Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 65 of 295
Found at i:19528298 original size:9 final size:9
Alignment explanation
Indices: 19528275--19528322 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
19528265 TTATTTTATG
19528275 TAAAAGAAA
1 TAAAAGAAA
**
19528284 GGAAAGAAA
1 TAAAAGAAA
19528293 TAAAAGAAA
1 TAAAAGAAA
19528302 TAATAAGGATAA
1 TAA-AA-GA-AA
19528314 TAAAAGAAA
1 TAAAAGAAA
19528323 AGAAGAATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 19 0.59
10 4 0.12
11 4 0.12
12 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (9 bp):
TAAAAGAAA
Found at i:19529685 original size:40 final size:40
Alignment explanation
Indices: 19529628--19529805 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
19529618 CGGATGGTAA
* *
19529628 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-T
*
19529668 CTGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
*
19529708 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* * *
19529748 CCGAGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATAT
* *
19529788 CC-GGCTAAATCTCGAAGG
1 CCGGGCTAAGTCCCGAAGG
19529806 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 15 0.12
40 110 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
Found at i:19536762 original size:47 final size:48
Alignment explanation
Indices: 19536708--19536838 Score: 212
Period size: 47 Copynumber: 2.8 Consensus size: 48
19536698 CTCAATCGAT
19536708 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATC-CCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCCG
* * *
19536755 AAGTACCTATACCATTGCCCGTAGCCAAATCAAGGTAACTCCTCTCTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCCG
*
19536803 AA-TACCTATACCATGGCCCGTAGACAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
19536839 TTATTTTCAC
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
47 74 0.95
48 4 0.05
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCCG
Found at i:19543688 original size:43 final size:43
Alignment explanation
Indices: 19543579--19543684 Score: 164
Period size: 43 Copynumber: 2.5 Consensus size: 43
19543569 TCCCTAACGT
*
19543579 GGTCTTACAT-GTAATCACATATCAATGCCACTGTCCCAGACAA
1 GGTCTTAC-TCGTAATCACATATCGATGCCACTGTCCCAGACAA
*
19543622 GGTCTTACTCGTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACTCGTAATCACATATCGATGCCACTGTCCCAGACAA
19543665 GGTCTTACTCGT-A-CACATAT
1 GGTCTTACTCGTAATCACATAT
19543685 ATCGGAATCA
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
41 7 0.12
42 2 0.03
43 51 0.85
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (43 bp):
GGTCTTACTCGTAATCACATATCGATGCCACTGTCCCAGACAA
Found at i:19544363 original size:15 final size:15
Alignment explanation
Indices: 19544340--19544370 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19544330 TCAAAAATTC
19544340 CAATACAAAACATAT
1 CAATACAAAACATAT
*
19544355 CAATCCAAAACATAT
1 CAATACAAAACATAT
19544370 C
1 C
19544371 TTTCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:19544648 original size:28 final size:28
Alignment explanation
Indices: 19544608--19544663 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
19544598 GCTATCTAAA
19544608 AGATGAATGCATGTAGCTTTTGTTTTAT
1 AGATGAATGCATGTAGCTTTTGTTTTAT
19544636 AGATGAATGCATGTAGCTTTTGTTTTAT
1 AGATGAATGCATGTAGCTTTTGTTTTAT
19544664 GTTATTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.46
Consensus pattern (28 bp):
AGATGAATGCATGTAGCTTTTGTTTTAT
Found at i:19544926 original size:14 final size:14
Alignment explanation
Indices: 19544909--19544935 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19544899 AAATCACGAA
19544909 AATTTCACACATAT
1 AATTTCACACATAT
19544923 AATTTCACACATA
1 AATTTCACACATA
19544936 ATAAAAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:19545276 original size:48 final size:47
Alignment explanation
Indices: 19545209--19545429 Score: 199
Period size: 48 Copynumber: 4.7 Consensus size: 47
19545199 CACATATCCA
* *
19545209 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATA-G
*
19545257 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC--TCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATAG
* * **
19545302 TAGCCGATG-CATGTCCTAGACAT-GTCTTACACTGTCTTACATCTCGAG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTATAG
* * * *
19545350 -GCCGATG-CATGTCCCAAACAT-GTCTTACACT-AGCTC-TCGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACATC-TAT-AG
* *
19545395 TGCCGATTCCATGTCCCAGACATGGTCTTAAACTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
19545430 GCTCTCATAA
Statistics
Matches: 145, Mismatches: 16, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
43 2 0.01
44 15 0.10
45 16 0.11
46 49 0.34
47 13 0.09
48 50 0.34
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATAG
Found at i:19545448 original size:48 final size:46
Alignment explanation
Indices: 19545167--19545474 Score: 209
Period size: 46 Copynumber: 6.6 Consensus size: 46
19545157 GAGGCTGACG
* * * *
19545167 CCATGTCCCAAACATGGTTTTACACTAGCTCTCACATATCCATGCCAAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCT--CATAT-CATGCCGAT
* * *
19545216 GCCATGTCCCAGACATGGTCTTACACTGACACCTC-TATACGTGCCGAT
1 -CCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAT-CATGCCGAT
* * * *
19545264 GCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCCGAT
1 -CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAT-GCCGAT
* * * * *
19545310 GCATGTCCTAGACAT-GTCTTACACTGTCT-TACATCTCGAGGCCGAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCT-CATATC-ATGCCGAT
* * * * *
19545356 GCATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGCCGA-T
*
19545403 CCATGTCCCAGACATGGTCTTAAACTGGCTCTCATAAT-ATGGCCGAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCAT-GCCGAT
* * *
19545450 GCATGTCCCAAAAAT-GTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
19545475 AGCACACAAA
Statistics
Matches: 210, Mismatches: 36, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
44 10 0.05
45 18 0.09
46 65 0.31
47 30 0.14
48 58 0.28
49 2 0.01
50 25 0.12
51 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (46 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGCCGAT
Found at i:19545450 original size:94 final size:92
Alignment explanation
Indices: 19545168--19545477 Score: 285
Period size: 94 Copynumber: 3.3 Consensus size: 92
19545158 AGGCTGACGC
* * * *
19545168 CATGTCCCAAACATGGTTTTACACTAGCTCTCACATATCCATGCCAATGCCATGTCCCAGACATG
1 CATGTCCCAAACATGGTCTTACACTAGCTCT--CATCT-CATGCCGATTCCATGTCCCAGACATG
*
19545233 GTCTTACACTGACACCTC-TATACGTGCCGATG
63 GTCTTACACTGAC-TCTCATATA-G-GCCGATG
* * * * * *
19545265 CCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCCGA-TGCATGTCCTAGACAT-G
1 -CATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAT-GCCGATTCCATGTCCCAGACATGG
* *
19545326 TCTTACACTGTCT-TACATCTCGAGGCCGATG
64 TCTTACACTGACTCT-CATAT--AGGCCGATG
*
19545357 CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATTCCATGTCCCAGACATGGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATCTC-ATGCCGATTCCATGTCCCAGACATGGT
* *
19545421 CTTAAACTGGCTCTCATAATATGGCCGATG
65 CTTACACTGACTCTCAT-ATA-GGCCGATG
*
19545451 CATGTCCCAAAAAT-GTCTTACACTAGC
1 CATGTCCCAAACATGGTCTTACACTAGC
19545478 ACACAAATAA
Statistics
Matches: 175, Mismatches: 24, Indels: 30
0.76 0.10 0.13
Matches are distributed among these distances:
90 11 0.06
91 15 0.09
92 32 0.18
93 32 0.18
94 58 0.33
95 2 0.01
96 1 0.01
97 1 0.01
98 23 0.13
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (92 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCATGCCGATTCCATGTCCCAGACATGGTC
TTACACTGACTCTCATATAGGCCGATG
Found at i:19553550 original size:14 final size:14
Alignment explanation
Indices: 19553533--19553571 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
19553523 AGGTTATTGT
*
19553533 TTTAGTGTTTAGGG
1 TTTAGAGTTTAGGG
19553547 TTTAGAGTTTAGGG
1 TTTAGAGTTTAGGG
*
19553561 TTTAGAATTTA
1 TTTAGAGTTTA
19553572 AGATTTAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGAGTTTAGGG
Found at i:19553619 original size:7 final size:7
Alignment explanation
Indices: 19553609--19553634 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19553599 CAAAAAATTA
19553609 GGGTTTT
1 GGGTTTT
19553616 GGGTTTT
1 GGGTTTT
19553623 GGGTTTT
1 GGGTTTT
19553630 GGGTT
1 GGGTT
19553635 GCTTAATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (7 bp):
GGGTTTT
Found at i:19553818 original size:28 final size:28
Alignment explanation
Indices: 19553787--19553853 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
19553777 CAGTAATTTT
19553787 TGAAAAAATAAATTAGAGAAGACGTATC
1 TGAAAAAATAAATTAGAGAAGACGTATC
19553815 TGAAAAAATAAATTAGAGAAGACGTATC
1 TGAAAAAATAAATTAGAGAAGACGTATC
*
19553843 TAAAAAAATAA
1 TGAAAAAATAA
19553854 TTTTGCGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (28 bp):
TGAAAAAATAAATTAGAGAAGACGTATC
Found at i:19553984 original size:126 final size:126
Alignment explanation
Indices: 19553845--19554344 Score: 804
Period size: 126 Copynumber: 4.0 Consensus size: 126
19553835 GACGTATCTA
* * * * *
19553845 AAAAAATAATTTTGCGAAGTTGTTTCTGAACAAAAAGTGTTAAAAATGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* *
19553910 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTTGTTTTCTACAGTAATTTCTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTTTCTG
* * * * *
19553971 AAAAAATATTTTTGAGAAGATGATTCTAAACAAATAGTGTCAAAAATGCTTCAAGAAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* ** *
19554036 TGTTAGCAAAAGTACTGAAAAAAAATCCCACGTGGACGCTTTTTTTCTACAGTAGTTTTTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTTTCTG
19554097 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
*
19554162 TGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACG-TTCTTTTTCTACAGTAGTTTCTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTT-TTTTTCTACAGTAGTTTCTG
*
19554223 ATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* *
19554288 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTCTTTTTCTACAGTAGTT
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTT
19554345 CCTATTTGGC
Statistics
Matches: 344, Mismatches: 28, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
125 2 0.01
126 341 0.99
127 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.28
Consensus pattern (126 bp):
AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTTTTTTTCTACAGTAGTTTCTG
Found at i:19558585 original size:7 final size:7
Alignment explanation
Indices: 19558569--19558608 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
19558559 TTATATGCAT
*
19558569 AATAATA
1 AATACTA
*
19558576 AATACAA
1 AATACTA
19558583 AATACTA
1 AATACTA
19558590 AATACTA
1 AATACTA
19558597 AATACTA
1 AATACTA
19558604 AATAC
1 AATAC
19558609 GAATCGACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (7 bp):
AATACTA
