Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 210 of 216
Found at i:65049861 original size:13 final size:13
Alignment explanation
Indices: 65049843--65049873 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
65049833 TTTTCTCAAT
*
65049843 TTTCTTTTTCTTC
1 TTTCTTCTTCTTC
65049856 TTTCTTCTTCTTC
1 TTTCTTCTTCTTC
65049869 TTTCT
1 TTTCT
65049874 ATCACCGCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTTCTTCTTC
Found at i:65056603 original size:24 final size:25
Alignment explanation
Indices: 65056577--65056633 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
65056567 ATTCTTTAGT
*
65056577 TTTTTTT-AAAAA-AAA-TTTATAA
1 TTTTTTTAAAAAATAAATTTTAGAA
65056599 TTTTTTTAAAAAATAAATTTTAGAA
1 TTTTTTTAAAAAATAAATTTTAGAA
*
65056624 TTTTTATAAA
1 TTTTTTTAAA
65056634 TATTTAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 7 0.23
23 5 0.17
24 3 0.10
25 15 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TTTTTTTAAAAAATAAATTTTAGAA
Found at i:65056641 original size:19 final size:19
Alignment explanation
Indices: 65056611--65056670 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
65056601 TTTTTAAAAA
65056611 ATAAAT-TTTAGAATTTTT
1 ATAAATATTTAGAATTTTT
65056629 ATAAATATTTAG-ATTTTT
1 ATAAATATTTAGAATTTTT
*
65056647 AAAAATTATTTTA-AATTTTT
1 ATAAA-TA-TTTAGAATTTTT
65056667 -TAAA
1 ATAAA
65056671 ATTGTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 16 0.44
19 10 0.28
20 10 0.28
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
ATAAATATTTAGAATTTTT
Found at i:65056664 original size:20 final size:20
Alignment explanation
Indices: 65056601--65056686 Score: 77
Period size: 20 Copynumber: 4.2 Consensus size: 20
65056591 ATTTATAATT
*
65056601 TTTTTAAAAAATAAATTTTAGAA
1 TTTTT-AAAAAT-TATTTTA-AA
* *
65056624 TTTTTATAAA-TA-TTTAGA
1 TTTTTAAAAATTATTTTAAA
65056642 TTTTTAAAAATTATTTTAAA
1 TTTTTAAAAATTATTTTAAA
* * *
65056662 TTTTTTAAAATTGTTTTAAC
1 TTTTTAAAAATTATTTTAAA
65056682 TTTTT
1 TTTTT
65056687 TTTGTAATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
18 10 0.19
19 6 0.11
20 28 0.53
22 4 0.08
23 5 0.09
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTAAA
Found at i:65060961 original size:21 final size:21
Alignment explanation
Indices: 65060918--65060962 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
65060908 AATATAAAAG
*
65060918 AAAAATTCAAATTTAAATCTT
1 AAAAATTCAAATTTAAAGCTT
*
65060939 AAAAA-TCAAAGTTTAAAGGTT
1 AAAAATTCAAA-TTTAAAGCTT
65060960 AAA
1 AAA
65060963 TTTTAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (21 bp):
AAAAATTCAAATTTAAAGCTT
Found at i:65069746 original size:17 final size:18
Alignment explanation
Indices: 65069722--65069765 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
65069712 GAATTATAAG
65069722 TAAAAAAAAGACATTACA
1 TAAAAAAAAGACATTACA
*
65069740 TAAAAAAAAGGCATTACA
1 TAAAAAAAAGACATTACA
65069758 TAAAAAAA
1 TAAAAAAA
65069766 TCGTTTTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.68, C:0.09, G:0.07, T:0.16
Consensus pattern (18 bp):
TAAAAAAAAGACATTACA
Found at i:65071165 original size:13 final size:13
Alignment explanation
Indices: 65071140--65071172 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
65071130 AAATATCATG
*
65071140 AAAA-TTATTAAA
1 AAAATTTATAAAA
65071152 AAAATTTATAAAA
1 AAAATTTATAAAA
65071165 AAAATTTA
1 AAAATTTA
65071173 AAATTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTTATAAAA
Found at i:65071364 original size:20 final size:19
Alignment explanation
Indices: 65071317--65071363 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
65071307 GTTTCTTTTA
65071317 TAAATTTTGTTAATAATTT
1 TAAATTTTGTTAATAATTT
* *
65071336 TATGATTTTTTTAATAATTT
1 TA-AATTTTGTTAATAATTT
65071356 TAAATTTT
1 TAAATTTT
65071364 TAAAAGGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (19 bp):
TAAATTTTGTTAATAATTT
Found at i:65082900 original size:26 final size:26
Alignment explanation
Indices: 65082852--65082903 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 26
65082842 CTTCTCTAAT
*
65082852 TTAACTTTAATTAATTAAAAAAAAGC
