Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 237 of 335
Found at i:71779039 original size:58 final size:58
Alignment explanation
Indices: 71778939--71779071 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
71778929 GTGACGAGAT
* * * * * *
71778939 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
71778997 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
71779055 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
71779072 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:71781755 original size:13 final size:13
Alignment explanation
Indices: 71781737--71781761 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71781727 TAATTTTTAT
71781737 CTCCATCAATTAC
1 CTCCATCAATTAC
71781750 CTCCATCAATTA
1 CTCCATCAATTA
71781762 TATATTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (13 bp):
CTCCATCAATTAC
Found at i:71785868 original size:28 final size:28
Alignment explanation
Indices: 71785836--71785934 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
71785826 GCCATAAGCC
*
71785836 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
71785864 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
71785892 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
71785921 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71785935 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:71795075 original size:16 final size:16
Alignment explanation
Indices: 71795056--71795086 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71795046 CTTCTTCACT
71795056 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
71795072 TACTTACTTACTTAA
1 TACTCACTTACTTAA
71795087 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:71795092 original size:20 final size:20
Alignment explanation
Indices: 71795053--71795092 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
71795043 AAACTTCTTC
* *
71795053 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
71795073 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
71795093 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:71795389 original size:53 final size:53
Alignment explanation
Indices: 71795260--71795514 Score: 243
Period size: 55 Copynumber: 4.8 Consensus size: 53
71795250 ACACGGTTAC
* * * * *
71795260 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATTCTT---TT-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
71795309 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * *
71795362 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCATTACAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTT--AGAAA
* * * * *
71795417 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
71795470 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
71795515 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
49 39 0.23
52 4 0.02
53 45 0.27
54 9 0.05
55 69 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:71795451 original size:108 final size:110
Alignment explanation
Indices: 71795307--71795504 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
71795297 ATTCTTTTGA
* * *
71795307 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTA-GAAACCTCACCAA
71795370 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCATTACAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCATTACAGT
* * *
71795415 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAAACCTCACCAAT
71795480 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
71795505 CGGTATCCTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCATTACAGT
Found at i:71797618 original size:23 final size:23
Alignment explanation
Indices: 71797556--71797692 Score: 79
Period size: 23 Copynumber: 5.9 Consensus size: 23
71797546 CCATGATTGG
*
71797556 TAAGCTCCTTCTGAGCTGATGAAC-A
1 TAAGCTCC-ACTGAGCTGA--AACGA
* * *
71797581 GTAAGCTCTATTGAGCTGAAATGA
1 -TAAGCTCCACTGAGCTGAAACGA
*
71797605 TAAGCTCCACTGAGCTGAAACGG
1 TAAGCTCCACTGAGCTGAAACGA
*
71797628 TAAGCTCTA-TCGAGCT-AAAC-A
1 TAAGCTCCACT-GAGCTGAAACGA
*
71797649 GTAAGCT-CA-TAAGAGCTGAAACGG
1 -TAAGCTCCACT--GAGCTGAAACGA
* *
71797673 TAAGCTCCAATGTGCTGAAA
1 TAAGCTCCACTGAGCTGAAA
71797693 ATAGTAAGCT
Statistics
Matches: 89, Mismatches: 14, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
21 2 0.02
22 16 0.18
23 52 0.58
24 3 0.03
25 9 0.10
26 7 0.08
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (23 bp):
TAAGCTCCACTGAGCTGAAACGA
Found at i:71804905 original size:28 final size:27
Alignment explanation
Indices: 71804873--71804954 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
71804863 GTCACTAGAT
71804873 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATA-TTTGTGGCAGTGCCACCAGA
** * *
71804901 ACAGATATACGTGGCAGGGCCATCAGA
1 ACAGATATTTGTGGCAGTGCCACCAGA
71804928 ACAGATAATTTGTGGCA-TAGCCACCAG
1 ACAGAT-ATTTGTGGCAGT-GCCACCAG
71804955 GACGCTTCCT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 22 0.50
28 22 0.50
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGTGCCACCAGA
Found at i:71805107 original size:28 final size:28
Alignment explanation
Indices: 71805060--71805151 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
71805050 AAATTAACCC
*
71805060 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
71805088 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
71805116 TAGGGGTATGATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
71805144 TAGGGGTA
1 TAGGGGTA
71805152 CTCTAGTACA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 1 0.02
28 60 0.98
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:71812788 original size:55 final size:56
Alignment explanation
Indices: 71812723--71812837 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
71812713 AGCATGGCTG
* *
71812723 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
71812779 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
71812834 CCAG
1 CCAG
71812838 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:71812800 original size:27 final size:27
Alignment explanation
Indices: 71812748--71812837 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
71812738 GTGACAGAGT
71812748 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
71812777 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
71812804 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
71812832 CACCAG
1 CACCAG
71812838 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:71812996 original size:28 final size:27
Alignment explanation
Indices: 71812943--71813007 Score: 112
Period size: 28 Copynumber: 2.4 Consensus size: 27
71812933 AAATTAACCC
*
71812943 TAGGGGTATAAGGTCATTTTGCATACA
1 TAGGGGTATAAGGTAATTTTGCATACA
71812970 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAA-GGTAATTTTGCATACA
71812998 TAGGGGTATA
1 TAGGGGTATA
71813008 TCATATAGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 11 0.31
28 25 0.69
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (27 bp):
TAGGGGTATAAGGTAATTTTGCATACA
Found at i:71813283 original size:8 final size:8
Alignment explanation
Indices: 71813267--71813298 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
71813257 CCCAAAATAC
71813267 CGGCTTTT
1 CGGCTTTT
*
71813275 CGGCATTT
1 CGGCTTTT
71813283 CGGCTTTT
1 CGGCTTTT
71813291 CGGCTTTT
1 CGGCTTTT
71813299 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:71820684 original size:32 final size:32
Alignment explanation
Indices: 71820630--71820728 Score: 96
Period size: 32 Copynumber: 3.1 Consensus size: 32
71820620 TATGTTTGAC
*
71820630 ATAACT-AAGTGTGTATATATGTGTAGTTGGAT
1 ATAACTGAA-TGTCTATATATGTGTAGTTGGAT
*
71820662 A-AAGTTGAATGTCTATATATGTGT-GATTGGAT
1 ATAA-CTGAATGTCTATATATGTGTAG-TTGGAT
* * * *
71820694 ATAACTGAATGTGTATCTAGGTGTAGTTTGAT
1 ATAACTGAATGTCTATATATGTGTAGTTGGAT
71820726 ATA
1 ATA
71820729 GCCGATTGAG
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
31 3 0.05
32 47 0.85
33 5 0.09
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.40
Consensus pattern (32 bp):
ATAACTGAATGTCTATATATGTGTAGTTGGAT
Found at i:71820911 original size:27 final size:26
Alignment explanation
Indices: 71820880--71820971 Score: 96
Period size: 27 Copynumber: 3.5 Consensus size: 26
71820870 AAGGATGCAT
71820880 TAAGTGTGCGAATTTGATATTGAGCAC
1 TAAGTGTGCGAATTTGAT-TTGAGCAC
* * *
71820907 TAAGTGTGCGAGTTGGATTTAAGCAC
1 TAAGTGTGCGAATTTGATTTGAGCAC
* * *
71820933 TATGTGTGTGAATTAAT-TTTTGAGCAC
1 TAAGTGTGCGAATT--TGATTTGAGCAC
71820960 TAAGTGTGCGAA
1 TAAGTGTGCGAA
71820972 ATCAGTTATT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 18 0.35
27 34 0.65
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.35
Consensus pattern (26 bp):
TAAGTGTGCGAATTTGATTTGAGCAC
Found at i:71829227 original size:49 final size:49