Found at i:19561736 original size:8 final size:8
Alignment explanation
Indices: 19561723--19561760 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
19561713 TAGTTTTTAA
*
19561723 TTTTAATT
1 TTTTAAAT
*
19561731 TTTTAAAA
1 TTTTAAAT
19561739 TTTTAAA-
1 TTTTAAAT
19561746 TTTTAAAT
1 TTTTAAAT
19561754 TTTTAAA
1 TTTTAAA
19561761 AATCAAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTTAAAT
Found at i:19561742 original size:23 final size:24
Alignment explanation
Indices: 19561706--19561761 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
19561696 AAAAATGAAC
* *
19561706 TTTTAAATAGTTTTTAATTTTAATT
1 TTTTAAA-AGTTTTAAATTTTAAAT
19561731 TTTTAAAA-TTTTAAATTTTAAAT
1 TTTTAAAAGTTTTAAATTTTAAAT
19561754 TTTTAAAA
1 TTTTAAAA
19561762 ATCAAGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 21 0.72
24 1 0.03
25 7 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTTAAAAGTTTTAAATTTTAAAT
Found at i:19578338 original size:20 final size:20
Alignment explanation
Indices: 19578310--19578347 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19578300 CTAGGAACTA
19578310 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
19578330 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
19578348 TAAATTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:19597553 original size:14 final size:14
Alignment explanation
Indices: 19597534--19597563 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19597524 AAGAGAGAAT
*
19597534 GATGATGGATGAGG
1 GATGATGAATGAGG
19597548 GATGATGAATGAGG
1 GATGATGAATGAGG
19597562 GA
1 GA
19597564 ATGAAGGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.47, T:0.20
Consensus pattern (14 bp):
GATGATGAATGAGG
Found at i:19610190 original size:43 final size:43
Alignment explanation
Indices: 19610127--19610237 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
19610117 TTCAACTCAA
* * * * * *
19610127 GATTACCCGTCCAGGTTAAATCCTTTATATACTGAAATCAATG
1 GATTACCCGTCCGGGCTAAATCCATCACATACAGAAATCAATG
* * *
19610170 GATTACCCATCCGGGCTAAATCCATCCCATACAGAGATCAATG
1 GATTACCCGTCCGGGCTAAATCCATCACATACAGAAATCAATG
19610213 GATTACCCGTCCGGGCTAAATCCAT
1 GATTACCCGTCCGGGCTAAATCCAT
19610238 TCCATCACAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
GATTACCCGTCCGGGCTAAATCCATCACATACAGAAATCAATG
Found at i:19610250 original size:146 final size:144
Alignment explanation
Indices: 19609981--19610282 Score: 358
Period size: 146 Copynumber: 2.1 Consensus size: 144
19609971 AGTCAATTAG
* * * *
19609981 GATTACCCATCCAAGCTAAATCCTTTATATACGGAGATCGATGGATTACCCCTCCTGGGCTAAAT
1 GATTACCCGTCCAAGCTAAATCCTTTATATACGGAAATCAATGGATTACCCATCCTGGGCTAAAT
* * * * *
19610046 CCTTTACAATATAAACTAATGGATTACCTGTCCAAGCTAAATCCATTCTATCATATTTACTCGAG
66 CCTATACAATACAAACTAATGGATTACCCGTCCAAGCTAAATCCATTCCATCACATTTACTC-A-
19610111 AGAAAGTTCAACTCAA
129 AGAAAGTTCAACTCAA
* * *
19610127 GATTACCCGTCCAGGTTAAATCCTTTATATACTGAAATCAATGGATTACCCATCC-GGGCTAAAT
1 GATTACCCGTCCAAGCTAAATCCTTTATATACGGAAATCAATGGATTACCCATCCTGGGCTAAAT
* * **
19610191 CC-ATCCCATACAGAGA-TCAATGGATTACCCGTCCGGGCTAAATCCATTCCATCACATTTACTC
66 CCTATACAATACA-A-ACT-AATGGATTACCCGTCCAAGCTAAATCCATTCCATCACATTTACTC
* * *
19610254 AAGAGAGTTTAACTCGA
128 AAGAAAGTTCAACTCAA
*
19610271 GATTACTCGTCC
1 GATTACCCGTCC
19610283 GGGCTGAGTC
Statistics
Matches: 133, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
144 30 0.23
145 14 0.11
146 89 0.67
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (144 bp):
GATTACCCGTCCAAGCTAAATCCTTTATATACGGAAATCAATGGATTACCCATCCTGGGCTAAAT
CCTATACAATACAAACTAATGGATTACCCGTCCAAGCTAAATCCATTCCATCACATTTACTCAAG
AAAGTTCAACTCAA
Found at i:19612464 original size:22 final size:22
Alignment explanation
Indices: 19612439--19612481 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19612429 AGCCATATAA
19612439 AGCTTCGTACGGTGCCATCTTT
1 AGCTTCGTACGGTGCCATCTTT
*
19612461 AGCTTCGTATGGTGCCATCTT
1 AGCTTCGTACGGTGCCATCTT
19612482 ATACTCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.37
Consensus pattern (22 bp):
AGCTTCGTACGGTGCCATCTTT
Found at i:19614145 original size:19 final size:19
Alignment explanation
Indices: 19614121--19614162 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
19614111 CAGATTCATC
19614121 TCGTGAATAAATCAGAACA
1 TCGTGAATAAATCAGAACA
* *
19614140 TCGTGAATAAATTAGAATA
1 TCGTGAATAAATCAGAACA
19614159 TCGT
1 TCGT
19614163 CAACAACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (19 bp):
TCGTGAATAAATCAGAACA
Found at i:19621784 original size:23 final size:23
Alignment explanation
Indices: 19621754--19621877 Score: 101
Period size: 23 Copynumber: 5.4 Consensus size: 23
19621744 CTGATGAACA
*
19621754 GTAAGCTCTATTGAGCTAAAATG
1 GTAAGCTCTATTGAGCTAAAACG
* *
19621777 GTAAGCTCTATTAAGCTGAAACG
1 GTAAGCTCTATTGAGCTAAAACG
* * *
19621800 TTAAGCTCT-TTCGAGCT-GAACA
1 GTAAGCTCTATT-GAGCTAAAACG
* *
19621822 GTAAGCTC-ATACGAGCTGAAACG
1 GTAAGCTCTAT-TGAGCTAAAACG
* * *
19621845 GTAAGCTCCAATGAGCTGAAAACA
1 GTAAGCTCTATTGAGCT-AAAACG
19621869 GTAAGCTCT
1 GTAAGCTCT
19621878 TTCGAACAGA
Statistics
Matches: 79, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
22 18 0.23
23 48 0.61
24 13 0.16
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTAAAACG
Found at i:19621825 original size:68 final size:69
Alignment explanation
Indices: 19621748--19621907 Score: 200
Period size: 69 Copynumber: 2.3 Consensus size: 69
19621738 CATAAGCTGA
* * * *
19621748 TGAACAGTAAGCTC-TATTGAGCTAAAATGGTAAGCTCTATTAAGCTG-AAAC-GTTAAGCTCTT
1 TGAACAGTAAGCTCATA-CGAGCTAAAACGGTAAGCTCCAATAAGCTGAAAACAG-TAAGCTCTT
*
19621810 TCGAGC
64 TCGAAC
* *
19621816 TGAACAGTAAGCTCATACGAGCTGAAACGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTTTC
1 TGAACAGTAAGCTCATACGAGCTAAAACGGTAAGCTCCAATAAGCTGAAAACAGTAAGCTCTTTC
19621881 GAAC
66 GAAC
* *
19621885 AGAACAATAAGCTCATACGAGCT
1 TGAACAGTAAGCTCATACGAGCT
19621908 GTGGTGAATC
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
68 38 0.47
69 41 0.51
70 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (69 bp):
TGAACAGTAAGCTCATACGAGCTAAAACGGTAAGCTCCAATAAGCTGAAAACAGTAAGCTCTTTC
GAAC
Found at i:19627759 original size:34 final size:34
Alignment explanation
Indices: 19627716--19627780 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
19627706 TTAAAGCTAG
*
19627716 TTAAAGGTTAAAAACGAAGTTTAGGGAACAATTA
1 TTAAAGGTTAAAAAAGAAGTTTAGGGAACAATTA
19627750 TTAAAGGTTAAAAAAGAAGTTTAGGGAACAA
1 TTAAAGGTTAAAAAAGAAGTTTAGGGAACAA
19627781 AATTGTTGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.25
Consensus pattern (34 bp):
TTAAAGGTTAAAAAAGAAGTTTAGGGAACAATTA
Found at i:19644363 original size:20 final size:20
Alignment explanation
Indices: 19644338--19644378 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19644328 GAAGAAAATA
19644338 CTTCGATTTGGTCGTAAAGG
1 CTTCGATTTGGTCGTAAAGG
19644358 CTTCGATTTGGTCGTAAAGG
1 CTTCGATTTGGTCGTAAAGG
19644378 C
1 C
19644379 AAACTAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (20 bp):
CTTCGATTTGGTCGTAAAGG
Found at i:19646105 original size:42 final size:43
Alignment explanation
Indices: 19645984--19646093 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 43
19645974 GTTATCGAGT
* * *
19645984 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCACATA
1 TGTGA-TACATGTAAGACCATATCTGGGATAGTGGCATCACATA
* * * *
19646028 T-TGATTCATTTAAGACCATATTTGGGATAGTGGCATC-GATA
1 TGTGATACATGTAAGACCATATCTGGGATAGTGGCATCACATA
19646069 TGTGATAACATGTAAGACCATATCT
1 TGTGAT-ACATGTAAGACCATATCT
19646094 AAGATATGGC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
41 4 0.07
42 31 0.57
43 18 0.33
44 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (43 bp):
TGTGATACATGTAAGACCATATCTGGGATAGTGGCATCACATA
Found at i:19653669 original size:128 final size:128
Alignment explanation
Indices: 19653441--19653699 Score: 491
Period size: 128 Copynumber: 2.0 Consensus size: 128
19653431 AATATGTTGC
*
19653441 TAATTGTAGGTTTTATCTATGTAATCACTTACTTAAATTGGGTATCAAATGTCATAATGGTACCC
1 TAATTGTAGGTTTTATCTATGTAATCACTTACCTAAATTGGGTATCAAATGTCATAATGGTACCC
*
19653506 CAAGCCAGAAACAAATGGCAAATGTGTGTGGACTTCATGAACATGAATAAATCCTACCCAAAA
66 CAAGCCAGAAACAAATGGCAAATGTGTGTGGACTTCACGAACATGAATAAATCCTACCCAAAA
*
19653569 TAATTGTAGGTTTTATCTATGTAATCACTTACCTAAATTGGGTATCAAATGTCGTAATGGTACCC
1 TAATTGTAGGTTTTATCTATGTAATCACTTACCTAAATTGGGTATCAAATGTCATAATGGTACCC
19653634 CAAGCCAGAAACAAATGGCAAATGTGTGTGGACTTCACGAACATGAATAAATCCTACCCAAAA
66 CAAGCCAGAAACAAATGGCAAATGTGTGTGGACTTCACGAACATGAATAAATCCTACCCAAAA
19653697 TAA
1 TAA
19653700 AACATCTTGT
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 128 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (128 bp):
TAATTGTAGGTTTTATCTATGTAATCACTTACCTAAATTGGGTATCAAATGTCATAATGGTACCC
CAAGCCAGAAACAAATGGCAAATGTGTGTGGACTTCACGAACATGAATAAATCCTACCCAAAA
Found at i:19655468 original size:26 final size:26
Alignment explanation
Indices: 19655423--19655504 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
19655413 TTGACACTAA
*
19655423 GTATGTGATTCGGGAGGTTCATGAAG
1 GTATGTGATCCGGGAGGTTCATGAAG
* *
19655449 GTATGTGATCCGAGAAGTTCATGAAG
1 GTATGTGATCCGGGAGGTTCATGAAG
*
19655475 GTATGTGATCCGGGAGGTTCATAAAG
1 GTATGTGATCCGGGAGGTTCATGAAG
19655501 GTAT
1 GTAT
19655505 CTGCAGCCAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.27, C:0.10, G:0.34, T:0.29
Consensus pattern (26 bp):
GTATGTGATCCGGGAGGTTCATGAAG
Found at i:19657004 original size:40 final size:41
Alignment explanation
Indices: 19656918--19657013 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 41
19656908 CGACTATGTT
* * *
19656918 TGGCACTTAGTGTGTGATTCGAAATAGCTTCGGATGTATAA
1 TGGCACTTAGTGTGCGATTAGAAATAGCTTCGGATCTATAA
*
19656959 -AGCACTTAGTGTGCGACTTAG-AATAGCTTC-GA-CTATAA
1 TGGCACTTAGTGTGCGA-TTAGAAATAGCTTCGGATCTATAA
*
19656997 GTGGCACTAAGTGTGCG
1 -TGGCACTTAGTGTGCG
19657014 GTACCAAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
38 5 0.11
39 2 0.04
40 36 0.78
41 3 0.07
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (41 bp):
TGGCACTTAGTGTGCGATTAGAAATAGCTTCGGATCTATAA
Found at i:19658407 original size:41 final size:42
Alignment explanation
Indices: 19658352--19658469 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 42
19658342 ATTGAAATAA
**
19658352 CTTCGGTTTTATGTGT-CACTAAGTGTGCGATACCAAGATAG
1 CTTCGGTTCAATGTGTGCACTAAGTGTGCGATACCAAGATAG
* ***
19658393 CTTCGGTTCAATGTGATGGCACTAAGTGTGCGATATCGTTATAG
1 CTTCGGTTCAATGTG-T-GCACTAAGTGTGCGATACCAAGATAG
* *
19658437 CTTCGGTTACACATTTATGCACTAAGTGTGCGA
1 CTTCGGTT-CA-ATGTGTGCACTAAGTGTGCGA
19658470 GTTATTAAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 13 0.20
42 1 0.02
44 44 0.69
45 3 0.05
46 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (42 bp):
CTTCGGTTCAATGTGTGCACTAAGTGTGCGATACCAAGATAG
Found at i:19658424 original size:44 final size:44
Alignment explanation