1 TTAACTTTAATTAAGTAAAAAAAAGC
65082878 TTAACTTTAATTAAAGTATAAAAAAA
1 TTAACTTTAATT-AAGTA-AAAAAAA
65082904 TTAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 12 0.52
27 4 0.17
28 7 0.30
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (26 bp):
TTAACTTTAATTAAGTAAAAAAAAGC
Found at i:65087755 original size:21 final size:22
Alignment explanation
Indices: 65087712--65087757 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
65087702 AAATAGAAAT
*
65087712 AAATATATAAAAAAATTTAGAA
1 AAATATATAAAAAAATCTAGAA
*
65087734 AAATATAT-AAATAATCTAGAA
1 AAATATATAAAAAAATCTAGAA
65087755 AAA
1 AAA
65087758 AACATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (22 bp):
AAATATATAAAAAAATCTAGAA
Found at i:65087758 original size:22 final size:22
Alignment explanation
Indices: 65087705--65087768 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
65087695 CATTATAAAA
* *
65087705 TAGAAATAAATATATAAAAAAATT
1 TAGAAA-AAATATAT-AAATAATC
65087729 TAG-AAAAATATATAAATAATC
1 TAGAAAAAATATATAAATAATC
*
65087750 TAGAAAAAAACATATAAAT
1 TAG-AAAAAATATATAAAT
65087769 TATAAAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 9 0.26
22 8 0.23
23 15 0.43
24 3 0.09
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.27
Consensus pattern (22 bp):
TAGAAAAAATATATAAATAATC
Found at i:65087977 original size:18 final size:21
Alignment explanation
Indices: 65087951--65087989 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
65087941 AAATTTAAAT
65087951 ACATGTTTT-AATTTT-TATA
1 ACATGTTTTCAATTTTATATA
65087970 ACAT-TTTTCAATTTTATATA
1 ACATGTTTTCAATTTTATATA
65087990 TGATTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (21 bp):
ACATGTTTTCAATTTTATATA
Found at i:65088265 original size:15 final size:15
Alignment explanation
Indices: 65088245--65088275 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
65088235 AATTTTTAGA
65088245 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
65088260 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
65088275 A
1 A
65088276 AAAAATTATT
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:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:65088396 original size:15 final size:16
Alignment explanation
Indices: 65088378--65088407 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
65088368 TTATCTTATT
65088378 TTTTTATAA-TTTTTA
1 TTTTTATAACTTTTTA
65088393 TTTTTATAACTTTTT
1 TTTTTATAACTTTTT
65088408 TTATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTATAACTTTTTA
Found at i:65088425 original size:19 final size:21
Alignment explanation
Indices: 65088394--65088447 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
65088384 TAATTTTTAT
65088394 TTTTATA-ACTTTTTTTATA-A
1 TTTTATATA-TTTTTTTATAGA
* *
65088414 -TTTATATGTTTTTTTCTAGA
1 TTTTATATATTTTTTTATAGA
65088434 TTTTATATATTTTT
1 TTTTATATATTTTT
65088448 CTGAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 15 0.54
20 1 0.04
21 12 0.43
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTATATATTTTTTTATAGA
Found at i:65088427 original size:21 final size:21
Alignment explanation
Indices: 65088395--65088447 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
65088385 AATTTTTATT
* *
65088395 TTTATA-ACTTTTTT-TATAA
1 TTTATATATTTTTTTCTAGAA
* *
65088414 TTTATATGTTTTTTTCTAGAT
1 TTTATATATTTTTTTCTAGAA
65088435 TTTATATATTTTT
1 TTTATATATTTTT
65088448 CTGAAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 6 0.22
20 6 0.22
21 15 0.56
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTATATATTTTTTTCTAGAA
Found at i:65092968 original size:3 final size:3
Alignment explanation
Indices: 65092960--65093007 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
65092950 GTACTTTTGC
65092960 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
65093008 CATCATCATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:65093494 original size:18 final size:18
Alignment explanation
Indices: 65093473--65093509 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
65093463 TACACCTATA
*
65093473 TATATATGTACATATTTT