Alignment explanation
Indices: 71829173--71829587 Score: 704
Period size: 49 Copynumber: 8.5 Consensus size: 49
71829163 GATATACATA
71829173 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
** *
71829222 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
71829271 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
** *
71829320 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
71829369 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
* ** *
71829418 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGGGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
* *
71829467 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTTTG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
*
71829516 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
*
71829565 TACATGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
71829588 TAATGCAAAA
Statistics
Matches: 341, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 341 1.00
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
Found at i:71829747 original size:37 final size:37
Alignment explanation
Indices: 71829688--71829808 Score: 199
Period size: 37 Copynumber: 3.3 Consensus size: 37
71829678 GGAATATGTT
* *
71829688 CCGGGTGAGA-CCGATGATTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
71829724 CTGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
71829761 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
71829798 CCGGGTAAGAC
1 CCGGGTAAGAC
71829809 TTCTTTTATA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 8 0.10
37 71 0.90
ACGTcount: A:0.26, C:0.17, G:0.34, T:0.23
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:71831847 original size:15 final size:16
Alignment explanation
Indices: 71831827--71831856 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
71831817 GAAAATTGCC
71831827 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
71831842 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
71831857 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:71834484 original size:18 final size:18
Alignment explanation
Indices: 71834458--71834510 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
71834448 AAAATTCCTG
*
71834458 TAATTATAATGAAAATAA
1 TAATAATAATGAAAATAA
**
71834476 TAATAATAATTCAAATAA
1 TAATAATAATGAAAATAA
71834494 TAATAACATAATGAAAA
1 TAAT-A-ATAATGAAAA
71834511 CCTTATTACA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 19 0.68
19 1 0.04
20 8 0.29
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
TAATAATAATGAAAATAA
Found at i:71835400 original size:28 final size:29
Alignment explanation
Indices: 71835368--71835481 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
71835358 TACCTATATC
* *
71835368 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
71835396 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
71835425 TGGCCCATTAGGCCCAAATGACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
71835454 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
71835482 ATCATGCTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 25 0.34
29 48 0.65
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:71835467 original size:58 final size:57
Alignment explanation
Indices: 71835359--71835469 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
71835349 AATTTCACAT
* *
71835359 ACCTATATCTGGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * * *
71835416 ACCTGTATATGGCCCATTAGGCCCAAATGACATTTATATGGCCCGTTAGGCCCA
1 ACCTATATATGGCCCATTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCA
71835470 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (57 bp):
ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:71835618 original size:55 final size:54
Alignment explanation
Indices: 71835552--71835663 Score: 190
Period size: 55 Copynumber: 2.0 Consensus size: 54
71835542 GGCCTAACAG
71835552 CCCATCGGGCCCATTTACCCCATTCCTT-CCCATATGGCCAAATCACAACCCAAGT
1 CCCATCGGGCCCATTTACCCCATT--TTGCCCATATGGCCAAATCACAACCCAAGT
71835607 CCCATCGGGCCCATTTACCCCATTTTGGCCCATATGGCCAAATCACAACCCAAGT
1 CCCATCGGGCCCATTTACCCCATTTT-GCCCATATGGCCAAATCACAACCCAAGT
71835662 CC
1 CC
71835664 ACGAAATTGC
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
53 2 0.04
55 53 0.96
ACGTcount: A:0.25, C:0.41, G:0.12, T:0.21
Consensus pattern (54 bp):
CCCATCGGGCCCATTTACCCCATTTTGCCCATATGGCCAAATCACAACCCAAGT
Found at i:71835773 original size:16 final size:16
Alignment explanation
Indices: 71835754--71835806 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
71835744 AAACTTTCGA
* *
71835754 CTTTTCGACATTTCGG
1 CTTTTCGGCATTTCAG
*
71835770 CTTTTCGGCATTTTAG
1 CTTTTCGGCATTTCAG
71835786 CTTTTCGGCATTTCAG
1 CTTTTCGGCATTTCAG
71835802 CTTTT
1 CTTTT
71835807 GCCGATACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (16 bp):
CTTTTCGGCATTTCAG
Found at i:71837776 original size:16 final size:16
Alignment explanation
Indices: 71837750--71837793 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
71837740 AGTAGATCGG
*
71837750 CAAAA-GCCGAAAAGT
1 CAAAATGCCGAAAAGC
71837765 CAAAATGCCGAAAAGC
1 CAAAATGCCGAAAAGC
*
71837781 CAAAATGTCGAAA
1 CAAAATGCCGAAA
71837794 GTTTGGTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.52, C:0.20, G:0.18, T:0.09
Consensus pattern (16 bp):
CAAAATGCCGAAAAGC
Found at i:71838084 original size:29 final size:29
Alignment explanation
Indices: 71838005--71838156 Score: 150
Period size: 29 Copynumber: 5.3 Consensus size: 29
71837995 GTGAGCATGA
* **
71838005 ATAT-AATGTGATTTGGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* * * *
71838033 ATATAAATGAG-ATTGGACCTAATGAGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
71838061 ATATGAATGTGAATTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* ** *
71838090 ATATGAACGTGAATTGGGCCGGATGGGCT
1 ATATGAATGTGAATTGGGCCTAATGGGCC
*
71838119 ATAT-AAT-TGAGATTGGGCCTAGTGGGCC
1 ATATGAATGTGA-ATTGGGCCTAATGGGCC
*
71838147 ATATGCATGT
1 ATATGAATGT
71838157 ATGTAGGGGT
Statistics
Matches: 99, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
27 3 0.03
28 44 0.44
29 51 0.52
30 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTAATGGGCC
Found at i:71842443 original size:18 final size:17
Alignment explanation
Indices: 71842420--71842453 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
71842410 TAGCTGTGCC
71842420 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
71842438 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
71842454 TTCTTCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:71843601 original size:25 final size:25
Alignment explanation
Indices: 71843572--71843619 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
71843562 TTATAATATG
* * *
71843572 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
71843597 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
71843620 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:71843670 original size:9 final size:9
Alignment explanation
Indices: 71843658--71843714 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
71843648 TTTGATAAAC
71843658 ATGATATGT
1 ATGATATGT
*
71843667 ATGATATGCAC
1 ATGATATG--T
*
71843678 ATGACATGT
1 ATGATATGT
*
71843687 ATGATATGCAC
1 ATGATATG--T
71843698 ATGATATGT
1 ATGATATGT
71843707 ATGATATG
1 ATGATATG
71843715 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:71843681 original size:20 final size:20
Alignment explanation
Indices: 71843656--71843718 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
71843646 ATTTTGATAA
71843656 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
71843676 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
71843696 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71843716 ACA
1 ACA
71843719 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:71843815 original size:22 final size:23
Alignment explanation
Indices: 71843774--71843891 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
71843764 AGGAAGTGCA
*
71843774 AAAGAGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71843797 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71843819 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71843842 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
71843865 AAAAAGGGCTT-TGCCTCAGTTATT
1 --AAAGGGCTTATGCCCCAGTTATT
71843889 AAA
1 AAA
71843892 AGAGGCTAGG
Statistics
Matches: 90, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
22 25 0.28
23 44 0.49
24 12 0.13
25 9 0.10
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:71843843 original size:45 final size:47
Alignment explanation
Indices: 71843773--71843891 Score: 190
Period size: 45 Copynumber: 2.6 Consensus size: 47
71843763 GAGGAAGTGC
*
