size: 48
46514245 TGTTACATAA
46514255 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
46514303 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
* *
46514351 GATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATACGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
* * **
46514399 GATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATAA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
*
46514447 GGTATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
* * * *
46514495 GATATGTAGATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
46514543 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
46514591 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGA
46514628 GTGTTGTAAC
Statistics
Matches: 303, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 303 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.32
Consensus pattern (48 bp):
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
Found at i:46514712 original size:37 final size:37
Alignment explanation
Indices: 46514662--46514758 Score: 176
Period size: 37 Copynumber: 2.6 Consensus size: 37
46514652 ACATGAAACT
*
46514662 TGGAGATTATGTCCGAGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
*
46514699 TGGAGATTATGTCCGGGTAAGACCCGATGACTATGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
46514736 TGGAGATTATGTCCGGGTAAGAC
1 TGGAGATTATGTCCGGGTAAGAC
46514759 TTCGTAATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:46524755 original size:55 final size:55
Alignment explanation
Indices: 46524689--46524815 Score: 143
Period size: 55 Copynumber: 2.3 Consensus size: 55
46524679 TGAGCCTGCC
* *
46524689 AAAACAACACGGGCGTGCGAC-CGGCCCG-TGTGGAAGAACCGTGGGT-GAACCTGTT
1 AAAACAACACGGGCGTGCGACAC-G-CCGATGTCGAACAACCGT-GGTCGAACCTGTT
* *
46524744 AAAACAACACGGGCGTTCGACACGCCGATGTCGAACACCCGTGGTCGAACCTGTT
1 AAAACAACACGGGCGTGCGACACGCCGATGTCGAACAACCGTGGTCGAACCTGTT
** *
46524799 AAATTAACACAGGCGTG
1 AAAACAACACGGGCGTG
46524816 GGGCTTGCAC
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
54 6 0.10
55 54 0.89
56 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.29, T:0.16
Consensus pattern (55 bp):
AAAACAACACGGGCGTGCGACACGCCGATGTCGAACAACCGTGGTCGAACCTGTT
Found at i:46527580 original size:85 final size:85
Alignment explanation
Indices: 46527422--46527586 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 85
46527412 TGAATAATAT
* * * * *
46527422 TATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGTGAGATAATATCGGGCTTCAGGCCTTGCAGG
1 TATCGGGCGTCAGGCCTAGCAGGCTATAATGCCGTGAAATAATATCGGGCTTCAAGCCTAGCAGG
* *
46527487 CTATAATGCTGGTGAGATAA
66 CTAAAATGCCGGTGAGATAA
* * * *
46527507 TATCGGGCGTCAGGCCTAGCAGGTTATAATGCCGGTGAAATGATATTGGGTTTCAAGCCTAGCAG
1 TATCGGGCGTCAGGCCTAGCAGGCTATAATGCC-GTGAAATAATATCGGGCTTCAAGCCTAGCAG
46527572 GC-AAAATGCCGGTGA
65 GCTAAAATGCCGGTGA
46527587 ATGAGTTCAG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 41 0.60
86 27 0.40
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (85 bp):
TATCGGGCGTCAGGCCTAGCAGGCTATAATGCCGTGAAATAATATCGGGCTTCAAGCCTAGCAGG
CTAAAATGCCGGTGAGATAA
Found at i:46527587 original size:42 final size:43
Alignment explanation
Indices: 46527383--46527587 Score: 211
Period size: 43 Copynumber: 4.8 Consensus size: 43
46527373 TGTGATATTT
* * * * *
46527383 GGGCCTCA-GCCTAGCAAGCTTTAA-GCTGGTGAATAATATTATC
1 GGGCTTCAGGCCTAGCAGGCTATAATGCCGGTG-A-AATAATATC
* *
46527426 GGGCTTCGGGCCTAGCAGGCTATAATGCC-GTGAGATAATATC
1 GGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATATC
* * *
46527468 GGGCTTCAGGCCTTGCAGGCTATAATGCTGGTGAGATAATATC
1 GGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATATC
* * * *
46527511 GGGCGTCAGGCCTAGCAGGTTATAATGCCGGTGAAATGATATT
1 GGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATATC
* * *
46527554 GGGTTTCAAGCCTAGCAGGC-AAAATGCCGGTGAA
1 GGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAA
46527588 TGAGTTCAGA
Statistics
Matches: 137, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
42 46 0.34
43 72 0.53
44 17 0.12
45 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (43 bp):
GGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATAATATC
Found at i:46527668 original size:40 final size:41
Alignment explanation
Indices: 46527435--46527667 Score: 152
Period size: 43 Copynumber: 5.6 Consensus size: 41
46527425 CGGGCTTCGG
* * *
46527435 GCCTAGCAGGCTATAATGCC-GTGAGAT-AATATCGGGCTTCAG
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCGGGTTTAAA
* * ** * *
46527477 GCCTTGCAGGCTATAATGCTGGTGAGAT-AATATCGGGCGTCAG
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCGGGTTTAAA
* *
46527520 GCCTAGCAGGTTATAATGCCGGTGAAATGATATT-GGGTTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGA-ATTCGGGTTTAAA
* * * **
46527563 GCCTAGCAGGCAAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
* ***
46527604 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
* *
46527644 ACCTAGCAGGCTAAATGCCAGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
46527668 TTTGATAAAA
Statistics
Matches: 154, Mismatches: 31, Indels: 13
0.78 0.16 0.07
Matches are distributed among these distances:
40 32 0.21
41 28 0.18
42 28 0.18
43 61 0.40
44 3 0.02
45 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
Found at i:46530671 original size:6 final size:6
Alignment explanation
Indices: 46530660--46530687 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
46530650 TTAAAACTAC
46530660 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
46530688 TAGCAGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:46538998 original size:80 final size:80
Alignment explanation
Indices: 46538914--46539062 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
46538904 TATGGTAACC
* * * *
46538914 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
46538978 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
46538994 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
46539059 CCGG
66 CCGG
46539063 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:46539004 original size:40 final size:38
Alignment explanation
Indices: 46538955--46539062 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
46538945 ATCACGATTT
*
46538955 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
46538995 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
46539035 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
46539063 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:46547157 original size:40 final size:39
Alignment explanation
Indices: 46547067--46547216 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
46547057 ATCACGATTT
*
46547067 GCACAAATGCCTTCGGGTCTTAG-CCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
46547106 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * ** *
46547146 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
46547186 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
46547217 TCATTCAATT
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 26 0.29
40 62 0.69
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:46561206 original size:37 final size:37
Alignment explanation
Indices: 46561165--46561274 Score: 157
Period size: 37 Copynumber: 3.0 Consensus size: 37
46561155 TAGTTCAGGG
46561165 CTTACCCGGACAAAATCTCCACCCGTGGTCATCGGGA
1 CTTACCCGGACAAAATCTCCACCCGTGGTCATCGGGA
* *
46561202 CTTACCCGGACAATATCTCCACCCGTGGTCATCGGGT
1 CTTACCCGGACAAAATCTCCACCCGTGGTCATCGGGA
* * * * *
46561239 CTTACTCGGACATAATCCCCACACGTAGTCATCGGG
1 CTTACCCGGACAAAATCTCCACCCGTGGTCATCGGG
46561275 TCTTTAGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.22
Consensus pattern (37 bp):
CTTACCCGGACAAAATCTCCACCCGTGGTCATCGGGA
Found at i:46561508 original size:47 final size:47
Alignment explanation
Indices: 46561396--46561893 Score: 694