1 TATATATATACATATTTT
*
65093491 TATATATATGCATATTTT
1 TATATATATACATATTTT
65093509 T
1 T
65093510 TCTTCTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:65093496 original size:20 final size:18
Alignment explanation
Indices: 65093471--65093509 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
65093461 TATACACCTA
65093471 TATATATATGTACATATTTT
1 TATATATATG--CATATTTT
65093491 TATATATATGCATATTTT
1 TATATATATGCATATTTT
65093509 T
1 T
65093510 TCTTCTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TATATATATGCATATTTT
Found at i:65106095 original size:100 final size:100
Alignment explanation
Indices: 65105912--65106631 Score: 972
Period size: 100 Copynumber: 7.2 Consensus size: 100
65105902 CTAACAGCGG
* *
65105912 ATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC-CAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTA-
** * * *
65105976 GCAATGCAGAGGAATAGATTGAAG-CTACAACAACGA
65 GCGTTGCAGTGGAACAGATTGAAGTC-ACAACGACGA
*
65106012 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAATAGCGGATCTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
* * *
65106077 CGCTGCAGTGAAACAGATTGAAGTCACAATGACGA
66 CGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
*
65106112 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAATAGCGGATCTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
*
65106177 CATTGCAGTGGAACAGATTGAAGTCACAACGACGA
66 CGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
*
65106212 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAATAGCGGATCTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
65106277 CGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
66 CGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
65106312 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
1 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
* **
65106377 CGTTGCAGTGGAACAGGTCAAAGTCACAACGACGA
66 CGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
* * * * *
65106412 ATCTCACTTCTCC-GGCATTGCAATGT-AAAAGATTGAAGGC-ACAACGGCGAATCTTA-TTTCC
1 ATCTTACTTC-CCTGACATTGCAAT-TAAAAAGATTGAA-GCTACAACAGCGGATCTTACTTTCT
* ** *
65106473 CAGGCGTTGCAGTGGAACAGATCAAATTCACAACGACGA
63 TA-GCGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
* * * * * * *
65106512 ATCTTGCTTCCCCGACATTGCAATGT-AAAAGATTGAAGCCACAACGGCGAATCTTATTTTC-CA
1 ATCTTACTTCCCTGACATTGCAAT-TAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTA
**
65106575 G-GTGATGCAGCAGAACAGATTGAAGTCACAACGACGA
65 GCGT--TGCAGTGGAACAGATTGAAGTCACAACGACGA
*
65106612 ATCTTGCTTCCCTGACATTG
1 ATCTTACTTCCCTGACATTG
65106632 TTAAAGATGG
Statistics
Matches: 573, Mismatches: 36, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
98 2 0.00
99 10 0.02
100 550 0.96
101 11 0.02
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (100 bp):
ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG
CGTTGCAGTGGAACAGATTGAAGTCACAACGACGA
Found at i:65106383 original size:50 final size:50
Alignment explanation
Indices: 65105904--65106370 Score: 427
Period size: 50 Copynumber: 9.3 Consensus size: 50
65105894 TTCCTGTACT
*
65105904 AACAGCGGATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTAC
1 AACAGCGGATCTTACTTCCCTAGCATTGCAATTAAAAAGATTGAAGCTAC
* * ** *
65105954 AACAGCGGATCTTACTTTCC-AGGCAATGCAGA-GGAATAGATTGAAGCTAC
1 AACAGCGGATCTTACTTCCCTA-GCATTGCA-ATTAAAAAGATTGAAGCTAC
* *
65106004 AACAACGAATCTTACTTCCCT-GACATTGCAATTAAAAAGATTGAAGCTAC
1 AACAGCGGATCTTACTTCCCTAG-CATTGCAATTAAAAAGATTGAAGCTAC
* * * ** * * *
65106054 AATAGCGGATCTTACTTTCTTAGCGCTGCAGTGAAACAGATTGAAG-TCAC
1 AACAGCGGATCTTACTTCCCTAGCATTGCAATTAAAAAGATTGAAGCT-AC
* *
65106104 AA-TGACGAATCTTACTTCCCT-GACATTGCAATTAAAAAGATTGAAGCTAC
1 AACAG-CGGATCTTACTTCCCTAG-CATTGCAATTAAAAAGATTGAAGCTAC
* * * * ** *
65106154 AATAGCGGATCTTACTTTCTTAGCATTGCAGTGGAACAGATTGAAG-TCAC
1 AACAGCGGATCTTACTTCCCTAGCATTGCAATTAAAAAGATTGAAGCT-AC
*
65106204 AAC-GACGAATCTTACTTCCCT-GACATTGCAATTAAAAAGATTGAAGCTAC
1 AACAG-CGGATCTTACTTCCCTAG-CATTGCAATTAAAAAGATTGAAGCTAC
* * * * * ** *
65106254 AATAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAG-TCAC