71843773 AAAAGAGCTTATGCCCCAGTTATTAAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
71843819 -AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
71843865 AAAAAGGGCTT-TGCCTCAGTTATTAAA
1 -AAAAGGGCTTATGCCCCAGTTATTAAA
71843892 AGAGGCTAGG
Statistics
Matches: 68, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
45 34 0.50
46 10 0.15
47 15 0.22
48 9 0.13
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:71846119 original size:44 final size:45
Alignment explanation
Indices: 71846021--71846151 Score: 210
Period size: 44 Copynumber: 2.9 Consensus size: 45
71846011 AATAAACAAT
*
71846021 CAAAGCTATATCAATCTCGCACACTAAGTGCCAATATATATACAGC
1 CAAAGCTATCTCAATCTCGCACACTAAGTGCCAATATATATA-AGC
*
71846067 CAAAGCTATCTCAATCACGCACACTAAGTGCCAATATATAT-AGC
1 CAAAGCTATCTCAATCTCGCACACTAAGTGCCAATATATATAAGC
**
71846111 CAAAGCTATCTCGGTCTCGCACACTAAGTGCCAATATATAT
1 CAAAGCTATCTCAATCTCGCACACTAAGTGCCAATATATAT
71846152 CTGAAGTTAT
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 41 0.51
46 39 0.49
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (45 bp):
CAAAGCTATCTCAATCTCGCACACTAAGTGCCAATATATATAAGC
Found at i:71846163 original size:42 final size:43
Alignment explanation
Indices: 71846023--71846184 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 43
71846013 TAAACAATCA
* *
71846023 AAGCTATATCAATCTCGCACACTAAGTGCCAATATATATACAG
1 AAGCTATCTCGATCTCGCACACTAAGTGCCAATATATATACAG
* *
71846066 CCAAAGCTATCTCAATCACGCACACTAAGTGCCAATATATATAGCCA-
1 ---AAGCTATCTCGATCTCGCACACTAAGTGCCAATATATATA--CAG
* *
71846113 AAGCTATCTCGGTCTCGCACACTAAGTGCCAATATATAT-CTG
1 AAGCTATCTCGATCTCGCACACTAAGTGCCAATATATATACAG
* * * *
71846155 AAGTTATCTCGATTTCGTACACTAAATGCC
1 AAGCTATCTCGATCTCGCACACTAAGTGCC
71846185 CATAATTAGT
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.01
42 25 0.25
44 36 0.35
46 38 0.37
48 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.27
Consensus pattern (43 bp):
AAGCTATCTCGATCTCGCACACTAAGTGCCAATATATATACAG
Found at i:71848242 original size:12 final size:13
Alignment explanation
Indices: 71848206--71848243 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
71848196 AAATATTTAA
71848206 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
71848219 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
71848233 CTTG-TCTTAAT
1 CTTGTTCTTAAT
71848244 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:71863854 original size:12 final size:13
Alignment explanation
Indices: 71863818--71863855 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
71863808 AAATATTTGA
71863818 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
71863831 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
71863845 CTTG-TCTTAAT
1 CTTGTTCTTAAT
71863856 GCTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:71864456 original size:24 final size:24
Alignment explanation
Indices: 71864429--71864476 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
71864419 ATGATAATAG
*
71864429 TTAGTTTCAAGAACGATTAATTAT
1 TTAGTTTCAAGAACGAGTAATTAT
*
71864453 TTAGTTTCATGAACGAGTAATTAT
1 TTAGTTTCAAGAACGAGTAATTAT
71864477 AAATTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (24 bp):
TTAGTTTCAAGAACGAGTAATTAT
Found at i:71867843 original size:20 final size:20
Alignment explanation
Indices: 71867820--71867857 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
71867810 AAGTAAATGA
71867820 AATGAAAAGTAAATAAATAG
1 AATGAAAAGTAAATAAATAG
* *
71867840 AATGATAAGTAAGTAAAT
1 AATGAAAAGTAAATAAAT
71867858 GGAGTGGTTC
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:0.61, C:0.00, G:0.16, T:0.24
Consensus pattern (20 bp):
AATGAAAAGTAAATAAATAG
Found at i:71869205 original size:17 final size:19
Alignment explanation
Indices: 71869170--71869206 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
71869160 TTTAATTAGC
71869170 ATTATGAGATAAAATTATT
1 ATTATGAGATAAAATTATT
*
71869189 ATTATTAGA-AAAA-TATT
1 ATTATGAGATAAAATTATT
71869206 A
1 A
71869207 CTATAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTATGAGATAAAATTATT
Found at i:71871655 original size:25 final size:25
Alignment explanation
Indices: 71871626--71871673 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
71871616 TTATAAAATG
* *
71871626 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
71871651 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
71871674 GTTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:71871740 original size:20 final size:20
Alignment explanation
Indices: 71871717--71871755 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
71871707 TAAACATGGT
71871717 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
71871737 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
71871756 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:71871832 original size:24 final size:24
Alignment explanation
Indices: 71871805--71871953 Score: 203
Period size: 24 Copynumber: 6.2 Consensus size: 24
71871795 GGAGGAAGTG
71871805 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
71871829 TAAATAGGGGTTACGCCCCAGTTAT
1 TAAA-AGGGCTTATGCCCCAGTTAT
* *
71871854 CAAAAGAGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
71871878 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* * *
71871901 CAAAAGGGCTTACGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
71871925 T-AAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
71871948 TAAAAG
1 TAAAAG
71871954 AGGCAAAGCC
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
23 41 0.38
24 45 0.42
25 21 0.20
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:71871887 original size:23 final size:23
Alignment explanation
Indices: 71871807--71871951 Score: 182
Period size: 23 Copynumber: 6.1 Consensus size: 23
71871797 AGGAAGTGTA
71871807 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* * *
71871830 AAATAGGGGTTACGCCCCAGTTATCA
1 -AA-AGGGCTTATGCCCCAGTTAT-T
*
71871856 AAAGAGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
71871879 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
71871903 AAAGGGCTTACGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
71871926 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
71871949 AAA
1 AAA
71871952 AGAGGCAAAG
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
23 44 0.43
24 39 0.38
25 20 0.19
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:71871912 original size:47 final size:47
Alignment explanation
Indices: 71871806--71871953 Score: 215
Period size: 47 Copynumber: 3.1 Consensus size: 47
71871796 GAGGAAGTGT
* *
71871806 AAAAGGGCTTATGCCCCAGTTATTAAATAGGGGTTACGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT-AA-AGGGCTTATGCCCCAGTTATC
*
71871855 AAAAGAGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* * * *
71871902 AAAAGGGCTTACGCCCTAGTTATTAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
71871949 AAAAG
1 AAAAG
71871954 AGGCAAAGCC
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 66 0.73
48 2 0.02
49 23 0.25
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:71875991 original size:40 final size:40
Alignment explanation
Indices: 71875934--71876151 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
71875924 CGGATGGTAA
* * * *
71875934 CCGGGCTAGGTCTCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
71875974 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
71876014 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71876054 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71876094 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
71876134 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
71876152 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.10
40 150 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:71884264 original size:40 final size:40
Alignment explanation
Indices: 71884209--71884426 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
71884199 CGGATGGTAA
* *
71884209 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
71884249 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71884289 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71884329 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71884369 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
** *
71884409 -TTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
71884427 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:71888032 original size:26 final size:27
Alignment explanation
Indices: 71887996--71888048 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
71887986 TATCAGCTAG
* *
71887996 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
71888022 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