Indices: 19658368--19658469 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
19658358 TTTTATGTGT
19658368 CACTAAGTGTGCGATACCAAGATAGCTTCGGTT-CA-ATGTGATGG
1 CACTAAGTGTGCGATACCAAGATAGCTTCGGTTACACAT-TGAT-G
* *** *
19658412 CACTAAGTGTGCGATATCGTTATAGCTTCGGTTACACATTTATG
1 CACTAAGTGTGCGATACCAAGATAGCTTCGGTTACACATTGATG
19658456 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
19658470 GTTATTAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 44 0.86
45 5 0.10
46 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (44 bp):
CACTAAGTGTGCGATACCAAGATAGCTTCGGTTACACATTGATG
Found at i:19662624 original size:26 final size:25
Alignment explanation
Indices: 19662568--19662628 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
19662558 ATTTGTTTTA
* *
19662568 ATATTTGTTT-TTATGTTTTTAAAT
1 ATATTTATTTATTATATTTTTAAAT
19662592 ATATTTAATTTATTATATTTTTAAAT
1 ATATTT-ATTTATTATATTTTTAAAT
* *
19662618 TTTTTTATTTA
1 ATATTTATTTA
19662629 ATAAAATAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (25 bp):
ATATTTATTTATTATATTTTTAAAT
Found at i:19666508 original size:40 final size:40
Alignment explanation
Indices: 19666422--19666567 Score: 114
Period size: 40 Copynumber: 3.5 Consensus size: 40
19666412 CTACGATGTC
** * * *
19666422 TGGCACTTAGTGTGCGTTTTGAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGAATTGAAATAACTTCGGTTATATA
** * *
19666462 CAGCACTTAGTGTTCGAATTGAAATAACTTCGGTTTTATA
1 TGGCACTTAGTGTGCGAATTGAAATAACTTCGGTTATATA
* * *
19666502 TGGCACTAAGTGTGCGATACT-AAGATAACTTCGGTTCAATGTGA
1 TGGCACTTAGTGTGCGA-ATTGAA-ATAACTTCGGTT--ATAT-A
*
19666546 TGGCACTAAGTGTGCGATATTG
1 TGGCACTTAGTGTGCGA-ATTG
19666568 TTATAGCTTC
Statistics
Matches: 83, Mismatches: 17, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
40 46 0.55
41 14 0.17
43 2 0.02
44 21 0.25
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGAATTGAAATAACTTCGGTTATATA
Found at i:19668154 original size:26 final size:26
Alignment explanation
Indices: 19668125--19668177 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
19668115 AAGTACGTAC
19668125 GATACCTATGTGGTAGTTGATACTAT
1 GATACCTATGTGGTAGTTGATACTAT
19668151 GATACCTATGTGGTAGTTGATACTAT
1 GATACCTATGTGGTAGTTGATACTAT
19668177 G
1 G
19668178 TGTACGAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (26 bp):
GATACCTATGTGGTAGTTGATACTAT
Found at i:19670942 original size:72 final size:72
Alignment explanation
Indices: 19670786--19670965 Score: 184
Period size: 72 Copynumber: 2.5 Consensus size: 72
19670776 GTGGGTCCGA
* * ** *
19670786 GTACTAACTTTGTGTATAAACCAGTGAGTAACTCGCTGAGCGAGCATATCATGTTAATGCTTTAG
1 GTACTAACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCGAGCATATCATGATAATGCTTTAG
*
19670851 GTTCCGG
66 GTTCCAG
* * * *
19670858 GTACTGATTTTGTGTATAAACCCGTGAGTAGCTCAATGAGTGGGCAT-TACATGATAATGCTTTG
1 GTACTAACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCGAGCATAT-CATGATAATGCTTT-
*
19670922 GGGTT-CAG
64 AGGTTCCAG
* * * * *
19670930 GTGCTAACTTTGTGTACAGACTCATGAGTAGCTCAA
1 GTACTAACTTTGTGTATAAACCCGTGAGTAGCTCAA
19670966 ATGCGGGCAT
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
71 1 0.01
72 83 0.94
73 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (72 bp):
GTACTAACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCGAGCATATCATGATAATGCTTTAG
GTTCCAG
Found at i:19676348 original size:49 final size:49
Alignment explanation
Indices: 19676291--19676463 Score: 165
Period size: 49 Copynumber: 3.6 Consensus size: 49
19676281 TGTTGTGTGT
* *
19676291 CAGTGTAAGACCTATCTAGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * * *
19676340 CAGTGTAAGACCTGTCTGGGACACGACATC-AGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCGA-CCTCGATAGATGAAAGC
* * * **
19676389 CAATGTAAGACCTATCTGGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGC
* *
19676436 TAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACC-TATCTGGGACATGGC
19676464 GTCGGCATCT
Statistics
Matches: 100, Mismatches: 20, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
47 14 0.14
48 16 0.16
49 69 0.69
50 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:19676355 original size:93 final size:95
Alignment explanation
Indices: 19676248--19676466 Score: 239
Period size: 98 Copynumber: 2.3 Consensus size: 95
19676238 TATAGAAGCT
* * * * *
19676248 AGTGTAAGACCTGTCTGGGATATGGCGTCAG-CTTG-T-TGTG-TGTCAGTGTAAGACCTATCTA
1 AGTGTAAGACCTGTCTGGGACATGGCGTCAGCCTCGATATATGAAGTCAATGTAAGACCTATCTA
19676309 GGACATGGCATCGACACCGATAGATGAGAGCC
66 GGACATGGCATCGACACCGAT-G-TGAGAGCC
* * *
19676341 AGTGTAAGACCTGTCTGGGACACGACATCAGCCTCGATATATGAAAGTCAATGTAAGACCTATCT
1 AGTGTAAGACCTGTCTGGGACATGGCGTCAGCCTCGATATATG-AAGTCAATGTAAGACCTATCT
* *** ** *
19676406 GGGACATGGCATCGACTTTGATGTGCTAGCT
65 AGGACATGGCATCGACACCGATGTGAGAGCC
19676437 AGTGTAAGACCATGTCTGGGACATGGCGTC
1 AGTGTAAGACC-TGTCTGGGACATGGCGTC
19676467 GGCATCTTAT
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
93 27 0.26
94 3 0.03
95 1 0.01
96 19 0.19
97 16 0.16
98 36 0.35
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (95 bp):
AGTGTAAGACCTGTCTGGGACATGGCGTCAGCCTCGATATATGAAGTCAATGTAAGACCTATCTA
GGACATGGCATCGACACCGATGTGAGAGCC
Found at i:19687421 original size:15 final size:16
Alignment explanation
Indices: 19687393--19687422 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19687383 ATATTTTATG
19687393 TTAATTGTACATAATT
1 TTAATTGTACATAATT
19687409 TTAATTG-ACATAAT
1 TTAATTGTACATAAT
19687423 AACATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (16 bp):
TTAATTGTACATAATT
Found at i:19688086 original size:14 final size:14
Alignment explanation
Indices: 19688067--19688104 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
19688057 CCAGAAAAGT
*
19688067 AAATCATTTTCGAG
1 AAATCATTTTCGAA
19688081 AAATCATTTTTCGAA
1 AAATCA-TTTTCGAA
19688096 AAAT-ATTTT
1 AAATCATTTT
19688105 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 7 0.32
15 11 0.50
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (14 bp):
AAATCATTTTCGAA
Found at i:19688093 original size:15 final size:15
Alignment explanation
Indices: 19688067--19688104 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
19688057 CCAGAAAAGT
*
19688067 AAATCA-TTTTCGAG
1 AAATCATTTTTCGAA
19688081 AAATCATTTTTCGAA
1 AAATCATTTTTCGAA
19688096 AAAT-ATTTT
1 AAATCATTTT
19688105 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (15 bp):
AAATCATTTTTCGAA
Found at i:19688447 original size:22 final size:25
Alignment explanation
Indices: 19688402--19688454 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
19688392 TTTATGTGTT
*
19688402 TATTTTTTAATTTAGTAAATAATATA
1 TATTTTATAATTTAG-AAATAATATA
19688428 -ATTTTATAATTTA-AAA-AATATA
1 TATTTTATAATTTAGAAATAATATA
19688450 TATTT
1 TATTT
19688455 ACTAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.24
23 7 0.28
25 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
TATTTTATAATTTAGAAATAATATA
Found at i:19696510 original size:44 final size:44
Alignment explanation
Indices: 19696455--19696541 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
19696445 GAATTGTCGC
* *
19696455 TTCGTTCCACTCCACTACAAC-TTCGGAAAGATAAGACTTGTAGT
1 TTCGATCCACTCCACTACAACTTTAGG-AAGATAAGACTTGTAGT
** *
19696499 TTCGATCCACTCCACTGTAACTTTAGGGAGATAAGACTTGTAG
1 TTCGATCCACTCCACTACAACTTTAGGAAGATAAGACTTGTAG
19696542 CTTCAATCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 33 0.89
45 4 0.11
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
TTCGATCCACTCCACTACAACTTTAGGAAGATAAGACTTGTAGT
Found at i:19696556 original size:44 final size:44
Alignment explanation
Indices: 19696464--19697033 Score: 358
Period size: 44 Copynumber: 12.7 Consensus size: 44
19696454 CTTCGTTCCA
* * * * * **
19696464 CTCCACTACAACTTC-GGAAAGATAAGACTTGTAGTTTCGATCCA
1 CTCCACTGCAACTTCAGG-GAGATAAGATTTGTAGCTTCAATCTG
* * *
19696508 CTCCACTGTAACTTTAGGGAGATAAGACTTGTAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* **
19696552 CTCCACTGTAACTTCAGGGAGACGAGATTTGT-GTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAG-CTTCAATCTG
* * * ** *
19696596 CTCTACCGCAACTTTAGGGAGATAAGATTTGTTTATTTTTAA-CTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG--TAGCTTCAATC-TG
* * * *
19696642 CTCCACTACAACCTCAGGGAGATAA-AGTGTGTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTTGTAGCTTCAATCTG
* * * * * * *
19696686 CTCTATTGCAACTTCAGAGAGATAAAATTTGCTATCTTCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTG
* * * * * *
19696731 CCCCACTCCAACTTCAGGGAGATAATATCTATAACTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * * *
19696775 TTCTACTGTAACTTTAGGGAGATAAGATTTGTAATTTTTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-------TAGCTTCAATCTG
* * * * ** * * *
19696826 TTCCACTGCAACTTTAGAGAAATAAGATTCACTATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-TGTAGCTTCAATCTG
* * * * *
19696871 CTCCACTGCTATTTCAGGGAGATAAGACTTGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * *
19696915 CTCCACTGCAACTTC-GGGAAGATAAGGTTTATAACTTTAATCTG
1 CTCCACTGCAACTTCAGGG-AGATAAGATTTGTAGCTTCAATCTG
* * ** * * *
19696959 ATCTACTGCAACTTCAAAGAGATAAGATTTGCTATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTG
19697004 CTCCACTGCAACTTCAGGGAGATAAGATTT
1 CTCCACTGCAACTTCAGGGAGATAAGATTT
19697034 TCCATGATGA
Statistics
Matches: 402, Mismatches: 103, Indels: 41
0.74 0.19 0.08
Matches are distributed among these distances:
43 4 0.01
44 225 0.56
45 107 0.27
46 30 0.07
51 36 0.09
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
Found at i:19696845 original size:140 final size:133
Alignment explanation
Indices: 19696508--19697030 Score: 401
Period size: 133 Copynumber: 3.9 Consensus size: 133
19696498 TTTCGATCCA
* ** * * * * * *
19696508 CTCCACTGTAACTTTAGGG-AGATAAGACTTGTAGCTTCAATCTGCTCCACTGTAACTTCAGGGA
1 CTCCACTGCAAC-TTAGGGAAGATAAGGTTTATAGCTTTAATCTGATCTACTGCAACTTCAGAGA
** * * * * * * * * ** *
19696572 GACGAGATTTG-TGTCTTCAATCTGCTCTACCGCAACTTTAGGGAGATAAGATTTGTTTATTTTT
65 GATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGA-CT-TATAACTTC
*
19696636 AACTTG
128 AACCTG
* * * * * * *
19696642 CTCCACTACAACCTCAGGG-AGATAAAGTGTGTAGCTTTAATCTGCTCTATTGCAACTTCAGAGA
1 CTCCACTGCAA-CTTAGGGAAGATAAGGTTTATAGCTTTAATCTGATCTACTGCAACTTCAGAGA
* * * *
19696706 GATAAAATTTGCTATCTTC-GATCTACCCCACTCCAACTTCAGGGAGATAATA-TCTATAACTTC
65 GATAAGATTTGCTATCTTCAG-TCTACTCCACTGCAACTTCAGGGAGATAAGACT-TATAACTTC
*
19696769 AATCTG
128 AACCTG
* * * * * *
19696775 TTCTACTGTAACTTTAGGG-AGATAAGATTTGTAATTTTTAGCTTTAATCTGTTCCACTGCAACT
1 CTCCACTGCAAC-TTAGGGAAGATAAG----G---TTTATAGCTTTAATCTGATCTACTGCAACT
* * ** * * * * *
19696839 TTAGAGAAATAAGATTCACTATCTTTAGTCTGCTCCACTGCTATTTCAGGGAGATAAGACTTGTA
58 TCAGAGAGATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTATA
19696904 ACTTCAACCTG
123 ACTTCAACCTG
* * *
19696915 CTCCACTGCAACTTCGGGAAGATAAGGTTTATAACTTTAATCTGATCTACTGCAACTTCAAAGAG