Period size: 47 Copynumber: 10.3 Consensus size: 47
46561386 CCCTTCGGGA
* * * * *
46561396 CTTATCACATTTATACACTTTCACATCCATCACATTGG-CACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
46561442 CTTATCACATATATACACTTTCACATTCATTACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46561489 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46561536 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46561583 CTTCTCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46561630 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46561677 CTTGTCACATATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 C---T----TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46561730 CTTGTCACATATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 C---T----TA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46561785 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
46561832 CTTGTCACATATATAGACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46561879 CTTATCACATATATA
1 CTTATCACATATATA
46561894 TATCTCATAC
Statistics
Matches: 423, Mismatches: 19, Indels: 19
0.92 0.04 0.04
Matches are distributed among these distances:
46 35 0.08
47 288 0.68
48 1 0.00
50 1 0.00
52 1 0.00
53 39 0.09
54 29 0.07
55 29 0.07
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46561846 original size:202 final size:194
Alignment explanation
Indices: 46561400--46561890 Score: 710
Period size: 202 Copynumber: 2.5 Consensus size: 194
46561390 TCGGGACTTA
* * * * * *
46561400 TCACATTTATACACTTTCACATCCATCACATTGG-CACTCGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTC
* * * *
46561464 ACATTCATTACATTGGCCATTCGGCC--T----TATCACATATATGCACTTTCACATTCATCACA
66 ACATTCATCACATCGGCCATTAGGCCTTTCACATATCACATATATACACTTTCACATTCATCACA
46561523 TCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTC
131 TCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTC
*
46561587 TCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTC
46561652 ACATTCATCACATCGGCCATTAGGCCTTGTCACATATCACATATATACAC-TTCACATTCATCAC
66 ACATTCATCACATCGGCCATTAGGCCTT-TCACATATCACATATATACACTTTCACATTCATCAC
46561716 ATCGGCCATTAGGCCTTGTCACATATTCACATATATACACTTTCACATTCATCACATCGGCCATT
130 ATCGGCCATTAGGCCTTG--------TCACATATATACACTTTCACATTCATCACATCGGCCATT
*
46561781 AGGCCTTG
187 AGGCCTTC
*
46561789 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAGACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTC
*
46561854 ACATTCATCACTTCGGCCATTAGGCCTTATCACATAT
66 ACATTCATCACATCGGCCATTAGGCCTT-TCACATAT
46561891 ATATATCTCA
Statistics
Matches: 272, Mismatches: 16, Indels: 17
0.89 0.05 0.06
Matches are distributed among these distances:
187 30 0.11
188 50 0.18
191 1 0.00
194 32 0.12
195 15 0.06
202 144 0.53
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (194 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTTCACATATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTC
Found at i:46561891 original size:249 final size:242
Alignment explanation
Indices: 46561444--46561893 Score: 742
Period size: 249 Copynumber: 1.8 Consensus size: 242
46561434 CACTCGGCCT
* * * *
46561444 TATCACATATATACACTTTCACATTCATTACATTGGCCATTCGGCCTTATCACATATATGCACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
46561509 TCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATCGG
66 TCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATCGG
*
46561574 CCATTAGGCCTTCTCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACA
131 CCATTAGGCCTTCTCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
46561639 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACA
196 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACA
46561686 TATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATTCACATAT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC---T----TA-TCACATAT
46561750 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCAT
58 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCAT
* *
46561815 CACATCGGCCATTAGGCCTTGTCACATATATAG-ACTTTCACATTCATCACTTCGGCCATTAGGC
123 CACATCGGCCATTAGGCCTTCTCACATATAT-GCACTTTCACATTCATCACATCGGCCATTAGGC
46561879 CTTATCACATATATA
187 CTTATCACATATATA
46561894 TATCTCATAC
Statistics
Matches: 192, Mismatches: 7, Indels: 11
0.91 0.03 0.05
Matches are distributed among these distances:
241 26 0.14
242 16 0.08
244 1 0.01
248 2 0.01
249 146 0.76
250 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (242 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCTTCTCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACA
Found at i:46561928 original size:155 final size:152
Alignment explanation
Indices: 46561446--46561890 Score: 632
Period size: 155 Copynumber: 3.0 Consensus size: 152
46561436 CTCGGCCTTA
* * * * * *
46561446 TCACATATATACACTTTCACATTCATTACATTGGCCATTCGGCCTTATCACATATATGCACTTTC
1 TCACATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTC
46561511 ACATTCATCACATCGGCCATTAGGCCTTGTCAC-AT-ATAT--ACACTTTCACATTCATCACATC
66 ACATTCATCACATCGGCCATTAGGCCTTGTCACAATCATATAGACAC-TTCACATTCATCACATC
46561572 GGCCATTAGGCC-T-T--C----
130 GGCCATTAGGCCTTATCACATAT
* *
46561587 TCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTC
1 TCACATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTC
*
46561652 ACATTCATCACATCGGCCATTAGGCCTTGTCACATATCACATATATACACTTCACATTCATCACA
66 ACATTCATCACATCGGCCATTAGGCCTTGTCACA-AT--CATATAGACACTTCACATTCATCACA
*
46561717 TCGGCCATTAGGCCTTGTCACATAT
128 TCGGCCATTAGGCCTTATCACATAT
*
46561742 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTC
1 TCACATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTC
* *
46561807 ACATTCATCACATCGGCCATTAGGCCTTGTCAC-AT-ATATAGAC-TTTCACATTCATCACTTCG
66 ACATTCATCACATCGGCCATTAGGCCTTGTCACAATCATATAGACACTTCACATTCATCACATCG
46561869 GCCATTAGGCCTTATCACATAT
131 GCCATTAGGCCTTATCACATAT
46561891 ATATATCTCA
Statistics
Matches: 278, Mismatches: 11, Indels: 22
0.89 0.04 0.07
Matches are distributed among these distances:
141 92 0.33
143 2 0.01
146 4 0.01
147 29 0.10
148 5 0.02
149 39 0.14
150 7 0.03
151 1 0.00
153 2 0.01
155 97 0.35
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (152 bp):
TCACATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTGTCACAATCATATAGACACTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATAT
Found at i:46565075 original size:40 final size:39
Alignment explanation
Indices: 46565020--46565191 Score: 193
Period size: 40 Copynumber: 4.3 Consensus size: 39
46565010 CCTCATAATT
* *
46565020 CTAGCACGAATGCTCTTCGAGGTTTCGCCCGAATATATCA
1 CTAGCACGAATGCTCTTCGAGG-TTAGCCCGGATATATCA
**
46565060 CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATCA
1 CTAGCACGAATGCTCTTC-GAGGTTAGCCCGGATATATCA
* * *
46565100 CTAGCACGAATGCTCTTCGGAAGTTAG-TCGGTTATATCA
1 CTAGCACGAATGCTCTTC-GAGGTTAGCCCGGATATATCA
* ** * *
46565139 CTAGCATGAATGCTCTTCGGAACTTAGTCCGGTTATATCA
1 CTAGCACGAATGCTCTTC-GAGGTTAGCCCGGATATATCA
46565179 CTAGCACGAATGC
1 CTAGCACGAATGC
46565192 GGATATATCA
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 82 0.69
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (39 bp):
CTAGCACGAATGCTCTTCGAGGTTAGCCCGGATATATCA
Found at i:46565150 original size:39 final size:39
Alignment explanation
Indices: 46565053--46565191 Score: 224
Period size: 40 Copynumber: 3.5 Consensus size: 39
46565043 TTCGCCCGAA
* *
46565053 TATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGA
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAG-TCGGT
*
46565093 TATATCACTAGCACGAATGCTCTTCGGAAGTTAGTCGGT
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCGGT
*
46565132 TATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGT
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGT-CGGT
46565172 TATATCACTAGCACGAATGC
1 TATATCACTAGCACGAATGC