71888049 CAGAATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:71889926 original size:45 final size:45
Alignment explanation
Indices: 71889874--71890081 Score: 310
Period size: 45 Copynumber: 4.6 Consensus size: 45
71889864 CGGGCTTCGG
*
71889874 GCCTAGCAAGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
*
71889919 GCCTAGCAGGCTATGATGCTGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* *
71889964 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* * **
71890009 GCCTAGCAGGCTATAATGCCGGTGAGATACTATTTAGG-CTTTCGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT-GA
* *
71890054 GCCTAGCAGGCTATAATACCGGTGAAAT
1 GCCTAGCAGGCTATGATGCCGGTGAAAT
71890082 GATATCGGGC
Statistics
Matches: 151, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
44 4 0.03
45 147 0.97
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (45 bp):
GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
Found at i:71890033 original size:90 final size:89
Alignment explanation
Indices: 71889869--71890119 Score: 305
Period size: 90 Copynumber: 2.8 Consensus size: 89
71889859 GATATCGGGC
* * * *
71889869 TTCGGGCCTAGCAAGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGAGCCTAGCAGGCTATG
1 TTCGAGCCTAGCAGGCTATGATGCCGGTG-AATATTATTCGGGCCTTTGAGCCTAGCAGGCTATA
* *
71889934 ATGCTGGTGAAATACTATTCGGGCCT
65 ATGCCGGTGAAATACTATTCAGG-CT
71889960 TT-GAGCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGCCTTTGAGCCTAGCAGGCTATA
1 TTCGAGCCTAGCAGGCTATGATGCCGGTGA-ATATTATTCGGGCCTTTGAGCCTAGCAGGCTATA
* *
71890024 ATGCCGGTGAGATACTATTTAGGCT
65 ATGCCGGTGAAATACTATTCAGGCT
* * * ** *
71890049 TTCGAGCCTAGCAGGCTATAATACCGGTGAA-ATGATATCGGG-C-TAAAGCCTAGCAGGCGA-A
1 TTCGAGCCTAGCAGGCTATGATGCCGGTGAATATTAT-TCGGGCCTTTGAGCCTAGCAGGCTATA
71890110 ATGCCGGTGA
65 ATGCCGGTGA
71890120 TTAGAGAAAA
Statistics
Matches: 143, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
86 11 0.08
87 14 0.10
88 5 0.03
89 11 0.08
90 100 0.70
91 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (89 bp):
TTCGAGCCTAGCAGGCTATGATGCCGGTGAATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAA
TGCCGGTGAAATACTATTCAGGCT
Found at i:71893607 original size:30 final size:30
Alignment explanation
Indices: 71893573--71893632 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
71893563 TATTTTATTA
71893573 TTAATTTTGTTATTATTTTAAAAGTATTTG
1 TTAATTTTGTTATTATTTTAAAAGTATTTG
* *
71893603 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAAGTATTTG
71893633 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAAGTATTTG
Found at i:71895992 original size:2 final size:2
Alignment explanation
Indices: 71895985--71896010 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
71895975 TGATTCTACG
71895985 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
71896011 TTAAGGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71900942 original size:10 final size:10
Alignment explanation
Indices: 71900923--71900964 Score: 68
Period size: 10 Copynumber: 4.3 Consensus size: 10
71900913 TTTTAGGATT
71900923 TTAT-TTTAA
1 TTATCTTTAA
*
71900932 TCATCTTTAA
1 TTATCTTTAA
71900942 TTATCTTTAA
1 TTATCTTTAA
71900952 TTATCTTTAA
1 TTATCTTTAA
71900962 TTA
1 TTA
71900965 AATGTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
9 3 0.10
10 27 0.90
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:71907306 original size:5 final size:5
Alignment explanation
Indices: 71907276--71907331 Score: 51
Period size: 5 Copynumber: 11.4 Consensus size: 5
71907266 TCTCTTTTTC
* * * * * *
71907276 TATTT CATTT CATTT TAGTT TATTT TGTTT TATTT TAATT TA-TT TATTC
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT
71907325 TATTT TA
1 TATTT TA
71907332 ATTAATAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
4 4 0.10
5 37 0.90
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.70
Consensus pattern (5 bp):
TATTT
Found at i:71907330 original size:19 final size:20
Alignment explanation
Indices: 71907287--71907334 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
71907277 ATTTCATTTC
* * *
71907287 ATTTTAGTTTATTTTGTTTT
1 ATTTTAATTTATTTTATTCT
71907307 ATTTTAATTTA-TTTATTCT
1 ATTTTAATTTATTTTATTCT
71907326 ATTTTAATT
1 ATTTTAATT
71907335 AATAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
ATTTTAATTTATTTTATTCT
Found at i:71910000 original size:4 final size:4
Alignment explanation
Indices: 71909991--71910070 Score: 79
Period size: 4 Copynumber: 18.8 Consensus size: 4
71909981 GTAAGTTAAA
* *
71909991 AAAG AAAG AAAG AAAG AAAG AAAG ATAG AAAG AGTACAG AGAG CAAACG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A--A-AG AAAG -AAA-G
**
71910040 TGAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
71910071 TAGAAAAGGG
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
4 55 0.87
5 3 0.05
6 2 0.03
7 3 0.05
ACGTcount: A:0.66, C:0.04, G:0.26, T:0.04
Consensus pattern (4 bp):
AAAG
Found at i:71919814 original size:97 final size:97
Alignment explanation
Indices: 71919636--71919815 Score: 263
Period size: 97 Copynumber: 1.9 Consensus size: 97
71919626 AATTAATTTC
* **
71919636 TAAGAATGTGTTGGGCTAAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCATCAAA
1 TAAGAATGTGCTGGGCTAAGTAACCGAAGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCATCAAA
* *
71919701 AGGTTCGATATGTTCCTAGGAATAATAAAAAT
66 AGGTACGATATATTCCTAGGAATAATAAAAAT
* * * *
71919733 TAAGAATGTGCTGGGCTGAGTAACCGAAGTGGGGTGCTTGGGTTGTCATCTCTCTTTGCGTCAAA
1 TAAGAATGTGCTGGGCTAAGTAACCGAAGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCATCAAA
71919798 AGGTAC-AGTATATTCCTA
66 AGGTACGA-TATATTCCTA
71919816 AGTGAAAGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 1 0.01
97 72 0.99
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (97 bp):
TAAGAATGTGCTGGGCTAAGTAACCGAAGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCATCAAA
AGGTACGATATATTCCTAGGAATAATAAAAAT
Found at i:71920483 original size:27 final size:26
Alignment explanation
Indices: 71920423--71920484 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
71920413 ATAAGACTCC
71920423 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
71920449 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
71920477 ATTTTATT
1 ATTTTATT
71920485 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:71924368 original size:33 final size:33
Alignment explanation
Indices: 71924326--71924453 Score: 114
Period size: 33 Copynumber: 3.9 Consensus size: 33
71924316 ATGGCCTTAG
* *
71924326 TAGAGTAAGTCTACCAAGAGAGTAAACACAAAA
1 TAGAGTAAGTCCACCAAGACAGTAAACACAAAA
**** * *
71924359 TAGAGTAAGTCCATTGGGACAATAAACACATAA
1 TAGAGTAAGTCCACCAAGACAGTAAACACAAAA
* **
71924392 TAGAGTAAGTCCATCGGGACAGTAAACACAAAA
1 TAGAGTAAGTCCACCAAGACAGTAAACACAAAA
* **
71924425 TAAAGTAAGTCTGCCAAG-CTAGTAAACAC
1 TAGAGTAAGTCCACCAAGAC-AGTAAACAC
71924454 GGAACAAATA
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
32 1 0.01
33 76 0.99
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.18
Consensus pattern (33 bp):
TAGAGTAAGTCCACCAAGACAGTAAACACAAAA
Found at i:71932057 original size:21 final size:21
Alignment explanation
Indices: 71932033--71932090 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
71932023 CACACGGCCG
71932033 TGTGACTAAGGCACAC-ACTCA
1 TGTGACTAAGGCACACGACT-A
** *
71932054 TGTGAAGAGAGGCACACGACTG
1 TGTGACTA-AGGCACACGACTA
*
71932076 TATGACTAAGGCACA
1 TGTGACTAAGGCACA
71932091 TGCCCGTGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 13 0.45
22 13 0.45
23 3 0.10
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.17
Consensus pattern (21 bp):
TGTGACTAAGGCACACGACTA
Found at i:71932731 original size:25 final size:24
Alignment explanation
Indices: 71932702--71932759 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
71932692 CCACTTTTCC
*
71932702 AAAAAGAAAGAGAAGAAGCCAAAAA
1 AAAAAGAAA-AGAAAAAGCCAAAAA
**
71932727 GAAAACCAAAAGAAAAAGCCAAAAA
1 -AAAAAGAAAAGAAAAAGCCAAAAA
71932752 AAAAAGAA
1 AAAAAGAA
71932760 TACTGTCCAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 6 0.22
25 14 0.52
26 7 0.26
ACGTcount: A:0.74, C:0.10, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAAGAAAAAGCCAAAAA
Found at i:71932750 original size:13 final size:13
Alignment explanation
Indices: 71932712--71932757 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
71932702 AAAAAGAAAG
*
71932712 AGAAGAAGCCAAA
1 AGAAAAAGCCAAA
71932725 A-AGAAAA-CCAAA
1 AGA-AAAAGCCAAA
71932737 AGAAAAAGCCAAA
1 AGAAAAAGCCAAA
*
71932750 AAAAAAAG
1 AGAAAAAG
71932758 AATACTGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.72, C:0.13, G:0.15, T:0.00
Consensus pattern (13 bp):
AGAAAAAGCCAAA
Found at i:71934456 original size:20 final size:20
Alignment explanation
Indices: 71934424--71934461 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