1 AACAGCGGATCTTACTTCCCTAGCATTGCAATTAAAAAGATTGAAGCT-AC
*
65106304 AAC-GACGAATCTTACTTCCCT-GACATTGCAATTAAAAAGATTGAAGCTAC
1 AACAG-CGGATCTTACTTCCCTAG-CATTGCAATTAAAAAGATTGAAGCTAC
65106354 AACAGCGGATCTTACTT
1 AACAGCGGATCTTACTT
65106371 TCTTAGCGTT
Statistics
Matches: 327, Mismatches: 67, Indels: 46
0.74 0.15 0.10
Matches are distributed among these distances:
49 12 0.04
50 305 0.93
51 10 0.03
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (50 bp):
AACAGCGGATCTTACTTCCCTAGCATTGCAATTAAAAAGATTGAAGCTAC
Found at i:65106505 original size:50 final size:50
Alignment explanation
Indices: 65105941--65106623 Score: 354
Period size: 50 Copynumber: 13.7 Consensus size: 50
65105931 GCAATTAAAA
* * ** * *
65105941 AGATTGAAG-CTACAAC-AGCGGATCTTACTTTCCAGGCAATGCAGAGGAAT
1 AGATTGAAGTC-ACAACGA-CGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * * * * ** *
65105991 AGATTGAAG-CTACAACAACGAATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGTC-ACAACGACGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * ** * *
65106041 AGATTGAAG-CTACAA-TAGCGGATCTTACTTTCTTA-GCGCTGCAGTGAAAC
1 AGATTGAAGTC-ACAACGA-CGAATCTTAC-TTCCCAGGCGTTGCAGTGGAAC
* * * * * ** *
65106091 AGATTGAAGTCACAATGACGAATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGTCACAACGACGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * ** *
65106141 AGATTGAAG-CTACAA-TAGCGGATCTTACTTTCTTA-GCATTGCAGTGGAAC
1 AGATTGAAGTC-ACAACGA-CGAATCTTAC-TTCCCAGGCGTTGCAGTGGAAC
* * * * ** *
65106191 AGATTGAAGTCACAACGACGAATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGTCACAACGACGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * **
65106241 AGATTGAAG-CTACAA-TAGCGGATCTTACTTTCTTA-GCGTTGCAGTGGAAC
1 AGATTGAAGTC-ACAACGA-CGAATCTTAC-TTCCCAGGCGTTGCAGTGGAAC
* * * * ** *
65106291 AGATTGAAGTCACAACGACGAATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGTCACAACGACGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* **
65106341 AGATTGAAG-CTACAAC-AGCGGATCTTACTTTCTTA-GCGTTGCAGTGGAAC
1 AGATTGAAGTC-ACAACGA-CGAATCTTAC-TTCCCAGGCGTTGCAGTGGAAC
* ** * * * * *
65106391 AGGTCAAAGTCACAACGACGAATCTCACTTCTCC-GGCATTGCAATGTAAA
1 AGATTGAAGTCACAACGACGAATCTTACTTC-CCAGGCGTTGCAGTGGAAC
* * *
65106441 AGATTGAAGGCACAACGGCGAATCTTATTTCCCAGGCGTTGCAGTGGAAC
1 AGATTGAAGTCACAACGACGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
** * * * * * * * *
65106491 AGATCAAATTCACAACGACGAATCTTGCTTCCCCGACATTGCAATGTAAA
1 AGATTGAAGTCACAACGACGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
* * * * * * **
65106541 AGATTGAAGCCACAACGGCGAATCTTATTTTCCAGGTGATGCAGCAGAAC
1 AGATTGAAGTCACAACGACGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
*
65106591 AGATTGAAGTCACAACGACGAATCTTGCTTCCC
1 AGATTGAAGTCACAACGACGAATCTTACTTCCC
65106624 TGACATTGTT
Statistics
Matches: 465, Mismatches: 142, Indels: 52
0.71 0.22 0.08
Matches are distributed among these distances:
49 21 0.05
50 423 0.91
51 21 0.05
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (50 bp):
AGATTGAAGTCACAACGACGAATCTTACTTCCCAGGCGTTGCAGTGGAAC
Found at i:65108299 original size:3 final size:3
Alignment explanation
Indices: 65108234--65108285 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
65108224 GTACTTTTGC
65108234 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
65108282 TAT T
1 TAT T
65108286 GTATTGGTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:65108500 original size:36 final size:36
Alignment explanation
Indices: 65108421--65108500 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
65108411 AATTTGTTTA
* *
65108421 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
65108457 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
65108493 ATATATAT
1 ATATATAT
65108501 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:65108746 original size:18 final size:18
Alignment explanation
Indices: 65108723--65108759 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
65108713 TATACACCTA
*
65108723 TATATATGTACATATTTT
1 TATATATATACATATTTT
*
65108741 TATATATATGCATATTTT