46565192 GGATATATCA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 36 0.39
40 56 0.61
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (39 bp):
TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCGGT
Found at i:46565231 original size:63 final size:63
Alignment explanation
Indices: 46565132--46565254 Score: 210
Period size: 63 Copynumber: 2.0 Consensus size: 63
46565122 GTTAGTCGGT
* *
46565132 TATATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGTTATATCACTAGCACGAATGCGGA
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGTTATATCACTAGCAAGAATGCGGA
* *
46565195 TATATCACTAGCGCGAATGCTCTTCGGAACTTAGTCCGGTTATATCAGTAGCAAGAATGC
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGTTATATCACTAGCAAGAATGC
46565255 TCTTCGGAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (63 bp):
TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGTTATATCACTAGCAAGAATGCGGA
Found at i:46565253 original size:40 final size:40
Alignment explanation
Indices: 46565191--46565394 Score: 291
Period size: 40 Copynumber: 5.3 Consensus size: 40
46565181 AGCACGAATG
*
46565191 CGGATATATCACTAGCGCGAATGCTCTTCGGAACTTAGTC
1 CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTC
* * *
46565231 CGGTTATATCAGTAGCAAGAATGCTCTTCGGAACTTAGTC
1 CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTC
46565271 CGG-T-TAT-A-T----C-AATGCTCTTCGGAACTTAGTC
1 CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTC
*
46565302 CGGATATATCACTAGCACGAATTCTCTTCGGAACTTAGTC
1 CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTC
*
46565342 CGGTTATATCACTAGCACGAATGCTCTTCGGAACTTAGTC
1 CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTC
46565382 CGGATATATCACT
1 CGGATATATCACT
46565395 CGCAATTCTC
Statistics
Matches: 146, Mismatches: 9, Indels: 18
0.84 0.05 0.10
Matches are distributed among these distances:
31 24 0.16
32 1 0.01
33 3 0.02
34 1 0.01
35 1 0.01
36 1 0.01
37 1 0.01
38 3 0.02
39 2 0.01
40 109 0.75
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (40 bp):
CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTC
Found at i:46565288 original size:31 final size:31
Alignment explanation
Indices: 46565250--46565312 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
46565240 CAGTAGCAAG
*
46565250 AATGCTCTTCGGAACTTAGTCCGGTTATATC
1 AATGCTCTTCGGAACTTAGTCCGGATATATC
46565281 AATGCTCTTCGGAACTTAGTCCGGATATATC
1 AATGCTCTTCGGAACTTAGTCCGGATATATC
46565312 A
1 A
46565313 CTAGCACGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (31 bp):
AATGCTCTTCGGAACTTAGTCCGGATATATC
Found at i:46565329 original size:71 final size:77
Alignment explanation
Indices: 46565208--46565399 Score: 270
Period size: 71 Copynumber: 2.5 Consensus size: 77
46565198 ATCACTAGCG
* *
46565208 CGAATGCTCTTCGGAACTTAGTCCGGTTATATCAGTAGCAAGAATGCTCTTCGGAACTTAGTCCG
1 CGAATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCAAGAATGCTCTTCGGAACTTAGTCCG
46565273 G-T-TAT-A-T-
66 GTTATATCACTA
* *
46565280 C-AATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAATTCTCTTCGGAACTTAGTCCG
1 CGAATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCAAGAATGCTCTTCGGAACTTAGTCCG
46565344 GTTATATCACTAGCA
66 GTTATATCACT---A
*
46565359 CGAATGCTCTTCGGAACTTAGTCCGGATATATCACTCGCAA
1 CGAATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCAA
46565400 TTCTCATGTA
Statistics
Matches: 105, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
71 60 0.57
72 2 0.02
73 3 0.03
74 1 0.01
75 1 0.01
79 1 0.01
80 37 0.35
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (77 bp):
CGAATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCAAGAATGCTCTTCGGAACTTAGTCCG
GTTATATCACTA
Found at i:46565390 original size:111 final size:111
Alignment explanation
Indices: 46565191--46565392 Score: 359
Period size: 111 Copynumber: 1.8 Consensus size: 111
46565181 AGCACGAATG
* *
46565191 CGGATATATCACTAGCGCGAATGCTCTTCGGAACTTAGTCCGGTTATATCAGTAGCAAGAATGCT
1 CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGTTATATCACTAGCAAGAATGCT
*
46565256 CTTCGGAACTTAGTCCGGTTATATCAATGCTCTTCGGAACTTAGTC
66 CTTCGGAACTTAGTCCGGATATATCAATGCTCTTCGGAACTTAGTC
* *
46565302 CGGATATATCACTAGCACGAATTCTCTTCGGAACTTAGTCCGGTTATATCACTAGCACGAATGCT
1 CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGTTATATCACTAGCAAGAATGCT
46565367 CTTCGGAACTTAGTCCGGATATATCA
66 CTTCGGAACTTAGTCCGGATATATCA
46565393 CTCGCAATTC
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 86 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (111 bp):
CGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGTTATATCACTAGCAAGAATGCT
CTTCGGAACTTAGTCCGGATATATCAATGCTCTTCGGAACTTAGTC
Found at i:46567384 original size:37 final size:36
Alignment explanation
Indices: 46567301--46567412 Score: 170
Period size: 36 Copynumber: 3.1 Consensus size: 36
46567291 TAGTTCGGGG
*
46567301 CTTACCCGGATAAAATCTCCACCCGTGGTCATCGGT
1 CTTACCCGGACAAAATCTCCACCCGTGGTCATCGGT
*
46567337 CTTACCCGGACAAAATCTCCACCCATGGTCATCGGGT
1 CTTACCCGGACAAAATCTCCACCCGTGGTCATC-GGT
* * *
46567374 CTTACCCGGACATAATCTCCACACGTAGTCATCGGT
1 CTTACCCGGACAAAATCTCCACCCGTGGTCATCGGT
46567410 CTT
1 CTT
46567413 TAGAGCTCGG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
36 37 0.54
37 32 0.46
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (36 bp):
CTTACCCGGACAAAATCTCCACCCGTGGTCATCGGT
Found at i:46567598 original size:47 final size:47
Alignment explanation
Indices: 46567533--46568104 Score: 961
Period size: 47 Copynumber: 12.2 Consensus size: 47
46567523 TCGGGACTTA
* * * * * * *
46567533 TCACATTTACACACTTTCACATCCATCACATTGGCCACTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* * *
46567580 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
*
46567627 TCACATATATGCACTTTCACATTCATCACAT-GGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
*
46567673 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* * * * *
46567720 TCTCATATAT-GACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
46567766 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
46567813 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
46567860 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
46567907 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
46567954 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
46568001 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
*
46568048 TCACATATATACA-TTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
46568094 TCACATATATA
1 TCACATATATA
46568105 TATCTCATAC
Statistics
Matches: 504, Mismatches: 19, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
46 128 0.25
47 376 0.75
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
Found at i:46567607 original size:25 final size:25
Alignment explanation
Indices: 46567579--46567657 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
46567569 ACTCGGCCTT
*
46567579 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
46567604 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
46567626 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
46567651 ATCACAT
1 ATCACAT
46567658 GGCCATTAGG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:46571165 original size:28 final size:28
Alignment explanation
Indices: 46571134--46571233 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
46571124 CTGACTGATT
*
46571134 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
46571162 TCGCACACATAGTGCTTCAACTACTGATC
1 TCGCACACATAGTGC-TCGATTAAAGAAC
* * *
46571191 TGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
*
46571219 TTGCACACATAGTGC
1 TCGCACACATAGTGC
46571234 CTCATAATTC
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
28 34 0.61
29 22 0.39
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:46571298 original size:40 final size:39