71934414 AGTTTCACAT
71934424 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
71934444 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
71934462 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:71934971 original size:18 final size:18
Alignment explanation
Indices: 71934948--71934986 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
71934938 TACTTTTCTC
71934948 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
71934966 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
71934984 TTT
1 TTT
71934987 TTTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:71935172 original size:38 final size:39
Alignment explanation
Indices: 71935088--71935180 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
71935078 ACCAATATGG
*
71935088 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
71935127 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* *
71935165 TACCCAGTACCTCATC
1 CACCCAGTGCCTCATC
71935181 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
38 18 0.39
39 25 0.54
40 3 0.07
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:71935219 original size:40 final size:40
Alignment explanation
Indices: 71935112--71935220 Score: 93
Period size: 38 Copynumber: 2.8 Consensus size: 40
71935102 TCGGATAGTT
**
71935112 CGAAGTAATAG-T-TGACACCCAGTGTCTCATCGGCCTAGC
1 CGAAGTAA-AGTTGTGACACCCAGTGTCTCATCAACCTAGC
* ** * *
71935151 CGAAGTAAAGTTG-G-TACCCAGTACCTCATCAATCTATC
1 CGAAGTAAAGTTGTGACACCCAGTGTCTCATCAACCTAGC
*
71935189 CGAAG-AAATTTAGTGACACCCAGTGTCTCATC
1 CGAAGTAAAGTT-GTGACACCCAGTGTCTCATC
71935221 GACTCGAGGT
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
37 5 0.09
38 25 0.46
39 11 0.20
40 13 0.24
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
CGAAGTAAAGTTGTGACACCCAGTGTCTCATCAACCTAGC
Found at i:71936139 original size:12 final size:12
Alignment explanation
Indices: 71936124--71936154 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
71936114 TTCTCTTTTA
71936124 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
71936136 TTTTTCTTTCTC
1 TTTTTCTTTCCC
71936148 TTTTTCT
1 TTTTTCT
71936155 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:71938754 original size:62 final size:64
Alignment explanation
Indices: 71938687--71938812 Score: 220
Period size: 63 Copynumber: 2.0 Consensus size: 64
71938677 GATAAAATTG
*
71938687 GAAAGATAAAAAAATAAATATGAT-AATAATAAAATAAAGAAAATATCATCA-TTTATCATCAT
1 GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATCATCATTTTATCATCAT
*
71938749 GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATTATCATTTTATCATCAT
1 GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATCATCATTTTATCATCAT
71938813 CTTTCCCAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 23 0.38
63 26 0.43
64 11 0.18
ACGTcount: A:0.60, C:0.06, G:0.07, T:0.28
Consensus pattern (64 bp):
GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATCATCATTTTATCATCAT
Found at i:71940706 original size:20 final size:20
Alignment explanation
Indices: 71940681--71940724 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
71940671 AAATAGGTTA
*
71940681 GTACGAGACTATACAAGTAT
1 GTACGAGACGATACAAGTAT
* *
71940701 GTACGAGACGATATAGGTAT
1 GTACGAGACGATACAAGTAT
71940721 GTAC
1 GTAC
71940725 AGAACCTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (20 bp):
GTACGAGACGATACAAGTAT
Found at i:71940871 original size:27 final size:27
Alignment explanation
Indices: 71940841--71940894 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
71940831 TTTATTCTAT
71940841 GAATTAAGTTATTTACATGCGAGCTTA
1 GAATTAAGTTATTTACATGCGAGCTTA
71940868 GAATTAAGTTATTTACATGCGAGCTTA
1 GAATTAAGTTATTTACATGCGAGCTTA
71940895 CTAAGCTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (27 bp):
GAATTAAGTTATTTACATGCGAGCTTA
Found at i:71952827 original size:40 final size:40
Alignment explanation
Indices: 71952748--71952924 Score: 173
Period size: 40 Copynumber: 4.5 Consensus size: 40
71952738 CAGATGATAA
* * ** *
71952748 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGTGAGTTGCTATAT
* * * *
71952788 CTGGGCTATGTCCCGAAGGCATTTATGCT-AG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATG-TGAGTTG-CTATAT
*
71952828 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGTGAGTTGCTATAT
** * *
71952868 CCGGGCTAAGACCCGAAGGCATTGGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGTGAGTTGCTATAT
71952908 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
71952925 ATACTTGGGT
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 16 0.14
40 96 0.83
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGTGAGTTGCTATAT
Found at i:71952886 original size:80 final size:80
Alignment explanation
Indices: 71952748--71952924 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 80
71952738 CAGATGATAA
* * * * * *
71952748 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCTGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTGA
*
71952813 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* * *
71952828 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTGG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTGA
71952893 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
71952908 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
71952925 ATACTTGGGT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 69 0.81
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTGA
TGCGAGTTGTTATAT
Found at i:71953192 original size:22 final size:22
Alignment explanation
Indices: 71953152--71953193 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
71953142 GAATGTGCAT
*
71953152 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
71953174 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
71953194 TAAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:71962381 original size:14 final size:14
Alignment explanation
Indices: 71962362--71962391 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
71962352 AAGCAAGTTT
71962362 GAGTTTCTTAGAAA
1 GAGTTTCTTAGAAA
71962376 GAGTTTCTTAGAAA
1 GAGTTTCTTAGAAA
71962390 GA
1 GA
71962392 AACTTGGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (14 bp):
GAGTTTCTTAGAAA
Found at i:71974800 original size:92 final size:99
Alignment explanation
Indices: 71974686--71974910 Score: 279
Period size: 99 Copynumber: 2.3 Consensus size: 99
71974676 TATGAGAGCC
* * * * *
71974686 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TA-A-GACGAGTGCTAGTGTAAGAC-ATG
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGACATG-CGAGAGCTAGTATAAAACAATG
* *
71974747 TCTGGGACAT-GCATCGG-CTAC-AAGAT-GT-GTT
65 TCTGGGACATGGCATCGGCCT-CGAAGATAATAGCT
**
71974778 AGTGTAAGACCATGTCCAGGACATGGCATTGGCACGGACATGCGAGAGCTAGTATAAAACAATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGACATGCGAGAGCTAGTATAAAACAATGT
*
71974843 CTGGGACATGGCATCGGCCTCGATGATAATAGCT
66 CTGGGACATGGCATCGGCCTCGAAGATAATAGCT
71974877 AGTGTAAGACCATGTCTGGGACATGGCATTGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCA
71974911 ACTTACCCCA
Statistics
Matches: 112, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
92 32 0.29
93 1 0.01
94 16 0.14
95 14 0.12
96 8 0.07
97 6 0.05
98 1 0.01
99 34 0.30
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (99 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGACATGCGAGAGCTAGTATAAAACAATGT
CTGGGACATGGCATCGGCCTCGAAGATAATAGCT
Found at i:71974927 original size:32 final size:32
Alignment explanation
Indices: 71974886--71974955 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
71974876 TAGTGTAAGA
71974886 CCATGTCTGGGACATGGCATTGGCAACTTACC
1 CCATGTCTGGGACATGGCATTGGCAACTTACC
*
71974918 CCATGTCTGGGACATTGCATTGGCAACTTACC
1 CCATGTCTGGGACATGGCATTGGCAACTTACC
71974950 CCATGT
1 CCATGT
71974956 TTAAGGCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (32 bp):
CCATGTCTGGGACATGGCATTGGCAACTTACC
Found at i:71977571 original size:36 final size:38
Alignment explanation
Indices: 71977516--71977590 Score: 136
Period size: 36 Copynumber: 2.0 Consensus size: 38
71977506 AGTTAAAAAT
71977516 TAGTATTTTGTATTATATATATATAAATAGATTAATTA
1 TAGTATTTTGTATTATATATATATAAATAGATTAATTA
71977554 TAGTATTTTGTA-T-TATATATATAAATAGATTAATTA
1 TAGTATTTTGTATTATATATATATAAATAGATTAATTA
71977590 T
1 T
71977591 CACCTAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 24 0.65
37 1 0.03
38 12 0.32
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (38 bp):
TAGTATTTTGTATTATATATATATAAATAGATTAATTA
Found at i:71978059 original size:25 final size:22
Alignment explanation
Indices: 71978019--71978067 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
71978009 TAGATAATAT
71978019 ATATATTTTTAAAAATTATAAAA
1 ATATATTTTTAAAAATT-TAAAA
*
71978042 ATATATTATTTGATAAATTTAAAA