1 TATATATATACATATTTT
65108759 T
1 T
65108760 TCTTCTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:65108746 original size:20 final size:18
Alignment explanation
Indices: 65108721--65108759 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
65108711 TTTATACACC
65108721 TATATATATGTACATATTTT
1 TATATATATG--CATATTTT
65108741 TATATATATGCATATTTT
1 TATATATATGCATATTTT
65108759 T
1 T
65108760 TCTTCTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TATATATATGCATATTTT
Found at i:65113382 original size:22 final size:22
Alignment explanation
Indices: 65113349--65113404 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
65113339 ATAAATTATT
65113349 TTTACTATTTTAAAT-ATAAAATA
1 TTTA-TATTTTAAATGAT-AAATA
*
65113372 TTTATATTTTACATGATAAATA
1 TTTATATTTTAAATGATAAATA
*
65113394 ATTATAATTTT
1 TTTAT-ATTTT
65113405 TTAATTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 18 0.62
23 11 0.38
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTATATTTTAAATGATAAATA
Found at i:65116814 original size:22 final size:23
Alignment explanation
Indices: 65116772--65116814 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
65116762 TAAAATGATG
* *
65116772 AAATTACATTTTTATTATTGTAA
1 AAATTACAATTTAATTATTGTAA
65116795 AAATTACAATTTAATT-TTGT
1 AAATTACAATTTAATTATTGT
65116815 TCTTTCTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (23 bp):
AAATTACAATTTAATTATTGTAA
Found at i:65116926 original size:21 final size:21
Alignment explanation
Indices: 65116896--65116941 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
65116886 ATATTAAATT
65116896 TTTTTAAATATAATATAATAAA
1 TTTTTAAATATAATA-AATAAA
* *
65116918 TTTTT-AATATTATAAATATA
1 TTTTTAAATATAATAAATAAA
65116938 TTTT
1 TTTT
65116942 ATGCTTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 8 0.36
22 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTTAAATATAATAAATAAA
Found at i:65117109 original size:12 final size:12
Alignment explanation
Indices: 65117094--65117119 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65117084 TTTATTTTTT
65117094 ATTTTAGAAATA
1 ATTTTAGAAATA
65117106 ATTTTAGAAATA
1 ATTTTAGAAATA
65117118 AT
1 AT
65117120 AGATATGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
ATTTTAGAAATA
Found at i:65118366 original size:21 final size:20
Alignment explanation
Indices: 65118340--65118384 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
65118330 TTTTATAAGC
65118340 TTATATGAATTTTAATATTTT
1 TTATATGAATTTT-ATATTTT
***
65118361 TTATATTTCTTTTATATTTT
1 TTATATGAATTTTATATTTT
65118381 TTAT
1 TTAT
65118385 GATTTTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATATGAATTTTATATTTT
Found at i:65118379 original size:20 final size:22
Alignment explanation
Indices: 65118349--65118389 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
65118339 CTTATATGAA
65118349 TTTTAATATTTTTTAT-ATTTC
1 TTTTAATATTTTTTATGATTTC
65118370 TTTT-ATATTTTTTATGATTT
1 TTTTAATATTTTTTATGATTT
65118390 TTAAGATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTAATATTTTTTATGATTTC
Found at i:65118382 original size:9 final size:9
Alignment explanation
Indices: 65118349--65118391 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
65118339 CTTATATGAA
*
65118349 TTTTAATAT
1 TTTTTATAT
65118358 TTTTTATATT
1 TTTTTATA-T
65118368 TCTTTTATAT
1 T-TTTTATAT
65118378 TTTTTATGAT
1 TTTTTAT-AT
65118388 TTTT
1 TTTT
65118392 AAGATTTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 13 0.43
10 10 0.33
11 7 0.23
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTATAT
Found at i:65118552 original size:20 final size:19
Alignment explanation
Indices: 65118508--65118575 Score: 70
Period size: 18 Copynumber: 3.6 Consensus size: 19
65118498 TATGTCAATC
* *
65118508 TTAATTCTTTT-AATATTT
1 TTAATTTTTTTAAATTTTT
*
65118526 ATAATTTTTTTACAATTTTT
1 TTAATTTTTTTA-AATTTTT
65118546 TTAA--TTTTTAAATTTTT
1 TTAATTTTTTTAAATTTTT
65118563 TTAATTATTTTTA
1 TTAATT-TTTTTA
65118576 TTGAAAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 11 0.27
18 15 0.37
20 15 0.37