1 CTCCACTGCAACTTAGGGAAGATAAGGTTTATAGCTTTAATCTGATCTACTGCAACTTCAGAGAG
19696980 ATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGA
66 ATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGA
19697031 TTTTCCATGA
Statistics
Matches: 302, Mismatches: 73, Indels: 29
0.75 0.18 0.07
Matches are distributed among these distances:
132 1 0.00
133 104 0.34
134 58 0.19
135 31 0.10
136 1 0.00
137 1 0.00
139 5 0.02
140 99 0.33
141 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (133 bp):
CTCCACTGCAACTTAGGGAAGATAAGGTTTATAGCTTTAATCTGATCTACTGCAACTTCAGAGAG
ATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAAC
CTG
Found at i:19696866 original size:51 final size:51
Alignment explanation
Indices: 19696769--19696866 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 51
19696759 CTATAACTTC
* * * * ** *
19696769 AATCTGTTCTACTGTAACTTTAGGGAGATAAGATTTGTAATTTTTAGCTTT
1 AATCTGTTCCACTGCAACTTTAGAGAAATAAGATTACTAATCTTTAGCTTT
19696820 AATCTGTTCCACTGCAACTTTAGAGAAATAAGATTCACT-ATCTTTAG
1 AATCTGTTCCACTGCAACTTTAGAGAAATAAGATT-ACTAATCTTTAG
19696867 TCTGCTCCAC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 38 0.97
52 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (51 bp):
AATCTGTTCCACTGCAACTTTAGAGAAATAAGATTACTAATCTTTAGCTTT
Found at i:19696998 original size:89 final size:88
Alignment explanation
Indices: 19696512--19697033 Score: 411
Period size: 89 Copynumber: 5.8 Consensus size: 88
19696502 GATCCACTCC
* * * * * **
19696512 ACTGTAACTTTAGGGAGATAAGACTTGTAGCTTCAATCTGCTCCACTGTAACTTCAGGGAGACGA
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* ** *
19696577 GATTTGTGTCTTCAATCTGCTCT
66 GATTTATAACTTTAATCTGCTCT
* * * * * *
19696600 ACCGCAACTTTAGGGAGATAAGATTTGTTTATTTTTAA-CTTGCTCCACTACAACCTCAGGGAGA
1 ACTGCAACTTCAGGGAGATAAGATTTG--TATCTTCAATC-TGCTCCACTGCAACTTCAGGGAGA
* * *
19696664 TAA-AGTGTGTAGCTTTAATCTGCTCT
63 TAAGA-TTTATAACTTTAATCTGCTCT
* * * * * * *
19696690 ATTGCAACTTCAGAGAGATAAAATTTGCTATCTTCGATCTACCCCACTCCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
19696755 ATATCTATAACTTCAATCTGTTCT
65 AGATTTATAACTTTAATCTGCTCT
* * * * * *
19696779 ACTGTAACTTTAGGGAGATAAGATTTGTAATTTTTAGCTTTAATCTGTTCCACTGCAACTTTAGA
1 ACTGCAACTTCAGGGAGATAAGATTTGT-A----T--CTTCAATCTGCTCCACTGCAACTTCAGG
* * * * *
19696844 GAAATAAGATTCACTATCTTTAGTCTGCTCC
59 GAGATAAGATTTA-TAACTTTAATCTGCTCT
* * * * *
19696875 ACTGCTATTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTC-GGGAAGATA
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGG-AGATA
* *
19696939 AGGTTTATAACTTTAATCTGATCT
65 AGATTTATAACTTTAATCTGCTCT
** * *
19696963 ACTGCAACTTCAAAGAGATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
19697028 AGATTT
65 AGATTT
19697034 TCCATGATGA
Statistics
Matches: 334, Mismatches: 83, Indels: 33
0.74 0.18 0.07
Matches are distributed among these distances:
88 62 0.19
89 134 0.40
90 72 0.22
93 1 0.00
95 30 0.09
96 35 0.10
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (88 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTTATAACTTTAATCTGCTCT
Found at i:19706246 original size:48 final size:48
Alignment explanation
Indices: 19706121--19706351 Score: 228
Period size: 48 Copynumber: 4.8 Consensus size: 48
19706111 TGATATGTGT
* ** * *
19706121 GCTAGTGTAAGACCATGTCTAGGACATGGTGTCGGCCATGATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGA
* * * * * *
19706169 GCCAGTATAATACCATATTTGGAACATGGCATCGGCAATGTTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGA
* * ** * * *
19706217 GCTAGTGTAAGACCATGTCCGGGATATGGCATCGGCGTTGTTAGGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGA
** * * **
19706265 GCTAGTGTAAGACCATGTCTGGGACATGATAACGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGA
* *
19706313 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT
19706352 TTACCTTCTT
Statistics
Matches: 140, Mismatches: 43, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 140 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGAGA
Found at i:19707521 original size:21 final size:21
Alignment explanation
Indices: 19707440--19707519 Score: 135
Period size: 21 Copynumber: 3.9 Consensus size: 21
19707430 GTTAAGAGGA
*
19707440 CACATGGGCGTGTCGCCCTTT
1 CACACGGGCGTGTCGCCCTTT
19707461 CACACGGGCGTGTCGCCCTTT
1 CACACGGGCGTGTCGCCCTTT
19707482 CACACGGGCGTGTCGCCCTTT
1 CACACGGGCGTGTCGCCCTTT
*
19707503 CACACGGGCATGT-GCCC
1 CACACGGGCGTGTCGCCC
19707520 CTATTTTCTT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
20 4 0.07
21 53 0.93
ACGTcount: A:0.11, C:0.38, G:0.29, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTCGCCCTTT
Found at i:19711459 original size:3 final size:3
Alignment explanation
Indices: 19711451--19711496 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
19711441 TAAAATGATA
* *
19711451 AAT AAT AAT AAT AAT AAT AAT AAT -AG AAT ACT -AT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19711497 GATGACAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19711666 original size:23 final size:23
Alignment explanation
Indices: 19711621--19711701 Score: 53
Period size: 23 Copynumber: 3.5 Consensus size: 23
19711611 ATATAATAAT
* *
19711621 TAAAAGAAATATTAAAACAACAAAA
1 TAAAACAAA-ATTAAAA-TACAAAA
19711646 TAAAA-AAAATTAAAATTACAAACA
1 TAAAACAAAATTAAAA-TACAAA-A
*
19711670 -AAAACAATAA-TAAAATACACAA
1 TAAAACAA-AATTAAAATACAAAA
*
19711692 TTAAA-AAAAT
1 TAAAACAAAAT
19711702 ATGAGTAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
21 2 0.04
22 3 0.06
23 24 0.51
24 11 0.23
25 7 0.15
ACGTcount: A:0.72, C:0.09, G:0.01, T:0.19
Consensus pattern (23 bp):
TAAAACAAAATTAAAATACAAAA
Found at i:19715007 original size:17 final size:17
Alignment explanation
Indices: 19714987--19715020 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19714977 AAGTTTAGGT
19714987 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
19715004 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
19715021 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:19719139 original size:20 final size:18
Alignment explanation
Indices: 19719103--19719147 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
19719093 AAACCTTCAA
19719103 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
19719121 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
19719141 -TTTCCCT
1 TTTTCCCT
19719148 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:19719382 original size:20 final size:20
Alignment explanation
Indices: 19719359--19719398 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
19719349 TATAATTATT
19719359 TAATTAATAAATATATTTTA
1 TAATTAATAAATATATTTTA
*
19719379 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATATTTTA
19719399 ATACTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTAATAAATATATTTTA
Found at i:19719534 original size:29 final size:31
Alignment explanation
Indices: 19719501--19719559 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
19719491 ATTTATCATA
* *
19719501 TAATATTAATTTAAA-AAT-AATAAATACAC
1 TAATATTAACTTAAATAATAAACAAATACAC
*
19719530 TAATATTTACTTAAATAATAAACAAATACA
1 TAATATTAACTTAAATAATAAACAAATACA
19719560 TACATGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 13 0.52
30 3 0.12
31 9 0.36
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (31 bp):
TAATATTAACTTAAATAATAAACAAATACAC
Found at i:19722012 original size:2 final size:2
Alignment explanation
Indices: 19722005--19722037 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19721995 AGAAGGAATA
19722005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19722038 GATTACCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19722291 original size:30 final size:30
Alignment explanation
Indices: 19722255--19722322 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
19722245 GTCACTACTA
19722255 ACCATTTTTCGTTACAGACATAATGGAGCT
1 ACCATTTTTCGTTACAGACATAATGGAGCT
* *
19722285 ACCATTTTTCGTTATAGACTTAATGGAGCT
1 ACCATTTTTCGTTACAGACATAATGGAGCT
*
19722315 ATCATTTT
1 ACCATTTT
19722323 CCATCCCCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (30 bp):
ACCATTTTTCGTTACAGACATAATGGAGCT
Found at i:19722417 original size:46 final size:47
Alignment explanation
Indices: 19722356--19722444 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 47
19722346 CTTTCTCTCC
* * *
19722356 TCCCTACCATCCCTCC-CTTCCCTTGGTTCTCTCCCTCTCCCCCTCT
1 TCCCCACCATCCCTCCTCCTCCCTTGATTCTCTCCCTCTCCCCCTCT
* * * *
19722402 TCCCCACCATTCCTCCTCCTGCTTTGATTCTTTCCCTCTCCCC
1 TCCCCACCATCCCTCCTCCTCCCTTGATTCTCTCCCTCTCCCC
19722445 TACCATCCCT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
46 14 0.40
47 21 0.60
ACGTcount: A:0.06, C:0.54, G:0.04, T:0.36
Consensus pattern (47 bp):
TCCCCACCATCCCTCCTCCTCCCTTGATTCTCTCCCTCTCCCCCTCT
Found at i:19723281 original size:30 final size:30
Alignment explanation
Indices: 19723247--19723304 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
19723237 GGAAAATGAC
**
19723247 AGCTCCGTTAAGTCTGTAAGGAAAAATGGT
1 AGCTCCGTTAAGTCTGTAACAAAAAATGGT
* * *
19723277 AGCTCTGTTACGTTTGTAACAAAAAATG
1 AGCTCCGTTAAGTCTGTAACAAAAAATG
19723305 ATTAGTGGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (30 bp):
AGCTCCGTTAAGTCTGTAACAAAAAATGGT
Found at i:19724158 original size:16 final size:16
Alignment explanation
Indices: 19724137--19724191 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
19724127 GTTTGGTTCA
19724137 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
19724153 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
19724169 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAG
19724185 CTGTAAT
1 CTGTAAT
19724192 AAGTAATTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:19724226 original size:46 final size:45
Alignment explanation
Indices: 19724173--19724267 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 45
19724163 ATAGAGCTGT
19724173 AATGGAATAGAACTGTAATAAGTAATTCAAT-TGTTTGGTTGG-ATGG
1 AATGGAATAGAACTGTAAT-AG-AATTC-ATGTGTTTGGTTGGAATGG
* *
19724219 AATGGAATAGAACTGTAATAGGATTCTTGTGTTTGGTTGGAATGG
1 AATGGAATAGAACTGTAATAGAATTCATGTGTTTGGTTGGAATGG
19724264 AATG
1 AATG
19724268 ACATTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
43 1 0.02
44 15 0.33
45 10 0.22
46 19 0.42
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (45 bp):
AATGGAATAGAACTGTAATAGAATTCATGTGTTTGGTTGGAATGG
Found at i:19724502 original size:34 final size:38
Alignment explanation
Indices: 19724424--19724502 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 38
19724414 CATATTTTAC
*
19724424 TATAATTATTACTAAATATAATTTAATAAAATTCTTAA
1 TATAATTATTACTAAATATAATTTAATAAAATTCATAA
*
19724462 TATAATTATTA-T-TATATGAA-TTAA-AAAA-TCATAA
1 TATAATTATTACTAAATAT-AATTTAATAAAATTCATAA
19724496 TATAATT
1 TATAATT
19724503 TATGAGTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
34 12 0.32
35 4 0.11
36 8 0.21
37 3 0.08
38 11 0.29