1 ATATATT-TTT-AAAAATTTAAAA
71978066 AT
1 AT
71978068 TCCAACACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 10 0.43
25 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATATATTTTTAAAAATTTAAAA
Found at i:71986494 original size:24 final size:22
Alignment explanation
Indices: 71986467--71986556 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 22
71986457 ACAACCTATC
71986467 GGAACGCTCCGAAGAGCTATAACG
1 GGAA-GCT-CGAAGAGCTATAACG
* *
71986491 GGAAGCTCACAAGAACCTTATAACG
1 GGAAGCTC-GAAG-AGC-TATAACG
*
71986516 GGAAGCTCGAGAGAGCTAATAATG
1 GGAAGCTCGA-AGAGCT-ATAACG
*
71986540 GGACGCTCGTAAGAGCT
1 GGAAGCTCG-AAGAGCT
71986557 GTGGTGTGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
22 1 0.02
23 7 0.13
24 28 0.52
25 18 0.33
ACGTcount: A:0.34, C:0.21, G:0.29, T:0.16
Consensus pattern (22 bp):
GGAAGCTCGAAGAGCTATAACG
Found at i:71990139 original size:26 final size:26
Alignment explanation
Indices: 71990069--71990139 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
71990059 TCTCATCTCT
*
71990069 ATTTTTCCCTTAGTAAAATTTTGACA
1 ATTTTTCCCTTAGTAAAATTTTAACA
* *
71990095 ATTTTACCCTTGGTAAAATTTTAACA
1 ATTTTTCCCTTAGTAAAATTTTAACA
*
71990121 ATTTTGTCCC-TAGTGAAAT
1 ATTTT-TCCCTTAGTAAAAT
71990140 CTCAAGAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 35 0.92
27 3 0.08
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (26 bp):
ATTTTTCCCTTAGTAAAATTTTAACA
Found at i:71994228 original size:63 final size:63
Alignment explanation
Indices: 71994124--71994253 Score: 145
Period size: 63 Copynumber: 2.1 Consensus size: 63
71994114 GGGCAAGCCG
* * ** * *
71994124 TGTAACTCACTATTTGTGCTTAAGTGTCATACGGGTTAGGGACAC-GGACGTGTGTCCAGGCTA
1 TGTAACTCACTATTTGTGCTTAAGAGTCACACGGGCCAGGGACACAAG-CATGTGTCCAGGCTA
* * * * *
71994187 TGTAACTCGCTGTTTGTGCTTAAGAGTTACATGGGCCAGGGACACAAGCATGTGTCCAGGCTG
1 TGTAACTCACTATTTGTGCTTAAGAGTCACACGGGCCAGGGACACAAGCATGTGTCCAGGCTA
71994250 TGTA
1 TGTA
71994254 CAACATCAGG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
63 54 0.98
64 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (63 bp):
TGTAACTCACTATTTGTGCTTAAGAGTCACACGGGCCAGGGACACAAGCATGTGTCCAGGCTA
Found at i:71994859 original size:22 final size:22
Alignment explanation
Indices: 71994831--71994917 Score: 95
Period size: 22 Copynumber: 4.0 Consensus size: 22
71994821 GGGTAAGAAA
*
71994831 CTGCATCTGTATCTGATATGTT
1 CTGCATCTGTATCTGATCTGTT
* *
71994853 CTGCATCTATATCAGATCTGTT
1 CTGCATCTGTATCTGATCTGTT
* * *
71994875 TTACATCTGTATCTGATCTATT
1 CTGCATCTGTATCTGATCTGTT
* *
71994897 CTGCATCT-TACCTGAACTGTT
1 CTGCATCTGTATCTGATCTGTT
71994918 ACGATATTAC
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
21 10 0.19
22 42 0.81
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.44
Consensus pattern (22 bp):
CTGCATCTGTATCTGATCTGTT
Found at i:71998711 original size:33 final size:33
Alignment explanation
Indices: 71998674--71998736 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
71998664 AAAGGGTAAG
71998674 AGAATTTATAATGCCTTAAAAATTATTTTTATT
1 AGAATTTATAATGCCTTAAAAATTATTTTTATT
71998707 AGAATTTATAATGCCTTAAAAATTATTTTT
1 AGAATTTATAATGCCTTAAAAATTATTTTT
71998737 GTTAAAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (33 bp):
AGAATTTATAATGCCTTAAAAATTATTTTTATT
Found at i:71999541 original size:22 final size:22
Alignment explanation
Indices: 71999511--71999580 Score: 104
Period size: 22 Copynumber: 3.2 Consensus size: 22
71999501 AGTTCTAAAG
* *
71999511 TATGAGAACCTATATGTTGATA
1 TATGTGAACCTATATGTTAATA
71999533 TATGTGAACCTATATGTTAATA
1 TATGTGAACCTATATGTTAATA
* *
71999555 TATGTGAACCTAAATGTTTATA
1 TATGTGAACCTATATGTTAATA
71999577 TATG
1 TATG
71999581 CAAGTTTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (22 bp):
TATGTGAACCTATATGTTAATA
Found at i:71999548 original size:12 final size:12
Alignment explanation
Indices: 71999511--71999571 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
71999501 AGTTCTAAAG
*
71999511 TATGAGAACCTA
1 TATGTGAACCTA
71999523 TATGTTG-A--TA
1 TATG-TGAACCTA
71999533 TATGTGAACCTA
1 TATGTGAACCTA
*
71999545 TATGTTAA--TA
1 TATGTGAACCTA
71999555 TATGTGAACCTA
1 TATGTGAACCTA
*
71999567 AATGT
1 TATGT
71999572 TTATATATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
9 2 0.05
10 16 0.41
12 20 0.51
13 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (12 bp):
TATGTGAACCTA
Found at i:71999730 original size:43 final size:43
Alignment explanation
Indices: 71999642--71999739 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
71999632 CTAAGAGAAC
* *
71999642 CCCCATGTTGTGCAAGCCCATGTTTGTGAACCTCTATGAGCGAG
1 CCCC-TGTTGTGCAAGCCCATGTCTATGAACCTCTATGAGCGAG
* * * * * *
71999686 CCTCTGTTGTGCGAGGCCATGTCTATGAACCTTTATGTGTGAG
1 CCCCTGTTGTGCAAGCCCATGTCTATGAACCTCTATGAGCGAG
*
71999729 CCCCTATTGTG
1 CCCCTGTTGTG
71999740 TGAGCCCTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
43 41 0.93
44 3 0.07
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.32
Consensus pattern (43 bp):
CCCCTGTTGTGCAAGCCCATGTCTATGAACCTCTATGAGCGAG
Found at i:71999915 original size:15 final size:15
Alignment explanation
Indices: 71999897--71999944 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
71999887 TATGCGAAAA
71999897 CTAGGTATGTGAACC
1 CTAGGTATGTGAACC
** *
71999912 CTAGGTGCGTGAAAC
1 CTAGGTATGTGAACC
**
71999927 CTATTTATGTGAACC
1 CTAGGTATGTGAACC
71999942 CTA
1 CTA
71999945 CATGTGCGAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (15 bp):
CTAGGTATGTGAACC
Found at i:71999986 original size:14 final size:14
Alignment explanation
Indices: 71999969--72000054 Score: 73
Period size: 14 Copynumber: 6.1 Consensus size: 14
71999959 TCGATATGAG
*
71999969 CCCCTACGTACGAA
1 CCCCTACGTGCGAA
* *
71999983 CCCCTAGGTGCAAA
1 CCCCTACGTGCGAA
* *
71999997 ACCCTAGGTGCGAA
1 CCCCTACGTGCGAA
* *
72000011 CCCCTATGTGCAAA
1 CCCCTACGTGCGAA
* *
72000025 CCCCTAAGTGCAAA
1 CCCCTACGTGCGAA
* *
72000039 CCCCTAGGTGTGAA
1 CCCCTACGTGCGAA
72000053 CC
1 CC
72000055 ATATATGTGA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 60 1.00
ACGTcount: A:0.28, C:0.36, G:0.20, T:0.16
Consensus pattern (14 bp):
CCCCTACGTGCGAA
Found at i:72000001 original size:28 final size:28
Alignment explanation
Indices: 71999970--72000048 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
71999960 CGATATGAGC
* *
71999970 CCCTACGTACGAACCCCTAGGTGCAAAA
1 CCCTAAGTGCGAACCCCTAGGTGCAAAA
* * *
71999998 CCCTAGGTGCGAACCCCTATGTGCAAAC
1 CCCTAAGTGCGAACCCCTAGGTGCAAAA
*
72000026 CCCTAAGTGCAAACCCCTAGGTG
1 CCCTAAGTGCGAACCCCTAGGTG
72000049 TGAACCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.28, C:0.35, G:0.20, T:0.16
Consensus pattern (28 bp):
CCCTAAGTGCGAACCCCTAGGTGCAAAA
Found at i:72000704 original size:123 final size:121
Alignment explanation
Indices: 72000539--72000771 Score: 385
Period size: 123 Copynumber: 1.9 Consensus size: 121
72000529 TTATATTTGG
* * *
72000539 CTATTTTATATCTAAACGATATATATGTGTGTATTTATTTATTGTTTGTTTGTTTATTATTTATT
1 CTATTTTATATCTAAACAATATATATGTGTGTATTTATTTATTGTTTGTTTGATTATTATTTATC
72000604 AACATTATCCGTGAACATGTTCAATTATATGTTCATAAACATGTTTGTTTAATATT
66 AACATTATCCGTGAACATGTTCAATTATATGTTCATAAACATGTTTGTTTAATATT
*
72000660 CTATTTTATATCTAAACAATATATATGTGTATTTATTTATTTATTGTTTGTTTGATTATTATTTA
1 CTATTTTATATCTAAACAATATATATGTG--TGTATTTATTTATTGTTTGTTTGATTATTATTTA
* * *
72000725 TCAACATTGTCTGTGAACATGTTCAATTATATGTTCATGAACATGTT
64 TCAACATTATCCGTGAACATGTTCAATTATATGTTCATAAACATGTT
72000772 CGATCAAGTT
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
121 28 0.27
123 75 0.73
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.52
Consensus pattern (121 bp):
CTATTTTATATCTAAACAATATATATGTGTGTATTTATTTATTGTTTGTTTGATTATTATTTATC
AACATTATCCGTGAACATGTTCAATTATATGTTCATAAACATGTTTGTTTAATATT
Found at i:72012424 original size:40 final size:40
Alignment explanation
Indices: 72012379--72012508 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
72012369 CGGAATATAA
72012379 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
72012419 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
72012459 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
72012499 CCGGATATAA
1 CCGGATATAA
72012509 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:72012523 original size:40 final size:40
Alignment explanation
Indices: 72012395--72012546 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
72012385 ATAAGCATGT
* * *
72012395 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
72012435 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
72012475 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
72012515 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
72012547 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:72012529 original size:80 final size:80