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTAATTTTTTTAAATTTTT
Found at i:65118553 original size:17 final size:17
Alignment explanation
Indices: 65118532--65118568 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 17
65118522 ATTTATAATT
65118532 TTTTTACAATTTTTTTAA
1 TTTTTA-AATTTTTTTAA
65118550 TTTTTAAATTTTTTTAA
1 TTTTTAAATTTTTTTAA
65118567 TT
1 TT
65118569 ATTTTTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTAAATTTTTTTAA
Found at i:65118574 original size:29 final size:29
Alignment explanation
Indices: 65118510--65118565 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
65118500 TGTCAATCTT
*
65118510 AATTCTTTTAATATTTATAATTTTTTTAC
1 AATTTTTTTAATATTTATAATTTTTTTAC
*
65118539 AATTTTTTTAATTTTTA-AATTTTTTTA
1 AATTTTTTTAATATTTATAATTTTTTTA
65118566 ATTATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (29 bp):
AATTTTTTTAATATTTATAATTTTTTTAC
Found at i:65128792 original size:15 final size:16
Alignment explanation
Indices: 65128767--65128796 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
65128757 AGAAAAATTG
65128767 AAAATCGAATCAAATC
1 AAAATCGAATCAAATC
65128783 AAAA-CGAATCAAAT
1 AAAATCGAATCAAAT
65128797 TATTATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.17, G:0.07, T:0.17
Consensus pattern (16 bp):
AAAATCGAATCAAATC
Found at i:65133219 original size:10 final size:9
Alignment explanation
Indices: 65133174--65133219 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
65133164 GACCCAACTC
65133174 ATTTTTAA-
1 ATTTTTAAT
65133182 ATTTTTAAT
1 ATTTTTAAT
*
65133191 A-TGTTAAT
1 ATTTTTAAT
*
65133199 TTTTTTAAT
1 ATTTTTAAT
65133208 ATTTTTATAT
1 ATTTTTA-AT
65133218 AT
1 AT
65133220 CATATAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 14 0.45
9 13 0.42
10 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:65143296 original size:80 final size:80
Alignment explanation
Indices: 65143163--65143667 Score: 827
Period size: 80 Copynumber: 6.3 Consensus size: 80
65143153 TTAATCTTTT
* *
65143163 TACTCTATCAAGTAAAATCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAAT
1 TACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAAT
65143228 TCTAAAACTCCTTAA
66 TCTAAAACTCCTTAA
*
65143243 TACTCTATCAAGTAAAACCTAAATATCATACAC-CTCTCTCTCTGCCGCCAACACTTAACACCAA
1 TACTCTATCAAGTAAAACCTAAATATCATACACAC-CTCTCTCCGCCGCCAACACTTAACACCAA
* *
65143307 TCCTAAAACTCTTTAA
65 TTCTAAAACTCCTTAA
* * *
65143323 CACTCTATCTAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAAT
1 TACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAAT
65143388 TCTAAAACTCCTTAA
66 TCTAAAACTCCTTAA
*
65143403 TACTCTATCAAGTAAAACCTAAATATCATACACATCTCTCTCCGCCGCCAACACTTAACACCAAT
1 TACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAAT
65143468 TCTAAAACTCCTTAA
66 TCTAAAACTCCTTAA
*
65143483 TACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACTCCAAT
1 TACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAAT
* *
65143548 CCTAAAACTCTTTAA
66 TCTAAAACTCCTTAA
* *
65143563 CACTCTATCTAGTAAAACCTAAATATCATACACACCT-TCCTCCGCCGCCAACACTT-ACACCAA
1 TACTCTATCAAGTAAAACCTAAATATCATACACACCTCT-CTCCGCCGCCAACACTTAACACCAA
*
65143626 TACTAAAACTCCTTAA
65 TTCTAAAACTCCTTAA
*
65143642 CACTCTATCAAGTAAAACCTAAATAT
1 TACTCTATCAAGTAAAACCTAAATAT
65143668 TCCTTGATAC
Statistics
Matches: 397, Mismatches: 25, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
79 47 0.12
80 349 0.88
81 1 0.00
ACGTcount: A:0.37, C:0.33, G:0.04, T:0.26
Consensus pattern (80 bp):
TACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAAT
TCTAAAACTCCTTAA
Found at i:65143586 original size:240 final size:239
Alignment explanation
Indices: 65143163--65143667 Score: 913
Period size: 240 Copynumber: 2.1 Consensus size: 239
65143153 TTAATCTTTT
*
65143163 TACTCTATCAAGTAAAATCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAAT
1 TACTCTATCAAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAAT
*
65143228 TCTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACCTCTCTCTCTGCCGCCA
66 TCTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACCTCTCTCTCCGCCGCCA
65143293 ACACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACAC
131 ACACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACAC
*
65143358 CTCCCTCCGCCGCCAACACTTAACACCAATTCTAAAACTCCTTAA
196 CTCCCTCCGCCGCCAACACTT-ACACCAATACTAAAACTCCTTAA
* *
65143403 TACTCTATCAAGTAAAACCTAAATATCATACACATCTCTCTCCGCCGCCAACACTTAACACCAAT
1 TACTCTATCAAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAAT
65143468 TCTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACAC-CTCTCTCCGCCGCC
66 TCTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACAC-CTCTCTCTCCGCCGCC
*
65143532 AACACTTAACTCCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACA
130 AACACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACA
*
65143597 CCTTCCTCCGCCGCCAACACTTACACCAATACTAAAACTCCTTAA
195 CCTCCCTCCGCCGCCAACACTTACACCAATACTAAAACTCCTTAA
*
65143642 CACTCTATCAAGTAAAACCTAAATAT
1 TACTCTATCAAGTAAAACCTAAATAT
65143668 TCCTTGATAC
Statistics
Matches: 256, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
239 47 0.18
240 208 0.81
241 1 0.00
ACGTcount: A:0.37, C:0.33, G:0.04, T:0.26
Consensus pattern (239 bp):
TACTCTATCAAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAAT
TCTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACCTCTCTCTCCGCCGCCA
ACACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACAC
CTCCCTCCGCCGCCAACACTTACACCAATACTAAAACTCCTTAA
Found at i:65143672 original size:33 final size:33
Alignment explanation
Indices: 65143635--65143697 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
65143625 ATACTAAAAC
65143635 TCCTTAACACTCTATCAAGTAAAACCTAAATAT
1 TCCTTAACACTCTATCAAGTAAAACCTAAATAT
* * *
65143668 TCCTTGATACTCTATTAAGTAAAACCTAAA
1 TCCTTAACACTCTATCAAGTAAAACCTAAA
65143698 GATCATTCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (33 bp):
TCCTTAACACTCTATCAAGTAAAACCTAAATAT
Found at i:65143695 original size:112 final size:113
Alignment explanation
Indices: 65143564--65143780 Score: 303
Period size: 112 Copynumber: 1.9 Consensus size: 113
65143554 ACTCTTTAAC
* * * * *
65143564 ACTCTATCTAGTAAAACCTAAATATCATACACACCTTCCTCCGCCGCCAACACTT-ACACCAATA
1 ACTCTATCTAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAAAAACAATA
65143628 CTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATATTCCTTGAT
66 CTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATATTCCTTGAT
*
65143676 ACTCTAT-TAAGTAAAACCTAAAGATCATTCACACCTCCCTCAGCCGCCAACACTTAAAAACAAT
1 ACTCTATCT-AGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAAAAACAAT
* ** * * *
65143740 CCTAAAACTCCTTAATGCTTTATCGAGTGAAACCTAAATAT
65 ACTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATAT
65143781 CATGCGAACC
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
111 1 0.01
112 49 0.54
113 41 0.45
ACGTcount: A:0.38, C:0.29, G:0.06, T:0.26
Consensus pattern (113 bp):
ACTCTATCTAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAAAAACAATA
CTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATATTCCTTGAT
Found at i:65143809 original size:192 final size:193
Alignment explanation
Indices: 65143476--65143836 Score: 528
Period size: 192 Copynumber: 1.9 Consensus size: 193
65143466 ATTCTAAAAC
* * *
65143476 TCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAA
1 TCCTTAATACTCTATCAAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAA
*** * *
65143541 CTCCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACCTTCCTCC
66 AAACAATCCTAAAACTCCTTAACACTCTATCGAGTAAAACCTAAATATCATACACACCTTCCTCC
65143606 GCCGCCAACACTT-ACACCAATACTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATAT
131 GCCGCCAACACTTAACACCAATACTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATAT
* * *
65143668 TCCTTGATACTCTATTAAGTAAAACCTAAAGATCATTCACACCTCCCTCAGCCGCCAACACTTAA
1 TCCTTAATACTCTATCAAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAA
** * * * *
65143733 AAACAATCCTAAAACTCCTTAATGCTTTATCGAGTGAAACCTAAATATCATGCGA-ACCTTTCTC
66 AAACAATCCTAAAACTCCTTAACACTCTATCGAGTAAAACCTAAATATCATAC-ACACCTTCCTC
* *
65143797 CGCCGCCAACACTTAACACCAATCCTCAAACTCCTTAACA