Alignment explanation
Indices: 46571243--46571415 Score: 168
Period size: 40 Copynumber: 4.3 Consensus size: 39
46571233 CCTCATAATT
*
46571243 CTAGCACGAATGCTCTTCGAGGTTTCGCCCGAATATATCA
1 CTAGCACGAATGCTCTTCGAGG-TTAGCCCGAATATATCA
**
46571283 CTAGCACGAATGCTCTTCGGAACTTAGCCC-AGATATATCA
1 CTAGCACGAATGCTCTTC-GAGGTTAGCCCGA-ATATATCA
* * **
46571323 CTAGCACGAATGCTCTTCGGAAGTTAGTCCGGTTATATCA
1 CTAGCACGAATGCTCTTC-GAGGTTAGCCCGAATATATCA
* *** * **
46571363 CTAGCATGAATGCTCTTCGGAACATAGTCCGGTTATATCA
1 CTAGCACGAATGCTCTTC-GAGGTTAGCCCGAATATATCA
46571403 CTAGCACGAATGC
1 CTAGCACGAATGC
46571416 GGATATATCA
Statistics
Matches: 119, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 116 0.97
41 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (39 bp):
CTAGCACGAATGCTCTTCGAGGTTAGCCCGAATATATCA
Found at i:46571376 original size:80 final size:80
Alignment explanation
Indices: 46571243--46571415 Score: 240
Period size: 80 Copynumber: 2.2 Consensus size: 80
46571233 CCTCATAATT
* * *
46571243 CTAGCACGAATGCTCTTCGAGGTTTCGCCCGAATATATCACTAGCACGAATGCTCTTCGGAACTT
1 CTAGCACGAATGCTCTTCGAAGTTTAGCCCGAATATATCACTAGCACGAATGCTCTTCGGAACAT
46571308 AGCCCAGATATATCA
66 AGCCCAGATATATCA
* ** *
46571323 CTAGCACGAATGCTCTTCGGAAG-TTAGTCCGGTTATATCACTAGCATGAATGCTCTTCGGAACA
1 CTAGCACGAATGCTCTTC-GAAGTTTAGCCCGAATATATCACTAGCACGAATGCTCTTCGGAACA
* * *
46571387 TAGTCCGGTTATATCA
65 TAGCCCAGATATATCA
46571403 CTAGCACGAATGC
1 CTAGCACGAATGC
46571416 GGATATATCA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 79 0.96
81 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (80 bp):
CTAGCACGAATGCTCTTCGAAGTTTAGCCCGAATATATCACTAGCACGAATGCTCTTCGGAACAT
AGCCCAGATATATCA
Found at i:46571472 original size:31 final size:31
Alignment explanation
Indices: 46571434--46571496 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
46571424 CACTAGCGCG
*
46571434 AATGCTCTTCAGAACTTAGTCCGGTTATATC
1 AATGCTCTTCAGAACTTAGTCCGGATATATC
*
46571465 AATGCTCTTCGGAACTTAGTCCGGATATATC
1 AATGCTCTTCAGAACTTAGTCCGGATATATC
46571496 A
1 A
46571497 CTAGCACGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (31 bp):
AATGCTCTTCAGAACTTAGTCCGGATATATC
Found at i:46571524 original size:40 final size:40
Alignment explanation
Indices: 46571465--46571578 Score: 201
Period size: 40 Copynumber: 2.9 Consensus size: 40
46571455 CGGTTATATC
46571465 AATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACG
1 AATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACG
* * *
46571505 AATTCTCTTCGGAACTTAGTCCAGTTATATCACTAGCACG
1 AATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACG
46571545 AATGCTCTTCGGAACTTAGTCCGGATATATCACT
1 AATGCTCTTCGGAACTTAGTCCGGATATATCACT
46571579 CTCAATTCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (40 bp):
AATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACG
Found at i:46571532 original size:71 final size:77
Alignment explanation
Indices: 46571415--46571578 Score: 223
Period size: 71 Copynumber: 2.2 Consensus size: 77
46571405 AGCACGAATG
* *
46571415 CGGATATATCACTAGCGCGAATGCTCTTCAGAACTTAGTCC-GGT-TAT-A-T-C-AATGCTCTT
1 CGGATATATCACTAGCACGAATGCTCTTCAGAACTTAGTCCAGTTATATCACTACGAATGCTCTT
46571474 CGGAACTTAGTC
66 CGGAACTTAGTC
* *
46571486 CGGATATATCACTAGCACGAATTCTCTTCGGAACTTAGTCCAGTTATATCACTAGCACGAATGCT
1 CGGATATATCACTAGCACGAATGCTCTTCAGAACTTAGTCCAGTTATATCACT---ACGAATGCT
46571551 CTTCGGAACTTAGTC
63 CTTCGGAACTTAGTC
46571566 CGGATATATCACT
1 CGGATATATCACT
46571579 CTCAATTCTC
Statistics
Matches: 80, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
71 38 0.47
72 2 0.03
73 3 0.04
74 1 0.01
75 1 0.01
79 1 0.01
80 34 0.43
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (77 bp):
CGGATATATCACTAGCACGAATGCTCTTCAGAACTTAGTCCAGTTATATCACTACGAATGCTCTT
CGGAACTTAGTC
Found at i:46573531 original size:37 final size:37
Alignment explanation
Indices: 46573490--46573609 Score: 186
Period size: 37 Copynumber: 3.2 Consensus size: 37
46573480 AACCTTTAGT
*
46573490 TCGGGGCTTACCCGGACAAAATCTCCACACGTGGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTGGTCA
* *
46573527 TCGGGTCTTACCCAGACAAAATCTCCACCCGTGGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTGGTCA
* * *
46573564 TCGGGTCTTACCCGGACATAATCTCCACACATAGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTGGTCA
46573601 TCGGGTCTT
1 TCGGGTCTT
46573610 TAGAGCTCGG
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (37 bp):
TCGGGTCTTACCCGGACAAAATCTCCACACGTGGTCA
Found at i:46573796 original size:47 final size:47
Alignment explanation
Indices: 46573727--46574829 Score: 1706
Period size: 47 Copynumber: 23.3 Consensus size: 47
46573717 CCCTTCGGGA
* * * * *
46573727 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46573774 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46573821 CTTATCACATATATGCACTTTCACATTCATCAC-TCGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATC-GGCCATTAGGC
*
46573868 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
46573915 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46573962 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46574009 CTTGTCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46574056 CTTATCACATATATACACTTTCACATTCATCACTTGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46574103 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
46574150 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46574197 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46574244 CTTGTCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46574291 CTTATCACATATATACACTTTCACATTCATCACTTGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46574338 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
46574385 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46574432 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46574479 CTTGTCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46574526 CTTATCACATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46574573 CTTGTCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46574620 CTTGTCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46574667 CTTGTCACATATTCACATATATACAC-TTCACATTCATCACATCGGCCGTTAGGC
1 C---T----TA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46574721 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46574768 CTTGTCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46574815 CTTATCACATATATA
1 CTTATCACATATATA
46574830 TATCTCATAC
Statistics
Matches: 969, Mismatches: 76, Indels: 22
0.91 0.07 0.02
Matches are distributed among these distances:
46 15 0.02
47 908 0.94
48 2 0.00
50 1 0.00
51 1 0.00
54 29 0.03
55 13 0.01
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46574737 original size:101 final size:102
Alignment explanation
Indices: 46574577--46574829 Score: 398
Period size: 101 Copynumber: 2.6 Consensus size: 102
46574567 TTAGGCCTTG
* *
46574577 TCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTGTCACATATATACATTTTC
1 TCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTC
46574642 ACATTCATCACATCGGCCATTAGGCCTTGTCACATAT-
65 ACATTCATCACATCGGCCATTAGGCCTTGTCACATATA
*
46574679 TCACATATATACACTTCACATTCATCACATCGGCCGTTAGGCCTTGTCACATATATACACTTTCA
1 TCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCA
46574744 CATTCATCACATCGGCCATTAGGCCTTGTCACATATA
66 CATTCATCACATCGGCCATTAGGCCTTGTCACATATA
*
46574781 T-AC--AT-T----TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATA
46574830 TATCTCATAC
Statistics
Matches: 145, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
94 41 0.28
98 1 0.01
99 2 0.01
101 86 0.59
102 15 0.10
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (102 bp):
TCACATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCA
CATTCATCACATCGGCCATTAGGCCTTGTCACATATA
Found at i:46585110 original size:80 final size:80