Alignment explanation
Indices: 72012395--72012546 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
72012385 ATAAGCATGT
* *
72012395 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
72012460 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
72012475 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
72012538 CCCGGATAT
64 CCCGGATAT
72012547 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:72016475 original size:17 final size:18
Alignment explanation
Indices: 72016433--72016481 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
72016423 AGTTGAAAAG
72016433 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
72016452 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
72016469 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
72016482 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:72017370 original size:40 final size:40
Alignment explanation
Indices: 72017304--72017470 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
72017294 AAATTGAATG
* * *
72017304 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
72017343 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
72017383 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
72017423 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
72017463 ATATCCGG
1 ATATCCGG
72017471 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:72024495 original size:17 final size:18
Alignment explanation
Indices: 72024453--72024501 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
72024443 AGTTGAAAAG
72024453 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
72024472 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
72024489 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
72024502 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:72025392 original size:40 final size:40
Alignment explanation
Indices: 72025326--72025492 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
72025316 AAATTGAATG
* * *
72025326 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
72025365 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
72025405 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
72025445 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
72025485 ATATCCGG
1 ATATCCGG
72025493 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:72032374 original size:40 final size:40
Alignment explanation
Indices: 72032329--72032458 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
72032319 CGGAATATAA
72032329 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
72032369 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
72032409 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
72032449 CCGGATATAA
1 CCGGATATAA
72032459 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:72032473 original size:40 final size:40
Alignment explanation
Indices: 72032345--72032496 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
72032335 ATAAGCATGT
* * *
72032345 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
72032385 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
72032425 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
72032465 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
72032497 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:72032479 original size:80 final size:80
Alignment explanation
Indices: 72032345--72032496 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
72032335 ATAAGCATGT
* *
72032345 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
72032410 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
72032425 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
72032488 CCCGGATAT
64 CCCGGATAT
72032497 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:72033815 original size:16 final size:16
Alignment explanation
Indices: 72033794--72033827 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
72033784 CATCTTTCTC
* *
72033794 TTTTTTTTTTTTTTTA
1 TTTTTTATTATTTTTA
72033810 TTTTTTATTATTTTTA
1 TTTTTTATTATTTTTA
72033826 TT
1 TT
72033828 ATAATACTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTATTATTTTTA
Found at i:72043851 original size:22 final size:22
Alignment explanation
Indices: 72043823--72043865 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
72043813 TGTTATTAGT
*
72043823 GGTAGTTTATCTGCAAATCAGG
1 GGTAGTTTAACTGCAAATCAGG
72043845 GGTAGTTTAACTGCAAATCAG
1 GGTAGTTTAACTGCAAATCAG
72043866 TGGTGACTTG
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:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (22 bp):
GGTAGTTTAACTGCAAATCAGG
Found at i:72044058 original size:14 final size:14
Alignment explanation
Indices: 72044038--72044074 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
72044028 TTATTATGGT
*
72044038 GATTGATGTGATGA
1 GATTGATATGATGA
*
72044052 TATTGATATGATGA
1 GATTGATATGATGA
72044066 GATTGATAT
1 GATTGATAT
72044075 TTTGATATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (14 bp):
GATTGATATGATGA
Found at i:72044098 original size:22 final size:22
Alignment explanation
Indices: 72044054--72044098 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
72044044 TGTGATGATA
*
72044054 TTGATATGATGAGATTGATATT
1 TTGATATGATGAGATTGACATT
*
72044076 TTGATATGTATGTGATT-ACATT
1 TTGATATG-ATGAGATTGACATT
72044098 T
1 T
72044099 GTGTTGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (22 bp):
TTGATATGATGAGATTGACATT
Found at i:72048172 original size:79 final size:79
Alignment explanation
Indices: 72048025--72048212 Score: 225
Period size: 79 Copynumber: 2.4 Consensus size: 79
72048015 TGAATGATAC
* * *
72048025 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGAGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGC-GGTGATTATATCCGAGCTAAGACCCGAAGGCATTCG
*** *
72048090 TGCGAGTTGTTATAT
65 TGCGAGTTACCAAAT
* * ** *
72048105 CCGGGCTAAGACCCGAAGGCATTTGTGCGGTTG-TTATATCCGGGTTAATTCCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGG-TGATTATATCCGAGCTAAGACCCGAAGGCATTCG
72048169 TGCGAGTTACCAAAT
65 TGCGAGTTACCAAAT
* *
72048184 CCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCG
72048213 AATTACTATA
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
79 65 0.70
80 28 0.30
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGGTGATTATATCCGAGCTAAGACCCGAAGGCATTCGT
GCGAGTTACCAAAT
Found at i:72048212 original size:40 final size:40
Alignment explanation
Indices: 72048025--72048231 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
72048015 TGAATGATAC
* * * *
72048025 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATTATAT
* * *
72048065 CCGAGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATTATAT
*
72048105 CCGGGCTAAGACCCGAAGGCATTTGTGCG-GTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATTATAT
* ** ** *
72048144 CCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATTATAT
* * * * *
72048184 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATTATAT
72048224 CCGGGCTA
1 CCGGGCTA
72048232 TGTCCGAAGA
Statistics
Matches: 144, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 36 0.25
40 108 0.75
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATTATAT
Found at i:72048253 original size:79 final size:79
Alignment explanation
Indices: 72048025--72048254 Score: 176
Period size: 79 Copynumber: 2.9 Consensus size: 79
72048015 TGAATGATAC
* * * * * * * ** * *
72048025 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGAGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTACTATAACCGGGCTAATTCCCGAAGACAATCG
* *** *
72048090 TGCGAGTTGTTATAT
65 AGCGAGTTACCAAAT
* ** * * * * * *
72048105 CCGGGCTAAGACCCGAAGGCATTTGTGCGGTTGTTATATCCGGGTTAATTCCCGAAGGCATTTGT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGATTACTATAACCGGGCTAATTCCCGAAGACAATCGA
72048170 GCGAGTTACCAAAT
66 GCGAGTTACCAAAT
* *
72048184 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCT-ATGT-CCGAAGACAATC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCG-ATTACTATAACCGGGCTAAT-TCCCGAAGACAATC
72048247 GAGCGAGT
64 GAGCGAGT
72048255 CGCTATATCC
Statistics
Matches: 122, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
79 83 0.68
80 39 0.32
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGATTACTATAACCGGGCTAATTCCCGAAGACAATCGA
GCGAGTTACCAAAT
Found at i:72056238 original size:40 final size:40
Alignment explanation
Indices: 72056183--72056399 Score: 240
Period size: 40 Copynumber: 5.5 Consensus size: 40
72056173 TGAATGATAC
* * *
72056183 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
72056223 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
72056263 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** ***