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (38 bp):
TATAATTATTACTAAATATAATTTAATAAAATTCATAA
Found at i:19728509 original size:14 final size:15
Alignment explanation
Indices: 19728484--19728517 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
19728474 CGAATTTATC
*
19728484 TATTTTTAAATATTT
1 TATTTTTAAATAATT
19728499 TATTTTT-AATAATT
1 TATTTTTAAATAATT
19728513 TATTT
1 TATTT
19728518 CCCTGGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTTAAATAATT
Found at i:19731301 original size:2 final size:2
Alignment explanation
Indices: 19731294--19731323 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19731284 GGCTCTGAGT
19731294 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
19731324 ATTGGTGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:19736190 original size:48 final size:48
Alignment explanation
Indices: 19736126--19736498 Score: 487
Period size: 48 Copynumber: 7.8 Consensus size: 48
19736116 ATGAATCCAA
* * * * *
19736126 ATATCATCGCTGATGCCATATTCCAAACATAGTCTTACATTGGCACAT
1 ATATCAACGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCACAT
* * *
19736174 ATATCAATGCCAATGCCGTGTCCCAAACATGGTCTTACATTGGCACAT
1 ATATCAACGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCACAT
19736222 ATATCAACGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCACAT
1 ATATCAACGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCACAT
*
19736270 ATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCACAT
1 ATATCAACGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCACAT
* * *
19736318 ATATCAACACTGATGCCATGTCCCAGACATGGTCTTAC-TCTGGCACAT
1 ATATCAACGCCGATGCCATGTCCCAAACATGGTCTTACAT-TGGCACAT
* * *
19736366 ATATCAACGCCGATACCATGTCCCAGACATGGTCTTACACTGGCACAT
1 ATATCAACGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCACAT
* * * ** *
19736414 ATATCAACACCGATGCCATGTCCCAGATATGGTCTTACACAGGCACAC
1 ATATCAACGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCACAT
* * * * *
19736462 ATCTCGGATGCCGAAGCCATGTCCCAGACATGGTCTT
1 ATATC-AACGCCGATGCCATGTCCCAAACATGGTCTT
19736499 CCATGGAATC
Statistics
Matches: 291, Mismatches: 31, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
47 1 0.00
48 264 0.91
49 26 0.09
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (48 bp):
ATATCAACGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCACAT
Found at i:19747263 original size:48 final size:48
Alignment explanation
Indices: 19747211--19747439 Score: 316
Period size: 48 Copynumber: 4.8 Consensus size: 48
19747201 ATGAATCCAC
* *
19747211 ATATCATTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACAT
1 ATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACAT
* * * *
19747259 ATATCAATACCGATGTCATGTCCCAGATATGGTCTTACATTGGCACAT
1 ATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACAT
* **
19747307 ATATCAACGCCGATGCC-TGTCCCAGACATGGTCTTACTTTGGCACAT
1 ATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACAT
* * *
19747354 ATATCAACGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCACAT
1 ATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACAT
* * *
19747402 GTATCAATGCCGATGCCATGTCCCAAACATGGTTTTAC
1 ATATCAATGCCGATGCCATGTCCCAGACATGGTCTTAC
19747440 TGGAATCTCA
Statistics
Matches: 161, Mismatches: 19, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
47 44 0.27
48 117 0.73
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (48 bp):
ATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACAT
Found at i:19747359 original size:95 final size:96
Alignment explanation
Indices: 19747219--19747440 Score: 311
Period size: 95 Copynumber: 2.3 Consensus size: 96
19747209 ACATATCATT
* * * *
19747219 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACATATATCAATACCGATGTCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACTCTGGCACATATATCAACACCGATGCCATGTCCCA
* * *
19747284 GATATGGTCTTACATTGGCACATATATCAAC
66 AACATGGTCTTACACTGGCACATATATCAAC
* * *
19747315 GCCGATGCC-TGTCCCAGACATGGTCTTACTTTGGCACATATATCAACGCTGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACTCTGGCACATATATCAACACCGATGCCATGTCCCA
* *
19747379 AACATGGTCTTACACTGGCACATGTATCAAT
66 AACATGGTCTTACACTGGCACATATATCAAC
* *
19747410 GCCGATGCCATGTCCCAAACATGGTTTTACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACT
19747441 GGAATCTCAT
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 83 0.75
96 28 0.25
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACTCTGGCACATATATCAACACCGATGCCATGTCCCA
AACATGGTCTTACACTGGCACATATATCAAC
Found at i:19749984 original size:22 final size:24
Alignment explanation
Indices: 19749943--19749988 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
19749933 AAAGCACATA
19749943 CCAGCCCTTCTTTACTTCTATTTT
1 CCAGCCCTTCTTTACTTCTATTTT
*
19749967 CCAG-CCTT-TTTCCTTCTATTTT
1 CCAGCCCTTCTTTACTTCTATTTT
19749989 TACTACACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 4 0.19
24 4 0.19
ACGTcount: A:0.11, C:0.33, G:0.04, T:0.52
Consensus pattern (24 bp):
CCAGCCCTTCTTTACTTCTATTTT
Found at i:19751341 original size:375 final size:376
Alignment explanation
Indices: 19750650--19751343 Score: 1165
Period size: 375 Copynumber: 1.8 Consensus size: 376
19750640 AATGTTAATG
*
19750650 CCTCATTTTTCTTATGATTGAAATCTAATTGACCAATTAGCTTATTACCGAGGGTGTCTAATTGT
1 CCTCATTTTTCTTATGATTGAAAGCTAATTGACCAATTAGCTTATTACCGAGGGTGTCTAATTGT
*
19750715 TTCAATAGGGGGCCGAATGTATAAGAGCATCTTTTGAAGCTTAGCCAATTGTGGTGTGTGTTAAT
66 TTCAATAGGGGGCCGAATGTATAAGAGCATCTTTTGAAGCTTAACCAATTGTGGTGTGTGTTAAT
*
19750780 TGTGATGCTTGTCGATTGTGTTGGAAGTGTAAATAAAATGGCTAAATGAATGTAAGTTGTCATTT
131 TGTGATGCTTGCCGATTGTGTTGGAAGTGTAAATAAAATGGCTAAATGAATGTAAGTTGTCATTT
* * *
19750845 ATATGGTTGAATGTGTTATGTGATAACTTGGGATGTTTTCCAAATGTACGATGCCTATTCTGTAC
196 ATATGGTCGAATGTGTTATGTGATAACTTGGGATGTTTTCCAAAAGTACGATGCCTATTCTATAC
* * *
19750910 TATATGTTTACTTAAGTTGACTGAATGTGTCTATTGGCTTGCTTGCTATAAATGAATATGCATAA
261 TACATGTTTACTTAAGTTGACTAAATGTGTCAATTGGCTTGCTTGCTATAAATGAATATGCATAA
19750975 TCTGCTAATGTATGCTACTGTATTGCTATCACATTTTCACTGAATGCTCAT
326 TCTGCTAATGTATGCTACTGTATTGCTATCACATTTTCACTGAATGCTCAT
* ** *
19751026 CCTCATTTTTCTTATGATTGAAAGCTAATTGACTAATTAGCTTATTGTCGAGGGTGTTTAATTGT
1 CCTCATTTTTCTTATGATTGAAAGCTAATTGACCAATTAGCTTATTACCGAGGGTGTCTAATTGT
*
19751091 TTCAATA-GGGGCCGAATGTATAAGAGCATCTTTTGAAGCTTAACCGATTGTGGTGTGTGTTAAT
66 TTCAATAGGGGGCCGAATGTATAAGAGCATCTTTTGAAGCTTAACCAATTGTGGTGTGTGTTAAT
* * * * *
19751155 TGTGATGCTTGCCGGTTGTGTTGGAAGTGTAAATAAAATGGTTGAATGAATGTAATTTGTCTTTT
131 TGTGATGCTTGCCGATTGTGTTGGAAGTGTAAATAAAATGGCTAAATGAATGTAAGTTGTCATTT
* * *
19751220 ATATGGTCGAATGTGTTATGTGATAAGTTGGGATGTTTTCCAAAAGTGCGTTGCCTATTCTATAC
196 ATATGGTCGAATGTGTTATGTGATAACTTGGGATGTTTTCCAAAAGTACGATGCCTATTCTATAC
* *
19751285 TACGTGTTTACTTAAGTTGATTAAATGTGTCAATTGGCTTGCTTGCTATAAATGAATAT
261 TACATGTTTACTTAAGTTGACTAAATGTGTCAATTGGCTTGCTTGCTATAAATGAATAT
19751344 ACGCAATCTA
Statistics
Matches: 294, Mismatches: 24, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
375 227 0.77
376 67 0.23
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (376 bp):
CCTCATTTTTCTTATGATTGAAAGCTAATTGACCAATTAGCTTATTACCGAGGGTGTCTAATTGT
TTCAATAGGGGGCCGAATGTATAAGAGCATCTTTTGAAGCTTAACCAATTGTGGTGTGTGTTAAT
TGTGATGCTTGCCGATTGTGTTGGAAGTGTAAATAAAATGGCTAAATGAATGTAAGTTGTCATTT
ATATGGTCGAATGTGTTATGTGATAACTTGGGATGTTTTCCAAAAGTACGATGCCTATTCTATAC
TACATGTTTACTTAAGTTGACTAAATGTGTCAATTGGCTTGCTTGCTATAAATGAATATGCATAA
TCTGCTAATGTATGCTACTGTATTGCTATCACATTTTCACTGAATGCTCAT
Found at i:19770619 original size:16 final size:16
Alignment explanation
Indices: 19770600--19770636 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
19770590 TTTCATTAAG
19770600 TTTTTAAGACTCATTT
1 TTTTTAAGACTCATTT
*
19770616 TTTTTAAGATTCATTT
1 TTTTTAAGACTCATTT
*
19770632 GTTTT
1 TTTTT
19770637 CCTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTTTAAGACTCATTT
Found at i:19814163 original size:37 final size:36
Alignment explanation
Indices: 19814113--19814228 Score: 160
Period size: 37 Copynumber: 3.1 Consensus size: 36
19814103 TTATTATGAA
* *
19814113 GTCTTACCCGGACATAATCTCCACACAAAGTTATCGG
1 GTCTTACCCGGACAAAATC-CCACACGAAGTTATCGG
*
19814150 GTCTTACCCGGACAAAATCCCCACACGAAGTTATCGA
1 GTCTTACCCGGACAAAAT-CCCACACGAAGTTATCGG
* *
19814187 GTCTTACCCGGACAAAATCCCTACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCC-ACACGAAGTTATCGG
19814224 GTCTT
1 GTCTT
19814229 TAGAGCTCGG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
36 3 0.04
37 67 0.94
38 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (36 bp):
GTCTTACCCGGACAAAATCCCACACGAAGTTATCGG
Found at i:19814425 original size:47 final size:47
Alignment explanation
Indices: 19814347--19814724 Score: 515
Period size: 47 Copynumber: 7.7 Consensus size: 47
19814337 CCCTTCGGGA
* * * * * *
19814347 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19814394 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19814441 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19814488 CTTATCACATATATACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19814535 CTTATCACATATATACACTTTCACATTCATCACATCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--A----CAC-TT--T--CA-CATTCATCACATCGGCCATTAGGC
19814594 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19814643 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19814690 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
19814725 AGAATCCTAA
Statistics
Matches: 302, Mismatches: 14, Indels: 30
0.87 0.04 0.09
Matches are distributed among these distances:
46 1 0.00
47 214 0.71
49 33 0.11
50 2 0.01
52 1 0.00
53 3 0.01
54 4 0.01
55 3 0.01
56 1 0.00
58 2 0.01
59 32 0.11
61 6 0.02
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19814575 original size:12 final size:12
Alignment explanation
Indices: 19814558--19814582 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19814548 TACACTTTCA
19814558 CATTCATCACAT
1 CATTCATCACAT
19814570 CATTCATCACAT
1 CATTCATCACAT
19814582 C
1 C
19814583 GGCCATTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (12 bp):
CATTCATCACAT
Found at i:19814588 original size:59 final size:59
Alignment explanation
Indices: 19814511--19814678 Score: 248
Period size: 49 Copynumber: 3.0 Consensus size: 59
19814501 TACACTTTCA
*
19814511 CATTCATCACATAGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
19814570 CATTCATCACATCGGCCATTAGGCCTTATCACATATAT--A--TACAC-TT--T--CA-
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
19814619 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
19814678 C
1 C
19814679 GGCCATTAGG
Statistics
Matches: 96, Mismatches: 3, Indels: 20
0.81 0.03 0.17
Matches are distributed among these distances:
49 38 0.40
50 2 0.02
51 1 0.01
52 1 0.01
53 4 0.04
54 4 0.04
55 4 0.04
56 1 0.01
57 1 0.01
58 2 0.02
59 38 0.40
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (59 bp):
CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
Found at i:19814642 original size:155 final size:153
Alignment explanation
Indices: 19814417--19814724 Score: 555
Period size: 155 Copynumber: 2.0 Consensus size: 153
19814407 TACACTTTCA
19814417 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
19814482 TTAGGCCTTATCACATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCACATAT
66 TTAGGCCTTATCACATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCACATAT
*
19814547 ATACACT-TTCACATTCATCACAT
131 ATACA-TGTTCACATCCATCACAT
19814570 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
1 CATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGC
*
19814635 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
64 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCACAT
*
19814700 ATATGCATGTTCACATCCATCACAT
129 ATATACATGTTCACATCCATCACAT
19814725 AGAATCCTAA
Statistics
Matches: 149, Mismatches: 3, Indels: 4
0.96 0.02 0.03
Matches are distributed among these distances:
153 32 0.21
154 1 0.01
155 116 0.78
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (153 bp):
CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
TTAGGCCTTATCACATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCACATAT
ATACATGTTCACATCCATCACAT
Found at i:19814651 original size:108 final size:106
Alignment explanation
Indices: 19814464--19814678 Score: 403
Period size: 108 Copynumber: 2.0 Consensus size: 106
19814454 TACACTTTCA
19814464 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATAGGCCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATAGGCCA
19814529 TTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 TTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
19814570 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
1 CATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATAGGC
19814635 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
64 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
19814678 C
1 C
19814679 GGCCATTAGG
Statistics
Matches: 106, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
106 32 0.30
108 74 0.70
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (106 bp):
CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATAGGCCA
TTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
Found at i:19820101 original size:62 final size:61
Alignment explanation
Indices: 19819965--19820165 Score: 249
Period size: 61 Copynumber: 3.3 Consensus size: 61
19819955 TACCTTTCTT
* * * * ** *
19819965 GAGTTTTGCCACAAAGCCATTCCTTAATATTCAGTACTCGCCACTGAGGCTTTCCTGTCCA
1 GAGTTTTGCCACAAAGGCATTCTTTAACATTCAATACTCGCCACAAAGGCTTTCCTATCCA
* * * * * * *
19820026 AAGTTTTGCCACAAAGGCGTTCTTTAACATTTATTACTCACCACAAAAGGCTTTTCTATCTA
1 GAGTTTTGCCACAAAGGCATTCTTTAACATTCAATACTCGCCAC-AAAGGCTTTCCTATCCA
*
19820088 GAGTTTTGCCACAAAGGCATTCTTTAACATTCAATACTCGCCACAATGGCTTTCCTATCCA
1 GAGTTTTGCCACAAAGGCATTCTTTAACATTCAATACTCGCCACAAAGGCTTTCCTATCCA
*
19820149 GATTTTTGCCACAAAGG
1 GAGTTTTGCCACAAAGG
19820166 TTGTCCCTCT
Statistics
Matches: 117, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
61 66 0.56
62 51 0.44
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (61 bp):
GAGTTTTGCCACAAAGGCATTCTTTAACATTCAATACTCGCCACAAAGGCTTTCCTATCCA
Found at i:19833113 original size:5 final size:6
Alignment explanation
Indices: 19833086--19833141 Score: 69
Period size: 6 Copynumber: 9.5 Consensus size: 6
19833076 AAGTTAAAGG
* * *
19833086 AAAACT AAAACT AAAAAT AAAAAT AAAAAT AGAAAT AAAAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
19833133 AAAATT AAA
1 AAAAAT AAA
19833142 CATCATCATC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 5 0.11
6 40 0.89
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:19840931 original size:40 final size:40
Alignment explanation
Indices: 19840867--19840968 Score: 143
Period size: 40 Copynumber: 2.5 Consensus size: 40
19840857 CGATAATTTA
* * *
19840867 GCTATGTATGGCACTAAGTGTGCGATTCGAGATAGCTTCG
1 GCTATATAAGGCACTTAGTGTGCGATTCGAGATAGCTTCG
*
19840907 GTTATGA-AAGGCACTTAGTGTGCGATTCGAGATAGCTTCG
1 GCTAT-ATAAGGCACTTAGTGTGCGATTCGAGATAGCTTCG
*
19840947 GCTATATATGGCACTTAGTGTG
1 GCTATATAAGGCACTTAGTGTG
19840969 AAAGATTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
39 1 0.02
40 53 0.98
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (40 bp):
GCTATATAAGGCACTTAGTGTGCGATTCGAGATAGCTTCG
Found at i:19847324 original size:33 final size:33
Alignment explanation
Indices: 19847246--19847343 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 33
19847236 GTTTTAGTTA
* *
19847246 GGGCCTTAGCCCATTTCAGTAACAGTAGCAGTCT
1 GGGCCTAAGCCCATTTCAGTAACAGTA-CAGTCG
*
19847280 GGGCCTGAGCCCATTTCAGTAACAGTATCAGT-G
1 GGGCCTAAGCCCATTTCAGTAACAGTA-CAGTCG
* *
19847313 GGGCCTAAGCCCATTACAGTACCAGTACAGT
1 GGGCCTAAGCCCATTTCAGTAACAGTACAGT
19847344 ATGTACTCAG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
32 4 0.07
33 24 0.41
34 30 0.52
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (33 bp):
GGGCCTAAGCCCATTTCAGTAACAGTACAGTCG
Found at i:19848336 original size:22 final size:23
Alignment explanation
Indices: 19848288--19848336 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
19848278 CTTTGACCTT
* *
19848288 CATAAGAAACATTCAATCGACTG
1 CATAAGAAACATTCAAACGACGG
*
19848311 -ATAAGAAACATTCAAAC-CCGG
1 CATAAGAAACATTCAAACGACGG
19848332 CATAA
1 CATAA
19848337 CTCTCTTCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.47, C:0.22, G:0.12, T:0.18
Consensus pattern (23 bp):
CATAAGAAACATTCAAACGACGG
Found at i:19850758 original size:34 final size:34
Alignment explanation
Indices: 19850715--19850782 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
19850705 ATTAAGACAG
19850715 AGGCCTCAGTCAAT-ACTTTCTTGAGCTTCTCAAA
1 AGGCCTCAGTCAATAAC-TTCTTGAGCTTCTCAAA
* *
19850749 AGGCCTCAGTTAGTAACTTCTTGAGCTTCTCAAA
1 AGGCCTCAGTCAATAACTTCTTGAGCTTCTCAAA
19850783 GCTCTCTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (34 bp):
AGGCCTCAGTCAATAACTTCTTGAGCTTCTCAAA
Found at i:19858926 original size:24 final size:24
Alignment explanation
Indices: 19858881--19858926 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
19858871 AATTGATTAA
**
19858881 GATTGAATGATGATTATTTGTAAT
1 GATTGAATGATGATTAAATGTAAT
19858905 GATTGAATGTATGA-TAAATGTA
1 GATTGAATG-ATGATTAAATGTA
19858927 TTCTAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (24 bp):
GATTGAATGATGATTAAATGTAAT
Found at i:19859377 original size:18 final size:18
Alignment explanation
Indices: 19859351--19859389 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19859341 TTGGAAATCA
19859351 AAATAATTAAA-AGATAAT
1 AAATAATTAAATAGA-AAT
*
19859369 AAATTATTAAATAGAAAT
1 AAATAATTAAATAGAAAT
19859387 AAA
1 AAA
19859390 AAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
AAATAATTAAATAGAAAT
Found at i:19862914 original size:56 final size:56
Alignment explanation
Indices: 19862825--19862936 Score: 161
Period size: 56 Copynumber: 2.0 Consensus size: 56
19862815 GTTAATAGAT
* * * *
19862825 CTAATTAGTAATTTAATTTAAATATATCATGACAAATCCTAAGGTGATGACAAATC
1 CTAATTACTAATTTAATTTAAACATATCATGACAAATCCTAAGGAGATGAAAAATC
* * *
19862881 CTAATTACTTATTTAATTTAACCATATCTTGACAAATCCTAAGGAGATGAAAAATC
1 CTAATTACTAATTTAATTTAAACATATCATGACAAATCCTAAGGAGATGAAAAATC
19862937 ATATTTTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (56 bp):
CTAATTACTAATTTAATTTAAACATATCATGACAAATCCTAAGGAGATGAAAAATC
Found at i:19868261 original size:51 final size:51
Alignment explanation
Indices: 19868206--19868337 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 51
19868196 GTATATGGTG
19868206 TAAGACCATAGATGAAAGAGGCTATAGCAGTCTAGTAT-AAGGTATATAGCA
1 TAAGACCATAGATGAAAGAGGCTATAGCAGTCTAGTATGAA-GTATATAGCA
* * * * * *
19868257 TAAGACCATAGATGAAAGAGACTATAGCATTTTGGTATGCAGTATGTAGCA
1 TAAGACCATAGATGAAAGAGGCTATAGCAGTCTAGTATGAAGTATATAGCA
* * * *
19868308 TAAGAACATGGATGAAAGAAGCTATGGCAG
1 TAAGACCATAGATGAAAGAGGCTATAGCAG
19868338 CATGGTACAC
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 67 0.99
52 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.23
Consensus pattern (51 bp):
TAAGACCATAGATGAAAGAGGCTATAGCAGTCTAGTATGAAGTATATAGCA
Found at i:19869102 original size:24 final size:24
Alignment explanation
Indices: 19869075--19869124 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
19869065 AGTCTAGCGC
*
19869075 AGGTGCGCTGCTGAAATGATAACT
1 AGGTGCGCTACTGAAATGATAACT
*
19869099 AGGTGCGCTATTGAAATGATAACT
1 AGGTGCGCTACTGAAATGATAACT
19869123 AG
1 AG
19869125 TAGGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (24 bp):
AGGTGCGCTACTGAAATGATAACT
Found at i:19872398 original size:27 final size:27
Alignment explanation
Indices: 19872367--19872457 Score: 137
Period size: 27 Copynumber: 3.4 Consensus size: 27
19872357 CCCTAGAATA
* * *
19872367 GGTAAAATGATCGTAATACCCTTTTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
19872394 GGTAATATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
19872421 GGTAAAATGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
19872448 GGTAAAATGA
1 GGTAAAATGA
19872458 TGATTATGCC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:19874723 original size:48 final size:48
Alignment explanation
Indices: 19874671--19874890 Score: 255
Period size: 48 Copynumber: 4.6 Consensus size: 48
19874661 GTCAGTACCG
* *
19874671 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCA
* * * *
19874719 ATGCCATATTCCAAACCTGGTCTTACACTGGCTCACATATCAACGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCA
* * *
19874767 ACGCCATG-CCTTAGACATGGTCTTACACTGGCTCACATATCGACG-CA
1 ATGCCATGTCC-CAGACATGGTCTTACACTGGCTCACATATCAACGCCA
* * * * *
19874814 GATTCCATGTCCCAGACTTGGTCTTACACTGGCTCACATATCAAGGTCG
1 -ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCA
* * *
19874863 ATCCCATGTCCCAAACACGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
19874891 AGGATCTCAT
Statistics
Matches: 144, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
47 3 0.02
48 138 0.96
49 3 0.02
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCA
Found at i:19883699 original size:12 final size:12
Alignment explanation
Indices: 19883682--19883711 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
19883672 TGGAGAAAGA
19883682 CTTCTCTGCCTC
1 CTTCTCTGCCTC
19883694 CTTCTCTGCCTC
1 CTTCTCTGCCTC
19883706 CTTCTC
1 CTTCTC
19883712 CTCTACTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.07, T:0.43
Consensus pattern (12 bp):
CTTCTCTGCCTC
Found at i:19884145 original size:25 final size:25
Alignment explanation
Indices: 19884116--19884165 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
19884106 CAAAACATAG
19884116 ATTGGAGGTGGTTCGAGACTAAACC
1 ATTGGAGGTGGTTCGAGACTAAACC
19884141 ATTGGAGGTGGTTCGAGACTAAACC
1 ATTGGAGGTGGTTCGAGACTAAACC
19884166 GTGAACTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (25 bp):