Alignment explanation
Indices: 46585026--46585174 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
46585016 TATGGTAACC
* * * *
46585026 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
46585090 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
46585106 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
46585171 CCGG
66 CCGG
46585175 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:46585116 original size:40 final size:38
Alignment explanation
Indices: 46585067--46585174 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
46585057 ATCACGATTT
*
46585067 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
46585107 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
46585147 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
46585175 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:46593220 original size:80 final size:80
Alignment explanation
Indices: 46593136--46593284 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
46593126 TATGGTAACC
* * * *
46593136 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
46593200 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
46593216 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
46593281 CCGG
66 CCGG
46593285 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:46593226 original size:40 final size:38
Alignment explanation
Indices: 46593177--46593284 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
46593167 ATCACGATTT
*
46593177 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
46593217 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
46593257 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
46593285 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:46599301 original size:46 final size:48
Alignment explanation
Indices: 46599229--46599331 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
46599219 GACAGGACAG
* * * *
46599229 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
46599275 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
46599323 GACAAGAAT
1 GACAGGAAT
46599332 AATTCATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 27 0.55
47 1 0.02
48 21 0.43
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:46603982 original size:19 final size:17
Alignment explanation
Indices: 46603945--46603983 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
46603935 ATAGTGAATT
*
46603945 ATTTTTATTATTTGATA
1 ATTTTTATTATTGGATA
46603962 ATTTTTATTTAATTGGATA
1 ATTTTTA-TT-ATTGGATA
46603981 ATT
1 ATT
46603984 AGTTAGGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (17 bp):
ATTTTTATTATTGGATA
Found at i:46607955 original size:780 final size:781
Alignment explanation
Indices: 46606454--46608013 Score: 2674
Period size: 780 Copynumber: 2.0 Consensus size: 781
46606444 GACACACACC
* * *
46606454 CGTGTCTCTACTCGTGTAGATAAAAATAGGCCATTTGTAAAGCCAATTTTCCACCCTACTCCCAA
1 CGTGTCTCTACCCGTGTAGATAAAAATAGGCCATTTGGAAAGCCAATTTGCCACCCTACTCCCAA
*
46606519 GCACACAAAGCAACCAAAATAGCACCATTTCAATATATCTTTAAGCAATAAAAATCATGCCAATT
66 GCACACAAAGCAACCAAAATAGCACCATTTCAATACATCTTTAAGCAATAAAAATCATGCCAATT
*
46606584 CATACTCATGTCATGGCATCTATCATCAACCAATTCAACTACTTAATTCCACATTCAAAACCTAT
131 CATACTCATGTCATGCCATCTATCATCAACCAATTCAACTACTTAATTCCACATTCAAAACCTAT
* *
46606649 CAAATTATTATACCAAAATTCATCACATTAACATATATTTCGTATCACAAAACATACCATTAAAC
196 CAAATTATTATACCAAAATTCATCACATTAACATATATTTCATATCACAAAACACACCATTAAAC
**
46606714 TATATCAACAACTAATGCCAACAAACCAAAATAAGCCAACATAGAAGGCATTATATACATCACAT
261 TATATCAACAACTAATGCCAACAAACCAAAATAAGCCAACATAGAAGAAATTATATACATCACAT
* * *
46606779 ACTTATTACTTGACAACATATTAATTAATCCAAATTCATCTTCACAAACAACAACATTTACAAGC
326 ACTTATTACTTGACAACATATCAATCAAGCCAAATTCATCTTCACAAACAACAACATTTACAAGC
* *
46606844 CACATCTCATGAATAAACTCACAACTTAAAACATACTTAAAACGACACTAGCCTATATATGCCAT
391 CACATCTCATGAATAAACTCACAACTCAAAACATACTTAAAACGACACTAGCCTATACATGCCAT
*
46606909 ATACCATATATATACAAGCTTCAAAAGTACCAACAAGTTCATTCGATAGTATGATGACGTTTCCT
456 ATACCATATATATACAAGATTCAAAAGTACCAACAAGTTCATTCGATAGTATGATGACGTTTCCT
* *
46606974 GACGATCCCCAAATCCAAGCTAGCTTCGATGATCTATAAAACGTATACAAATAACACACATAGTA
521 GACGATCCCCAAATCCAAGCTAGCTTCGATGATCTATAAAACATAGACAAATAACACACATAGTA
*
46607039 AGCTTCATAGCTTAGTAAGTTCGTACTAAATATACTCAACAATAATATACAAATCACAAATTAAT
586 AGCTTCAGAGCTTAGTAAGTTCGTACTAAATATACTCAACAATAATATACAAATCACAAATTAAT
* *
46607104 AAACACTTAGTAATTCTCATATCTACATTCAATTCCAATCCATAACCATTTATCATGTATATATA
651 AAACACTTAGTAATTCTCATATCAACATTCAATACCAATCCATAACCATTTATCATGTATATATA
*
46607169 AATTCATCAAGCTTCATACACATAGTATCAACTATCACATAGGTATCGTACATACTTGAACTTTC
716 AATTCATCAAGCTTCATACACATAGTATCAACTATCACATAGGTATCGTACATACCTGAACTTTC
46607234 T
781 T
* *
46607235 CGTGTCTCTACCCGTGTGGATAAAAATAGGCCATTTGGAAAGCCAATTTGCCACCCTACTCTCAA
1 CGTGTCTCTACCCGTGTAGATAAAAATAGGCCATTTGGAAAGCCAATTTGCCACCCTACTCCCAA
*
46607300 GCACACAAAGCAACCAAAATAGCACCATTTCAATACATCTTTAAGCAATCAAAATCATGCCAATT
66 GCACACAAAGCAACCAAAATAGCACCATTTCAATACATCTTTAAGCAATAAAAATCATGCCAATT
* *
46607365 CATACTCATGTCATGCCATCTTTCATCAACCAATTCAACTACTTAATTCCACATTTAAAACCTAT
131 CATACTCATGTCATGCCATCTATCATCAACCAATTCAACTACTTAATTCCACATTCAAAACCTAT
* *
46607430 CAAATTGTTATACCAAAATTCATCACATTAACATATATTTCATATCACAAAACACATCATTAAAC
196 CAAATTATTATACCAAAATTCATCACATTAACATATATTTCATATCACAAAACACACCATTAAAC
* *
46607495 TATATCAACGACTAATGCCAACATACCAAAATAAGCCAACATAGAAGAAATTATATACATCACAT
261 TATATCAACAACTAATGCCAACAAACCAAAATAAGCCAACATAGAAGAAATTATATACATCACAT
*
46607560 ACTT-TTACTTGACAACATATCAATCAAGCCAAATTCATCTTCATAAACAACAACATTTACAAGC
326 ACTTATTACTTGACAACATATCAATCAAGCCAAATTCATCTTCACAAACAACAACATTTACAAGC
* * **
46607624 CACATCTCATGACTAAATTCACAACTCAAAACATACTTAAAATTACACTAGCCTATACATGCCAT
391 CACATCTCATGAATAAACTCACAACTCAAAACATACTTAAAACGACACTAGCCTATACATGCCAT
* * *
46607689 ATACCATATATATACAAGATTCAAAAGTACCAACAAGTTGATTCGATAGTGTGATGATGTTTCCT
456 ATACCATATATATACAAGATTCAAAAGTACCAACAAGTTCATTCGATAGTATGATGACGTTTCCT
* * * *
46607754 GATGATCCCCGAATCCAAGCTAGCTTCGAAT-ATCTATAAAATATAGACAAATGACACACATAGT
521 GACGATCCCCAAATCCAAGCTAGCTTCG-ATGATCTATAAAACATAGACAAATAACACACATAGT
* * *
46607818 AAGCTTCAGAGCTTAGTATGTTCGTACTAAATATACTTAACAATAATGTACAAATCACAAATTAA
585 AAGCTTCAGAGCTTAGTAAGTTCGTACTAAATATACTCAACAATAATATACAAATCACAAATTAA
*
46607883 TAAACACTTAGTGATTCTCATATCAACATTCAATACCAATCCATAACCATTTATCATGTATATAT
650 TAAACACTTAGTAATTCTCATATCAACATTCAATACCAATCCATAACCATTTATCATGTATATAT
*
46607948 AAATTCATCAAGCTTCATACACATAGTATCAACTATCACATAGGTATCGTACTTACCTGAACTTT
715 AAATTCATCAAGCTTCATACACATAGTATCAACTATCACATAGGTATCGTACATACCTGAACTTT
46608013 C
780 C
46608014 CCGTAATTAT
Statistics
Matches: 731, Mismatches: 47, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
780 418 0.57
781 313 0.43
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (781 bp):
CGTGTCTCTACCCGTGTAGATAAAAATAGGCCATTTGGAAAGCCAATTTGCCACCCTACTCCCAA
GCACACAAAGCAACCAAAATAGCACCATTTCAATACATCTTTAAGCAATAAAAATCATGCCAATT
CATACTCATGTCATGCCATCTATCATCAACCAATTCAACTACTTAATTCCACATTCAAAACCTAT
CAAATTATTATACCAAAATTCATCACATTAACATATATTTCATATCACAAAACACACCATTAAAC
TATATCAACAACTAATGCCAACAAACCAAAATAAGCCAACATAGAAGAAATTATATACATCACAT
ACTTATTACTTGACAACATATCAATCAAGCCAAATTCATCTTCACAAACAACAACATTTACAAGC
CACATCTCATGAATAAACTCACAACTCAAAACATACTTAAAACGACACTAGCCTATACATGCCAT
ATACCATATATATACAAGATTCAAAAGTACCAACAAGTTCATTCGATAGTATGATGACGTTTCCT
GACGATCCCCAAATCCAAGCTAGCTTCGATGATCTATAAAACATAGACAAATAACACACATAGTA
AGCTTCAGAGCTTAGTAAGTTCGTACTAAATATACTCAACAATAATATACAAATCACAAATTAAT
AAACACTTAGTAATTCTCATATCAACATTCAATACCAATCCATAACCATTTATCATGTATATATA
AATTCATCAAGCTTCATACACATAGTATCAACTATCACATAGGTATCGTACATACCTGAACTTTC
T
Found at i:46608241 original size:40 final size:40
Alignment explanation
Indices: 46608197--46608272 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
46608187 TAGTGCCACA
*