72056303 CCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCA-AT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * * ** *
72056342 TCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
72056382 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGACCCGAAG
72056400 ACAATCGAGC
Statistics
Matches: 156, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 35 0.22
40 119 0.76
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:72056318 original size:80 final size:80
Alignment explanation
Indices: 72056183--72056425 Score: 258
Period size: 80 Copynumber: 3.0 Consensus size: 80
72056173 TGAATGATAC
* * * **
72056183 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAATTCCCGAAGGCATTC
*
72056247 GTGCGAGTTGTTATAT
65 GTGCGAGTTGCTATAT
* *
72056263 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGTTAATTCCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAATTCCCGAAGGCATTCG
* *
72056328 TGCGAGTTACCA-AT
66 TGCGAGTTGCTATAT
* * * * ** * * *
72056342 TCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCT-ATGTCCCGAAGACAATC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAT-TCCCGAAGGCATTC
* *
72056406 GAGCGAGTCGCTATAT
65 GTGCGAGTTGCTATAT
72056422 CCGG
1 CCGG
72056426 TTAAATTTCC
Statistics
Matches: 134, Mismatches: 26, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
78 2 0.01
79 61 0.46
80 69 0.51
81 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAATTCCCGAAGGCATTCG
TGCGAGTTGCTATAT
Found at i:72056397 original size:119 final size:119
Alignment explanation
Indices: 72056224--72056440 Score: 274
Period size: 119 Copynumber: 1.8 Consensus size: 119
72056214 TGATTATATC
* ** * * * * *
72056224 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGT
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAATTACTATAACCGGGCTAAGACCCGAAGACAATCGA
* *
72056289 GCGAGTTGTTATATCCGGGTT-AATTCCCGAAGGCATTTGTGCGAGTTACCAATT
66 GCGAGTCGCTATATCC-GGTTAAATTCCCGAAGGCATTTGTGCGAGTTACCAATT
* * * * *
72056343 CGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGACAATCGA
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAATTACTATAACCGGGCTAAGACCCGAAGACAATCGA
*
72056408 GCGAGTCGCTATATCCGGTTAAATTTCCGAAGG
66 GCGAGTCGCTATATCCGGTTAAATTCCCGAAGG
72056441 TACGTGATTC
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
118 4 0.05
119 77 0.95
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (119 bp):
CGGGCTAAGACCCGAAGGCATTCGTGCGAATTACTATAACCGGGCTAAGACCCGAAGACAATCGA
GCGAGTCGCTATATCCGGTTAAATTCCCGAAGGCATTTGTGCGAGTTACCAATT
Found at i:72058493 original size:40 final size:39
Alignment explanation
Indices: 72058424--72058573 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
72058414 ATGGTAACCC
* * * *
72058424 GCACAAAGGCCTTCGGGACTTAACTCGGAT-T-TCACAATTT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATGTATCAC---TA
*
72058464 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATGTA-TCACTA
* * *
72058504 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATGT-ATCACTA
* * * *
72058544 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT
72058574 ATCATTCAAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 2 0.02
43 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATGTATCACTA
Found at i:72065765 original size:40 final size:40
Alignment explanation
Indices: 72065721--72065830 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
72065711 TTCACAATTT
* *
72065721 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
72065761 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
72065801 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
72065831 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:72069639 original size:40 final size:40
Alignment explanation
Indices: 72069595--72069671 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
72069585 AGAGTGCATT
* *
72069595 CAGGGTCACAGATGTGCAAACAGGGACACTGAAGTGTTTA
1 CAGGGGCACAGATGTGCAAACAGGAACACTGAAGTGTTTA
* * *
72069635 CAGGGGCACAGTTGTGCAAATAGGAATACTGAAGTGT
1 CAGGGGCACAGATGTGCAAACAGGAACACTGAAGTGT
72069672 AATCAAGGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.21
Consensus pattern (40 bp):
CAGGGGCACAGATGTGCAAACAGGAACACTGAAGTGTTTA
Found at i:72071817 original size:44 final size:44
Alignment explanation
Indices: 72071769--72071865 Score: 158
Period size: 44 Copynumber: 2.2 Consensus size: 44
72071759 CAATATTGAG
*
72071769 ATAGCTTCGATTTAATGTGATGGCACTAAGTTTGCAATATCATT
1 ATAGCTTCGATTTAATGTGATGGCACTAAGTGTGCAATATCATT
** *
72071813 ATAGCTTCGATTTAATGTGATGGCACTAAGTGTGTGATATCGTT
1 ATAGCTTCGATTTAATGTGATGGCACTAAGTGTGCAATATCATT
72071857 ATAGCTTCG
1 ATAGCTTCG
72071866 GCTAATCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (44 bp):
ATAGCTTCGATTTAATGTGATGGCACTAAGTGTGCAATATCATT
Found at i:72080866 original size:42 final size:43
Alignment explanation
Indices: 72080748--72080904 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
72080738 AGATGCCAAT
* ** * *
72080748 GCCATATCCCAGATATGGTCTTACATG--GGATCATATATAGAT
1 GCCATATCCCAGATATGGTCTTACACGAAGTCTCAT-TATCGAA
* * *
72080790 GCCAATAGCCCA-ACTATGGTCTTACACGATGTCTCA-TATCGAT
1 GCC-ATATCCCAGA-TATGGTCTTACACGAAGTCTCATTATCGAA
* * *
72080833 GCCATATCCTAGATATGGTCTTATACGAAGTCTCATTTTCGAA
1 GCCATATCCCAGATATGGTCTTACACGAAGTCTCATTATCGAA
* **
72080876 GCCATGTCCCAGACGTGGTCTTACACGAA
1 GCCATATCCCAGATATGGTCTTACACGAA
72080905 ATCGCATGCC
Statistics
Matches: 93, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
42 30 0.32
43 59 0.63
45 4 0.04
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
GCCATATCCCAGATATGGTCTTACACGAAGTCTCATTATCGAA
Found at i:72083145 original size:15 final size:15
Alignment explanation
Indices: 72083125--72083156 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
72083115 GTTCTAGTAG
72083125 ATTTGTGAGTTAAGC
1 ATTTGTGAGTTAAGC
72083140 ATTTGTGAGTTAAGC
1 ATTTGTGAGTTAAGC
72083155 AT
1 AT
72083157 GTTTTAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (15 bp):
ATTTGTGAGTTAAGC
Found at i:72083648 original size:23 final size:23
Alignment explanation
Indices: 72083622--72083673 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
72083612 AGGTTAAGCC
72083622 CAAGTCATGGAACGACAAGAATT
1 CAAGTCATGGAACGACAAGAATT
* *
72083645 CAAGTCATGGCACGACGAGAATT
1 CAAGTCATGGAACGACAAGAATT
*
72083668 TAAGTC
1 CAAGTC
72083674 GTTGCGACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (23 bp):
CAAGTCATGGAACGACAAGAATT
Found at i:72089603 original size:27 final size:27
Alignment explanation
Indices: 72089568--72089627 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
72089558 AAAGATTATT
* * * *
72089568 AAAACTCTTCTAAAAGAAAACTTAAGA
1 AAAATTCTTCAAAAAAAAAACTCAAGA
* *
72089595 GAAATTCTTGAAAAAAAAAACTCAAGA
1 AAAATTCTTCAAAAAAAAAACTCAAGA
72089622 AAAATT
1 AAAATT
72089628 TTATTAACTC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.22
Consensus pattern (27 bp):
AAAATTCTTCAAAAAAAAAACTCAAGA
Found at i:72099625 original size:27 final size:28
Alignment explanation
Indices: 72099595--72099652 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
72099585 TTGTTAAAAC
72099595 TCTTCTAAAAT-AAAACTCAATAGA-AAT
1 TCTTCTAAAATGAAAACTCAA-AGAGAAT
72099622 TC-T-TAAAATGAAAACTCAAAGAGAAT
1 TCTTCTAAAATGAAAACTCAAAGAGAAT
72099648 T-TTCT
1 TCTTCT
72099653 TTAACTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
25 9 0.33
26 15 0.56
27 3 0.11
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (28 bp):
TCTTCTAAAATGAAAACTCAAAGAGAAT
Found at i:72099637 original size:26 final size:25
Alignment explanation
Indices: 72099600--72099648 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
72099590 AAAACTCTTC
72099600 TAAAATAAAACTCAATAGA-AATTCT
1 TAAAATAAAACTCAA-AGAGAATTCT
72099625 TAAAATGAAAACTCAAAGAGAATT
1 TAAAAT-AAAACTCAAAGAGAATT
72099649 TTCTTTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.57, C:0.10, G:0.08, T:0.24
Consensus pattern (25 bp):
TAAAATAAAACTCAAAGAGAATTCT
Found at i:72101063 original size:68 final size:67
Alignment explanation
Indices: 72100930--72101064 Score: 171
Period size: 68 Copynumber: 2.0 Consensus size: 67
72100920 GGCGACTATA
* * * * *
72100930 GAGTCTGCCAAGACATTAAACATAGGGTTACATGTGTAAGTCTATATCTAGGCTATGGCAACATG
1 GAGTCCGCCAAGACACTAAACATAGGGTTACATGTGTAAGACCATATCTAGGCTATGACAACATG
72100995 TG
66 TG
* * * * *
72100997 GAGTCCGCCAAGACACTAAACATGGGGATTACATGTGTAAGACCATTTCTTGGCTATTACAGCAT
1 GAGTCCGCCAAGACACTAAACATAGGG-TTACATGTGTAAGACCATATCTAGGCTATGACAACAT
72101062 GTG
65 GTG
72101065 AGGTCCATAG
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
67 24 0.42
68 33 0.58
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (67 bp):
GAGTCCGCCAAGACACTAAACATAGGGTTACATGTGTAAGACCATATCTAGGCTATGACAACATG
TG
Done.