ATTGGAGGTGGTTCGAGACTAAACC
Found at i:19885676 original size:48 final size:48
Alignment explanation
Indices: 19885624--19885886 Score: 332
Period size: 48 Copynumber: 5.5 Consensus size: 48
19885614 AACCGATGTT
* * *
19885624 ATGTCCCAAACATGGTCTTACACTAGCACACATATCAAAGCCAATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAAGCCAATGCC
* * * * * *
19885672 ATGTCCCAGACATGGTCTCATATTGACT-AGCATACCAACA-CCAACGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCA-CATATCAA-AGCCAATGCC
** *
19885720 ATGTCCCAGACATGGTCTTACACTGGCTCACATATTGACGCCAATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAAGCCAATGCC
* * *
19885768 ATGTCCCAGACATGGCCTTACACTGGCTCACATATCAAGGCCGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAAGCCAATGCC
* * *
19885816 ATGTCCCAGACATGGTCTTACACTTGCTCACATATCAACGCTAATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAAGCCAATGCC
19885864 ATGTCCCAGACATGGTCTTACAC
1 ATGTCCCAGACATGGTCTTACAC
19885887 AGGATCCCAT
Statistics
Matches: 183, Mismatches: 28, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 180 0.98
49 2 0.01
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (48 bp):
ATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAAGCCAATGCC
Found at i:19885788 original size:144 final size:144
Alignment explanation
Indices: 19885624--19885886 Score: 386
Period size: 144 Copynumber: 1.8 Consensus size: 144
19885614 AACCGATGTT
*
19885624 ATGTCCCAAACATGGTCTTACACTAGCACACATATCAAAGCCAATGCCATGTCCCAGACATGGTC
1 ATGTCCCAAACATGGCCTTACACTAGCACACATATCAAAGCCAATGCCATGTCCCAGACATGGTC
*
19885689 TCATA-TTGACT-AGCATACCAACACCAACGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
66 TCACACTTG-CTCA-CATACCAACACCAACGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
19885752 TATTGACGCCAATGCC
129 TATTGACGCCAATGCC
* * * * *
19885768 ATGTCCCAGACATGGCCTTACACTGGCTCACATATCAAGGCCGATGCCATGTCCCAGACATGGTC
1 ATGTCCCAAACATGGCCTTACACTAGCACACATATCAAAGCCAATGCCATGTCCCAGACATGGTC
* * * * *
19885833 TTACACTTGCTCACATATCAACGCTAATGCCATGTCCCAGACATGGTCTTACAC
66 TCACACTTGCTCACATACCAACACCAACGCCATGTCCCAGACATGGTCTTACAC
19885887 AGGATCCCAT
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
144 101 0.96
145 4 0.04
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (144 bp):
ATGTCCCAAACATGGCCTTACACTAGCACACATATCAAAGCCAATGCCATGTCCCAGACATGGTC
TCACACTTGCTCACATACCAACACCAACGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA
TTGACGCCAATGCC
Found at i:19892293 original size:91 final size:92
Alignment explanation
Indices: 19892163--19892329 Score: 291
Period size: 91 Copynumber: 1.8 Consensus size: 92
19892153 TGATATGTGT
* * *
19892163 GCCAGTGTAAGACATGTCTGGAACATGCATCGGCATCGAGACGAGAGCT-GTGTAAGACATGTCT
1 GCCAATGTAAGACATGCCTGGAACATGCATCGGCATCGAGACGAGAGCTAGTATAAGACATGTCT
19892227 GGGACATGCATTAGCCACATTAAGAGA
66 GGGACATGCATTAGCCACATTAAGAGA
*
19892254 GCCAATGTAAGACATGCCTGGAACATGCATCGGTATCGAGACGAGAGCTAGTATAAGACATGTCT
1 GCCAATGTAAGACATGCCTGGAACATGCATCGGCATCGAGACGAGAGCTAGTATAAGACATGTCT
19892319 GGGACATGCAT
66 GGGACATGCAT
19892330 CGGCCTCGAG
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
91 46 0.65
92 25 0.35
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (92 bp):
GCCAATGTAAGACATGCCTGGAACATGCATCGGCATCGAGACGAGAGCTAGTATAAGACATGTCT
GGGACATGCATTAGCCACATTAAGAGA
Found at i:19892300 original size:46 final size:46
Alignment explanation
Indices: 19892163--19892340 Score: 200
Period size: 46 Copynumber: 3.9 Consensus size: 46
19892153 TGATATGTGT
19892163 GCCAGTGTAAGACATGTCTGGAACATGCATCGGCATCGAGACGAGA
1 GCCAGTGTAAGACATGTCTGGAACATGCATCGGCATCGAGACGAGA
* * * * * *
19892209 G-CTGTGTAAGACATGTCTGGGACATGCATTAGCCA-C-ATTAAGAGA
1 GCCAGTGTAAGACATGTCTGGAACATGCA-TCGGCATCGA-GACGAGA
* * *
19892254 GCCAATGTAAGACATGCCTGGAACATGCATCGGTATCGAGACGAGA
1 GCCAGTGTAAGACATGTCTGGAACATGCATCGGCATCGAGACGAGA
* * * *
19892300 GCTAGTATAAGACATGTCTGGGACATGCATCGGCCTCGAGA
1 GCCAGTGTAAGACATGTCTGGAACATGCATCGGCATCGAGA
19892341 TATACAGCTA
Statistics
Matches: 105, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
44 1 0.01
45 35 0.33
46 68 0.65
47 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGAACATGCATCGGCATCGAGACGAGA
Found at i:19892453 original size:49 final size:49
Alignment explanation
Indices: 19892396--19892561 Score: 158
Period size: 49 Copynumber: 3.4 Consensus size: 49
19892386 TGTGTGTCAA
* * *
19892396 TGTAAGACCTGTCTAGGACATGGCATCGACAC-CGATAGATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATAAAAGCCAG
* * * **
19892445 TGTAAGACCTGTCTGGGACACGGCATCGGCCTCGATATATAAAAGTTAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATAAAAGCCAG
* * * * ***
19892494 TGTAAGACCTATCTGGGACATGCCATCGACTTTGAT-G-TGCTAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATAAAAGCCAG
19892541 TGTAAGACCATGTCTGGGACA
1 TGTAAGACC-TGTCTGGGACA
19892562 AGGCGTTGCC
Statistics
Matches: 94, Mismatches: 21, Indels: 5
0.78 0.17 0.04
Matches are distributed among these distances:
47 14 0.15
48 11 0.12
49 69 0.73
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATAAAAGCCAG
Found at i:19893345 original size:22 final size:22
Alignment explanation
Indices: 19893317--19893358 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
19893307 ATCCAAGTCC
19893317 CGTATTATGAGATAATTAATCT
1 CGTATTATGAGATAATTAATCT
19893339 CGTATTATGAGATAATTAAT
1 CGTATTATGAGATAATTAAT
19893359 TTTTAGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (22 bp):
CGTATTATGAGATAATTAATCT
Found at i:19899858 original size:43 final size:41
Alignment explanation
Indices: 19899757--19899877 Score: 134
Period size: 43 Copynumber: 2.9 Consensus size: 41
19899747 TAGAGTTACT
* * *
19899757 AAGATTGCGTGTAAGACCATATCTGGGATATAGCATCGATAT
1 AAGATT-CATGTAAGACCATATCTGGGATATGGCATCGATAC
* * * * *
19899799 GATACTTCATGCAAGACCATAGCTGGGCTATTGGCATCGATAC
1 AAGA-TTCATGTAAGACCATATCTGGGATA-TGGCATCGATAC
19899842 AAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AAGATT-CATGTAAGACCATATCTGGGATATGGCAT
19899878 TGGTACGGTA
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 29 0.46
43 34 0.54
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (41 bp):
AAGATTCATGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:19902670 original size:45 final size:45
Alignment explanation
Indices: 19902529--19902774 Score: 204
Period size: 45 Copynumber: 5.6 Consensus size: 45
19902519 ATATCATACA
* * * * * *
19902529 ATGCCAACATCCCAGACGTGGTCTTACATGTTATCTCAT--ATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAACCACATAGATCG
* * *
19902572 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCG-AATCA-A-ATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAACCACATAGATCG
* * * *
19902613 ATGCCGATGTCCCAAACATGGTCTTACACGTAACCACATAGATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAACCACATAGATCG
* ** *
19902658 ATGCCAACGTCCCAGATGTGGTCTTACATATAACCACATAGATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAACCACATAGATCG
* * ** *
19902703 ATGTCAACGTCCCAGACGTGGTCTTACACGAAAATA-ATTATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAACCACA-TAGATCG
19902748 ATGCCAACGTCCCAGACGTGGTCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
19902775 TCGAAAACAC
Statistics
Matches: 162, Mismatches: 30, Indels: 20
0.76 0.14 0.09
Matches are distributed among these distances:
41 25 0.15
42 11 0.07
43 23 0.14
44 4 0.02
45 99 0.61
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (45 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACCACATAGATCG
Found at i:19916104 original size:42 final size:42
Alignment explanation
Indices: 19916045--19916156 Score: 143
Period size: 42 Copynumber: 2.7 Consensus size: 42
19916035 TTAGGGTTAC
* *
19916045 TGAGACTATGTGTAAGACCATATCTGGGAAATGGCATCAATT
1 TGAGACTTTGTGTAAGACCATATCTGGGAAATGGCATCAATA
* * * *
19916087 TGAGACTTTATGTAAGACCATGTTTGGGATATGGCATCAATA
1 TGAGACTTTGTGTAAGACCATATCTGGGAAATGGCATCAATA
* * *
19916129 TGAGACTTCGTGTAAGACTATAGCTGGG
1 TGAGACTTTGTGTAAGACCATATCTGGG
19916157 CTATTGGCAT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (42 bp):
TGAGACTTTGTGTAAGACCATATCTGGGAAATGGCATCAATA
Found at i:19918601 original size:39 final size:39
Alignment explanation
Indices: 19918557--19918791 Score: 362
Period size: 39 Copynumber: 6.0 Consensus size: 39
19918547 AATTATATTA
* *
19918557 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
19918596 CCAGCACGAAGCCTGCGGGACTTTAGCCCAGATATATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
19918635 CCAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
19918674 CCAGCACGAAGCCTGCGGGACTTGAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * * * *
19918713 TCAACATGAAGCCTACGAGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
19918752 CCAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
19918791 C
1 C
19918792 TAGTGTCTTG
Statistics
Matches: 175, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 175 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:19923205 original size:47 final size:47
Alignment explanation
Indices: 19922996--19923480 Score: 774
Period size: 47 Copynumber: 10.1 Consensus size: 47
19922986 GAAATGATAG
19922996 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
19923047 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
19923096 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
19923147 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19923194 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19923241 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
19923290 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19923337 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19923383 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
19923430 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19923477 TAAG
1 TAAG
19923481 TCCCGAAGGG
Statistics
Matches: 417, Mismatches: 12, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
46 45 0.11
47 191 0.46
49 96 0.23
51 85 0.20
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:19923464 original size:189 final size:191
Alignment explanation
Indices: 19922996--19923480 Score: 807
Period size: 189 Copynumber: 2.5 Consensus size: 191
19922986 GAAATGATAG
19922996 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGC
19923061 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
62 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
19923126 AAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
127 AAAGTG---ATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
19923191 TGA
189 TGA
19923194 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
19923259 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
19923324 TG-TATATACGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 TGATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