46608197 TATAGCCGAAGCTAT-TCCAATTCGCACACTAAGTGCTATT
1 TATAGCCGAAGCTATCTCCAA-ACGCACACTAAGTGCTATT
*
46608237 TATAGCCGAAGCTATCTCGAAACGCACACTAAGTGC
1 TATAGCCGAAGCTATCTCCAAACGCACACTAAGTGC
46608273 CAAACATAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (40 bp):
TATAGCCGAAGCTATCTCCAAACGCACACTAAGTGCTATT
Found at i:46613955 original size:20 final size:19
Alignment explanation
Indices: 46613926--46613966 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
46613916 ATTGTTGACT
46613926 TAGGCGAAAAAGAAAAAAA
1 TAGGCGAAAAAGAAAAAAA
*
46613945 TAGGCGAAAAAGGAAAAAA
1 TAGGCGAAAAAGAAAAAAA
46613964 TAG
1 TAG
46613967 TTGAATAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.63, C:0.05, G:0.24, T:0.07
Consensus pattern (19 bp):
TAGGCGAAAAAGAAAAAAA
Found at i:46616094 original size:36 final size:36
Alignment explanation
Indices: 46616036--46616107 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
46616026 TTAATTTAAA
* *
46616036 GAAAAAACATTATAATTTAAAAA-ATTAAAAATATAT
1 GAAAAAACATTAAAATTCAAAAATA-TAAAAATATAT
*
46616072 GAAAAAACTTTAAAATTCAAAAATATAAAAATATAT
1 GAAAAAACATTAAAATTCAAAAATATAAAAATATAT
46616108 TTTTTAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (36 bp):
GAAAAAACATTAAAATTCAAAAATATAAAAATATAT
Found at i:46616716 original size:20 final size:20
Alignment explanation
Indices: 46616653--46616716 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
46616643 TAGGGTTGAG
*
46616653 TATATTATTTTTATTTAATAT
1 TATATTAATTTT-TTTAATAT
* * *
46616674 T-TAATAA-ATTTAT-ATAT
1 TATATTAATTTTTTTAATAT
*
46616691 TTTATTAATTTTTTTAATAT
1 TATATTAATTTTTTTAATAT
46616711 TATATT
1 TATATT
46616717 TTTAATATTC
Statistics
Matches: 32, Mismatches: 8, Indels: 7
0.68 0.17 0.15
Matches are distributed among these distances:
17 5 0.16
18 7 0.22
19 6 0.19
20 13 0.41
21 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TATATTAATTTTTTTAATAT
Found at i:46624686 original size:48 final size:48
Alignment explanation
Indices: 46624614--46624884 Score: 260
Period size: 48 Copynumber: 5.6 Consensus size: 48
46624604 TATAGGTGCT
*
46624614 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * * * * *
46624662 AGTGTAAGACTATGTTTGGAACATGGCATCGACAATG-TAATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGAT-ATGAGAGCC
* * *
46624710 AGTGTAAGACCATGTCTGGGGCATGGCATCGACCAC-ATTATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCC
* * * * * *
46624758 AGTATAAGACCATGCCTGGGACATGGCATCGG-CATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * * * * * *
46624806 AGTGTAAGACCTTGTTTGGGACATAGCATCTGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* *
46624854 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
46624885 ACAATTCACC
Statistics
Matches: 176, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
47 3 0.02
48 170 0.97
49 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:46624782 original size:96 final size:94
Alignment explanation
Indices: 46624614--46624889 Score: 304
Period size: 96 Copynumber: 2.9 Consensus size: 94
46624604 TATAGGTGCT
* * *
46624614 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCACGATATGAGAGCCAGTGTAAGACTATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCAC-ATAT-AGAGCCAGTGTAAGACCATGTTT
* *
46624679 GGAACATGGCATCGACAATGTA-ATGATAGCC
64 GGAACATGGCATCGACAATG-AGACGAGAGCC
* * **
46624710 AGTGTAAGACCATGTCTGGGGCATGGCATCGACCACATTATAAGAGCCAGTATAAGACCATGCCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACA-TAT-AGAGCCAGTGTAAGACCATGTTT
* * * *
46624775 GGGACATGGCATCGGCATTGAGACGAGAGCT
64 GGAACATGGCATCGACAATGAGACGAGAGCC
* * * * *
46624806 AGTGTAAGACCTTGTTTGGGACATAGCATCTGCCTCGACATGT-GAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GAC-C-ACATATAGAGCCAGTGTAAGACCATGTT
46624870 TGGAACATGGCATCGACAAT
63 TGGAACATGGCATCGACAAT
46624890 TCACCCTCTT
Statistics
Matches: 149, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
95 2 0.01
96 139 0.93
97 2 0.01
98 3 0.02
99 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATATAGAGCCAGTGTAAGACCATGTTTGG
AACATGGCATCGACAATGAGACGAGAGCC
Found at i:46628330 original size:21 final size:23
Alignment explanation
Indices: 46628306--46628349 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
46628296 TAAGGAGAAG
*
46628306 TTTTGAATCA-TTAAATC-TATC
1 TTTTCAATCATTTAAATCGTATC
*
46628327 TTTTCATTCATTTAAATCGTATC
1 TTTTCAATCATTTAAATCGTATC
46628350 GACCATCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.50
Consensus pattern (23 bp):
TTTTCAATCATTTAAATCGTATC
Found at i:46635947 original size:40 final size:40
Alignment explanation
Indices: 46635722--46635947 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
46635712 GCTACTTGTT
* *
46635722 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
46635762 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
**
46635802 CAAATGCCTTC-GGATCTTATTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
*
46635842 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
46635882 CAAATGCCTTCGGGTCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCA
46635923 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46635948 CATCATTCGA
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.91
41 12 0.07
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:46640259 original size:40 final size:40
Alignment explanation
Indices: 46640193--46640359 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
46640183 AAATTGAATG
* * *
46640193 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
46640232 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
46640272 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
46640312 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
46640352 ATATCCGG
1 ATATCCGG
46640360 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46648261 original size:40 final size:40
Alignment explanation
Indices: 46648195--46648361 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
46648185 AAATTGAATG
* * *
46648195 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
46648234 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
46648274 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
46648314 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
46648354 ATATCCGG
1 ATATCCGG
46648362 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46650014 original size:24 final size:24
Alignment explanation
Indices: 46649928--46650099 Score: 258
Period size: 24 Copynumber: 7.2 Consensus size: 24
46649918 GGCCTTGCCT
*
46649928 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
46649952 CTTTTTTATAACTGGGGCATAAGCC
1 C-TTTTAATAACTGGGGCATAAGCC
*
46649977 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
46650000 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
46650024 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
46650048 CTTTTGATAACTGGGGCATAAACC
1 CTTTTAATAACTGGGGCATAAGCC
46650072 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
46650095 CTTTT
1 CTTTT
46650100 TCACTTCCTC
Statistics
Matches: 136, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
23 42 0.31
24 72 0.53
25 22 0.16
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:46650175 original size:20 final size:20
Alignment explanation
Indices: 46650150--46650188 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
46650140 TATGAATACA
46650150 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
46650170 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
46650189 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:46650194 original size:20 final size:20
Alignment explanation
Indices: 46650151--46650195 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
46650141 ATGAATACAT
**
46650151 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