19923383 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
19923448 GTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAG
19923481 TCCCGAAGGG
Statistics
Matches: 279, Mismatches: 8, Indels: 11
0.94 0.03 0.04
Matches are distributed among these distances:
187 10 0.04
188 1 0.00
189 125 0.45
190 11 0.04
194 96 0.34
198 36 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (191 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:19923655 original size:37 final size:37
Alignment explanation
Indices: 19923599--19923677 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19923589 CCGAGCTCTA
* * *
19923599 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
19923636 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
19923673 AAGAC
1 AAGAC
19923678 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19925621 original size:29 final size:29
Alignment explanation
Indices: 19925586--19925659 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
19925576 GTTGTGAGAT
* *
19925586 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
19925615 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
19925644 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19925660 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:19926240 original size:40 final size:40
Alignment explanation
Indices: 19925969--19926228 Score: 271
Period size: 39 Copynumber: 6.6 Consensus size: 40
19925959 TTGAATGATG
* * *
19925969 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * * *
19926009 TCCGGACTAAG-ACCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TATA
19926048 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
* * *
19926088 -CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT-
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
* **
19926126 TTCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAGGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
* * *
19926166 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
* *
19926206 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTTCCGAAGAGCA
19926229 ATCATGCTGG
Statistics
Matches: 186, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
39 94 0.51
40 79 0.42
41 13 0.07
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:19929582 original size:51 final size:51
Alignment explanation
Indices: 19929509--19929799 Score: 515
Period size: 51 Copynumber: 5.8 Consensus size: 51
19929499 GAAATGATAG
19929509 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
*
19929560 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG--TATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
19929609 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT-TGATGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATG-TGA
19929660 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
19929711 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
19929758 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
19929800 CGTGACAGGG
Statistics
Matches: 230, Mismatches: 2, Indels: 16
0.93 0.01 0.06
Matches are distributed among these distances:
47 47 0.20
49 48 0.21
50 2 0.01
51 131 0.57
52 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (51 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
Found at i:19929682 original size:100 final size:99
Alignment explanation
Indices: 19929509--19929855 Score: 521
Period size: 100 Copynumber: 3.5 Consensus size: 99
19929499 GAAATGATAG
19929509 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATAT-TGTGATAAGGCCTAATGGC
*
19929574 TGATGTGATGAATGTGAAAGTGTATATATATGTGA
65 CGATGTGATGAATGTGAAAGTGTATATATATGTGA
19929609 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATTGATGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATTG-TGATAAGGCCTAATGGC
19929674 CGATGTGATGAATGTGAAAGTGTATATATATATGTGA
65 CGATGTGATGAATGTGAAAGTG--TATATATATGTGA
19929711 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA-TGTGATAAGGCCTAATGGCC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATTGTGATAAGGCCTAATGGCC
*
19929773 GATGTGATGAATGTGAAAGTG--TATATACGTGA
66 GATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
19929805 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-A-TGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATTGTGATAAG
19929856 TCCCGAAGGG
Statistics
Matches: 233, Mismatches: 9, Indels: 16
0.90 0.03 0.06
Matches are distributed among these distances:
94 49 0.21
95 1 0.00
96 2 0.01
98 39 0.17
99 4 0.02
100 89 0.38
102 49 0.21
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (99 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATTGTGATAAGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:19929701 original size:151 final size:149
Alignment explanation
Indices: 19929509--19929799 Score: 555
Period size: 151 Copynumber: 1.9 Consensus size: 149
19929499 GAAATGATAG
19929509 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
*
19929574 TGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
66 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
19929639 AAAGTGTATATATATTGATGA
129 AAAGTGTATATATATTGATGA
19929660 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
19929725 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
19929790 AGTGTATATA
131 AGTGTATATA
19929800 CGTGACAGGG
Statistics
Matches: 139, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
149 53 0.38
151 86 0.62
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (149 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATATTGATGA
Found at i:19930030 original size:37 final size:37
Alignment explanation
Indices: 19929974--19930052 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
19929964 CCGAGCTCTA
* * *
19929974 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
19930011 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
19930048 AAGAC
1 AAGAC
19930053 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19931634 original size:20 final size:20
Alignment explanation
Indices: 19931609--19931662 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
19931599 CACGGCCTGC
19931609 CCACACGGGCGTGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
* *
19931629 CCACACGGGCATGTCGCAAG
1 CCACACGGGCGTGTCCCAAG
* *
19931649 ACATACGGGCGTGT
1 CCACACGGGCGTGT
19931663 GGCTCTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.33, G:0.31, T:0.13
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAG
Found at i:19933544 original size:25 final size:25
Alignment explanation
Indices: 19933516--19933563 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
19933506 AATCGTAACA
*
19933516 TATACTCAAGAGGTATTATATCAGG
1 TATACTCAAGAGATATTATATCAGG
19933541 TATACTCAAGAGATATTATATCA
1 TATACTCAAGAGATATTATATCA
19933564 AGATTACCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (25 bp):
TATACTCAAGAGATATTATATCAGG
Found at i:19936179 original size:15 final size:15
Alignment explanation
Indices: 19936138--19936185 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
19936128 CTTTATAAAA
*
19936138 TGAAAATTTAATTAT
1 TGAAAATTTAAGTAT
*
19936153 TGGAAAA-ATAAGTAT
1 T-GAAAATTTAAGTAT
*
19936168 TGAAAATTTAAGTGT
1 TGAAAATTTAAGTAT
19936183 TGA
1 TGA
19936186 GTTTATGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 5 0.19
15 17 0.63
16 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.38
Consensus pattern (15 bp):
TGAAAATTTAAGTAT
Found at i:19936442 original size:31 final size:31
Alignment explanation
Indices: 19936404--19936471 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
19936394 AGCAGTTTTC
19936404 ATTGTGAGTCATCATAATGTTTAAAAAATTA
1 ATTGTGAGTCATCATAATGTTTAAAAAATTA
19936435 ATTGTGAGTCATCATAATGTTTAAAAAATTA
1 ATTGTGAGTCATCATAATGTTTAAAAAATTA
19936466 AGTTGT
1 A-TTGT
19936472 TGAAAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 32 0.89
32 4 0.11
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (31 bp):
ATTGTGAGTCATCATAATGTTTAAAAAATTA
Found at i:19939708 original size:22 final size:23
Alignment explanation
Indices: 19939661--19939715 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
19939651 CAAAATTTTG
*
19939661 AAAATTATATTATAATTTTTACA
1 AAAATTATATTATAATTATTACA
*
19939684 AAAATTA-ATTA-AATATATTATA
1 AAAATTATATTATAAT-TATTACA
19939706 AAACATTATA
1 AAA-ATTATA
19939716 CATGAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.11
22 12 0.44
23 11 0.41
24 1 0.04
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAATTATATTATAATTATTACA
Found at i:19945967 original size:48 final size:50
Alignment explanation
Indices: 19945915--19946029 Score: 125
Period size: 47 Copynumber: 2.4 Consensus size: 50
19945905 GCCATAATCG
* *
19945915 GGAAGTTCACAAAGAACCA-TATCGGGAAGCTC-CAGATAGCCAATATT-A
1 GGAAGTTCACAAAGAACCACTATCGGGAAGCTCACAAAGAGCCAAT-TTAA
**
19945963 GGAAGTTCA-AGCGAA-CACTATCGGGAAGCTCACAAAGAGCCAATTTAACA
1 GGAAGTTCACAAAGAACCACTATCGGGAAGCTCACAAAGAGCCAATTT-A-A
19946013 GGAAGTTCACAAA-AACC
1 GGAAGTTCACAAAGAACC
19946030 CTTTAATCGA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
46 2 0.04
47 19 0.35
48 19 0.35
50 12 0.22
51 2 0.04
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.17
Consensus pattern (50 bp):
GGAAGTTCACAAAGAACCACTATCGGGAAGCTCACAAAGAGCCAATTTAA
Found at i:19951481 original size:44 final size:44
Alignment explanation
Indices: 19951432--19951523 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
19951422 TGTTCAGGGA
*
19951432 TACTTCGACCTT-GAGTCGATAAGGCACTATAAGTGTCATACTGT
1 TACTTCGA-CTTCGAGTCGATAAGGCACTATAAGTGTCATACTGC
* ** *
19951476 TACTTCGACTTCGAGTCGATGAGGCACTATGTGTGTCGTACTGC
1 TACTTCGACTTCGAGTCGATAAGGCACTATAAGTGTCATACTGC
19951520 TACT
1 TACT
19951524 GTTACATCGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 3 0.07
44 39 0.93
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.33
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATAAGGCACTATAAGTGTCATACTGC
Found at i:19953022 original size:27 final size:27
Alignment explanation
Indices: 19952985--19953039 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
19952975 AATTAGGGAC
*
19952985 TAAATTGAATAAATTGCAAAACCTGGA
1 TAAATTAAATAAATTGCAAAACCTGGA
19953012 TAAATTAAATAAATTGCAAAACCTGGA
1 TAAATTAAATAAATTGCAAAACCTGGA
19953039 T
1 T
19953040 TCTAGAAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (27 bp):
TAAATTAAATAAATTGCAAAACCTGGA
Found at i:19967322 original size:24 final size:24
Alignment explanation
Indices: 19967291--19967338 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19967281 TGAGTGAATG
19967291 TGTGATAATTATATGTGGCAAATA
1 TGTGATAATTATATGTGGCAAATA
19967315 TGTGATAATTATATGTGGCAAATA
1 TGTGATAATTATATGTGGCAAATA
19967339 CTAAATGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.38
Consensus pattern (24 bp):
TGTGATAATTATATGTGGCAAATA
Done.