46650171 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
46650191 CATGT
1 CATGT
46650196 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:46650264 original size:25 final size:25
Alignment explanation
Indices: 46650232--46650279 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46650222 ATACATAAAC
* * *
46650232 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
46650257 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
46650280 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:46655594 original size:27 final size:28
Alignment explanation
Indices: 46655538--46655606 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
46655528 AAATTTGTAC
*
46655538 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCCAGTTTGATCATAT
*
46655566 AGCACTAAGTGTGCCAG-TTGATTATAT
1 AGCACTAAGTGTGCCAGTTTGATCATAT
*
46655593 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
46655607 GGACTCACTA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCCAGTTTGATCATAT
Found at i:46664951 original size:20 final size:21
Alignment explanation
Indices: 46664915--46664962 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
46664905 ATTTTGATAT
*
46664915 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
*
46664936 TCATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
46664956 ACATGAT
1 ACATGAT
46664963 GTATTCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:46665044 original size:25 final size:25
Alignment explanation
Indices: 46665010--46665079 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
46665000 GAGGAAGTGC
*
46665010 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* * * *
46665035 AAAAGGGCTTGGCGCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
46665060 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
46665080 ATTAAAAGAG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:46665362 original size:30 final size:32
Alignment explanation
Indices: 46665326--46665390 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
46665316 TGATATGAGT
46665326 TGTGAATTAT-AAAAGGCTTCAGCCCAGTA-A
1 TGTGAATTATGAAAAGGCTTCAGCCCAGTATA
* *
46665356 TGTGAATTATGAAGAGGCTTCGGCCCAGTATA
1 TGTGAATTATGAAAAGGCTTCAGCCCAGTATA
46665388 TGT
1 TGT
46665391 TGAGATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 10 0.32
31 17 0.55
32 4 0.13
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (32 bp):
TGTGAATTATGAAAAGGCTTCAGCCCAGTATA
Found at i:46668548 original size:11 final size:11
Alignment explanation
Indices: 46668512--46668567 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
46668502 CATGGTATGT
46668512 ATGATATGCAC
1 ATGATATGCAC
* *
46668523 ATGACATG--T
1 ATGATATGCAC
46668532 ATGATATGCAC
1 ATGATATGCAC
*
46668543 ATGATATG--T
1 ATGATATGCAC
46668552 ATGATATGCAC
1 ATGATATGCAC
46668563 ATGAT
1 ATGAT
46668568 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:46668567 original size:20 final size:20
Alignment explanation
Indices: 46668501--46668567 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
46668491 ATTTTGATAA
*
46668501 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
46668521 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
46668541 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46668561 ACATGAT
1 ACATGAT
46668568 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:46668646 original size:25 final size:25
Alignment explanation
Indices: 46668618--46668735 Score: 177
Period size: 25 Copynumber: 4.8 Consensus size: 25
46668608 AGGAAGTGTA
* *
46668618 AAAGGGCTTATGCCGCAGTTACGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
46668643 AAAGGGCTTATGCCGCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
46668668 AAATGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
46668693 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
46668717 AAAGGGCTT-TGCCCCAGTT
1 AAAGGGCTTATGCCCCAGTT
46668736 CTTAAAAGAG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
23 10 0.11
24 9 0.10
25 69 0.78
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:46668759 original size:48 final size:50
Alignment explanation
Indices: 46668618--46668771 Score: 163
Period size: 50 Copynumber: 3.1 Consensus size: 50
46668608 AGGAAGTGTA
* * * *
46668618 AAAGGGCTTATGCCGCAGTTACGATAAAGGGCTTATGCCGCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTATGAT
* * *
46668668 AAATGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTATGAT
* *
46668717 AAAGGGCTT-TGCCCCAGTTCTTA-AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAGGGCTTATGCCCCAGTTATGATAAAG-GGCTTAGGCC-CCAG-T-TATGAT
46668768 AAAG
1 AAAG
46668772 CAGCTATGCT
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
47 9 0.10
48 19 0.21
49 9 0.10
50 48 0.54
51 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (50 bp):
AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTATGAT
Found at i:46668766 original size:75 final size:75
Alignment explanation
Indices: 46668618--46668771 Score: 172
Period size: 75 Copynumber: 2.1 Consensus size: 75
46668608 AGGAAGTGTA
* * * *
46668618 AAAGGGCTTATGCCGCAGTTACGATAAAGGGCTTATGCCGCAGTTATGATAAATGGCTTATGCCC
1 AAAGGGCTTATGCCCCAGTTACGATAAAGGGCTTATGCCCCAGTTATGATAAAAGGCTTAGGCCC
46668683 CAGTTATGAT
66 CAGTTATGAT
** * *
46668693 AAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTT-TGCCCCAGTTCTTA-AAAGAGGC-TAGGCC
1 AAAGGGCTTATGCCCCAGTTACGATAAAGGGCTTATGCCCCAGTTATGATAAA-AGGCTTAGGCC
46668754 TCCAGTTATATGAT
65 -CCAG-T-TATGAT
46668768 AAAG
1 AAAG
46668772 CAGCTATGCT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
72 8 0.12
73 18 0.27
74 10 0.15
75 31 0.46
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (75 bp):
AAAGGGCTTATGCCCCAGTTACGATAAAGGGCTTATGCCCCAGTTATGATAAAAGGCTTAGGCCC
CAGTTATGAT
Found at i:46668994 original size:31 final size:31
Alignment explanation
Indices: 46668956--46669018 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
46668946 CGTTTACAGT
*
46668956 AAAGGCTTCGACCTAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* **
46668987 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
46669018 A
1 A
46669019 GTGTATAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:46675885 original size:20 final size:21
Alignment explanation
Indices: 46675849--46675896 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
46675839 ATTTTGATAT
*
46675849 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
46675870 ACATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
46675890 ACATGAT
1 ACATGAT
46675897 GTATTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:46675978 original size:25 final size:25
Alignment explanation
Indices: 46675944--46676013 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
46675934 GAGGAAGTGC
*
46675944 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
46675969 AAAAGGGCTTTGTCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
46675994 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
46676014 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:46676037 original size:50 final size:50
Alignment explanation
Indices: 46675944--46676038 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
46675934 GAGGAAGTGC
** *
46675944 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGTCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACCA
**
46675994 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
46676039 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 9 0.24
50 24 0.63
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACCA
Found at i:46676394 original size:14 final size:14
Alignment explanation
Indices: 46676375--46676405 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
46676365 TTTTGGGCTG
46676375 TAATAAGGCCATTT
1 TAATAAGGCCATTT
46676389 TAATAAGGCCATTT
1 TAATAAGGCCATTT
46676403 TAA
1 TAA
46676406 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (14 bp):
TAATAAGGCCATTT
Found at i:46677970 original size:39 final size:39
Alignment explanation
Indices: 46677822--46677961 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
46677812 TTGATGTGAT
*
46677822 TCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATA
1 TCCGGACTTAAGGTCCACAGGCTATGTGCTGGAATTATA
*
46677861 TCCGGACTTAAGGCCCACAGGCTATGTGCTGGAATTATA
1 TCCGGACTTAAGGTCCACAGGCTATGTGCTGGAATTATA
* * * **
46677900 TCTGGACTTAAGGTCCGCAGGCTACGTGCTGGAAAAATA
1 TCCGGACTTAAGGTCCACAGGCTATGTGCTGGAATTATA
* *
46677939 TCCGGACTAAAGTTCCACAGGCT
1 TCCGGACTTAAGGTCCACAGGCT
46677962 TCGAGCTGGT
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGACTTAAGGTCCACAGGCTATGTGCTGGAATTATA
Found at i:46683707 original size:46 final size:46
Alignment explanation
Indices: 46683657--46683826 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
46683647 TTGAGCATCT
46683657 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
46683703 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* * *
46683750 GGACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* *
46683796 GAGCTCGTTGAGTTGAATCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46683827 GGGGCGTGTT
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 56 0.55
47 28 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:46688588 original size:29 final size:29
Alignment explanation
Indices: 46688554--46688627 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
46688544 TAATCAGCCG
*
46688554 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
46688583 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
*
46688612 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
46688628 ATCTTTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:46694607 original size:40 final size:40
Alignment explanation
Indices: 46694563--46694705 Score: 211
Period size: 40 Copynumber: 3.6 Consensus size: 40
46694553 GAAATTATAA
* * *
46694563 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC-AT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGT--CATTCTAT
46694603 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
46694643 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
46694683 CCGGGCTAAGACCCGAAGGCATT
1 CCGGGCTAAGACCCGAAGGCATT
46694706 TGCAAATCGT
Statistics
Matches: 97, Mismatches: 3, Indels: 6
0.92 0.03 0.06
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 91 0.94
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
Found at i:46696735 original size:29 final size:29
Alignment explanation
Indices: 46696707--46696867 Score: 223
Period size: 29 Copynumber: 5.6 Consensus size: 29
46696697 CCTTCGAGCT
** * * *
46696707 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * *
46696736 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
46696765 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
46696794 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
46696823 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
46696852 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
46696868 ATCTCGTCAC
Statistics
Matches: 120, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 120 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:46696770 original size:87 final size:87
Alignment explanation
Indices: 46696678--46696867 Score: 218
Period size: 87 Copynumber: 2.2 Consensus size: 87
46696668 AATTTAAGCC
** * * * * * **
46696678 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCTTGCACAC
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
* *
46696743 ATAGTGTCATATTTTTCCAGCA
66 ATAGTGCCATATATTTCCAGCA
* * * * **
46696765 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
*
46696830 TTAGTGCCATATATTTCCAGCA
66 ATAGTGCCATATATTTCCAGCA
46696852 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
46696868 ATCTCGTCAC
Statistics
Matches: 83, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (87 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
ATAGTGCCATATATTTCCAGCA
Found at i:46700370 original size:46 final size:45
Alignment explanation
Indices: 46700320--46700492 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
46700310 TGGTTGAGCA
46700320 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATG
* * *
46700366 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGCAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-T--G
* *
46700411 CATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAGACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA-ATG
* *
46700459 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46700493 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 5 0.05
51 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
Found at i:46700476 original size:93 final size:93
Alignment explanation
Indices: 46700317--46700487 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
46700307 GGATGGTTGA
* * *
46700317 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
46700382 TGAGTCCGAGTTCGTGAAATGCAACTAG
66 TGAGTCCGAGTTCGTGAAATGCAACTAG
*
46700410 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AGACGCCCGAGCTCGTTGAG
1 GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA-ACGCCCGAACTCGTTGAG
46700474 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
46700488 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGCAACTAG
Found at i:46703127 original size:48 final size:48
Alignment explanation
Indices: 46703051--46703144 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
46703041 TAGGGTTTTG
* *
46703051 TGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGAGA
1 TGTGATCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGA
*
46703099 TGTGATCCCACGTAATACCATGTCTGGGACATGGCATTGGCATCGA
1 TGTGATCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
46703145 TATGAGACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (48 bp):
TGTGATCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGA
Found at i:46709963 original size:28 final size:28
Alignment explanation
Indices: 46709879--46709965 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 28
46709869 AGCATGACTA
46709879 AAATGTGAATTGGGCCT-GATGGGCCATAT
1 AAATGTG-ATTGGGCCTAG-TGGGCCATAT
* *
46709908 AAATGTGATTTGGGCCTAATGGACCATAT
1 AAATGTGA-TTGGGCCTAGTGGGCCATAT
*
46709937 AAATGTGATTGGGCCTAGTGGGTCATAT
1 AAATGTGATTGGGCCTAGTGGGCCATAT
46709965 A
1 A
46709966 CAAGTACGTG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
28 19 0.37
29 32 0.63
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
AAATGTGATTGGGCCTAGTGGGCCATAT
Found at i:46726379 original size:35 final size:35
Alignment explanation
Indices: 46726333--46726403 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
46726323 GGCAACGACA
*
46726333 AGGTTAAGGAATGTTTAATTTGTTTTCTTGGAAAT
1 AGGTTAAGGAATGTTTAACTTGTTTTCTTGGAAAT
46726368 AGGTTAAGGAATGTTTAACTTGTTTTCTTGGAAAT
1 AGGTTAAGGAATGTTTAACTTGTTTTCTTGGAAAT
46726403 A
1 A
46726404 ATTTTACTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.44
Consensus pattern (35 bp):
AGGTTAAGGAATGTTTAACTTGTTTTCTTGGAAAT
Found at i:46735334 original size:40 final size:40
Alignment explanation
Indices: 46735279--46735488 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
46735269 AACATTGGAA
46735279 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
46735319 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
46735359 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
46735399 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
46735438 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
46735479 CTATATCCGG
1 ATATATCCGG
46735489 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Done.