130 CGCCGCCAACACTTAACACCAATACTAAAACTCCTTAACA
65143837 ACATTAAGAC
Statistics
Matches: 148, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
192 124 0.84
193 24 0.16
ACGTcount: A:0.36, C:0.32, G:0.06, T:0.26
Consensus pattern (193 bp):
TCCTTAATACTCTATCAAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAA
AAACAATCCTAAAACTCCTTAACACTCTATCGAGTAAAACCTAAATATCATACACACCTTCCTCC
GCCGCCAACACTTAACACCAATACTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATAT
Found at i:65146525 original size:3 final size:3
Alignment explanation
Indices: 65146519--65146551 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
65146509 TGTTCTGGCC
65146519 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65146552 GAAAATATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:65158842 original size:142 final size:142
Alignment explanation
Indices: 65158586--65158870 Score: 543
Period size: 142 Copynumber: 2.0 Consensus size: 142
65158576 CAGCAATGAA
*
65158586 TGTCCACTGAAATAGCTTGAAGCTAAAGTTTGGTTCCTTAAAAGGGTAAACTGTTGAAATTGCAG
1 TGTCCACTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
*
65158651 TCAATGCACTTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATGCTCTTAACCGCAC
66 TCAATGCACCTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATGCTCTTAACCGCAC
65158716 TCAAATTCACGT
131 TCAAATTCACGT
*
65158728 TGTCCGCTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
1 TGTCCACTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
65158793 TCAATGCACCTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATGCTCTTAACCGCAC
66 TCAATGCACCTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATGCTCTTAACCGCAC
65158858 TCAAATTCACGT
131 TCAAATTCACGT
65158870 T
1 T
65158871 CTCAAGCTCG
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 140 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (142 bp):
TGTCCACTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
TCAATGCACCTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATGCTCTTAACCGCAC
TCAAATTCACGT
Found at i:65173142 original size:20 final size:21
Alignment explanation
Indices: 65173111--65173152 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
65173101 ATTATGTATT
65173111 AATATAATATCCGAT-ATAATA
1 AATATAATATCC-ATAATAATA
65173132 AATAT-ATATCCATAATAATA
1 AATATAATATCCATAATAATA
65173152 A
1 A
65173153 TAAAGGGTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 2 0.10
20 13 0.65
21 5 0.25
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (21 bp):
AATATAATATCCATAATAATA
Found at i:65177502 original size:25 final size:25
Alignment explanation
Indices: 65177474--65177550 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 25
65177464 TAGATTTAGT
65177474 TTGAGATTGATGTAACTATTGAATA
1 TTGAGATTGATGTAACTATTGAATA
* *
65177499 TT--GATT--T-T-ACAAATTTAATTA
1 TTGAGATTGATGTAAC-TATTGAA-TA
65177520 TTCTGAGATTGATGTAACTATTGAATA
1 -T-TGAGATTGATGTAACTATTGAATA
65177547 TTGA
1 TTGA
65177551 TTTTACAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 20
0.61 0.06 0.32
Matches are distributed among these distances:
19 2 0.05
20 6 0.16
21 3 0.08
22 1 0.03
23 5 0.13
25 9 0.24
26 1 0.03
27 3 0.08
28 6 0.16
29 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (25 bp):
TTGAGATTGATGTAACTATTGAATA
Found at i:65177534 original size:48 final size:48
Alignment explanation
Indices: 65177475--65177572 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
65177465 AGATTTAGTT
65177475 TGAGATTGATGTAACTATTGAATATTGATTTTACAAATTTAATTATTC
1 TGAGATTGATGTAACTATTGAATATTGATTTTACAAATTTAATTATTC
65177523 TGAGATTGATGTAACTATTGAATATTGATTTTACAAATTTAATTATTC
1 TGAGATTGATGTAACTATTGAATATTGATTTTACAAATTTAATTATTC
65177571 TG
1 TG
65177573 CCTAAAATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (48 bp):
TGAGATTGATGTAACTATTGAATATTGATTTTACAAATTTAATTATTC
Found at i:65180093 original size:15 final size:15
Alignment explanation
Indices: 65180073--65180102 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65180063 AAGAGCTTAT
*
65180073 TTAATAATACAATTA
1 TTAATAAAACAATTA
65180088 TTAATAAAACAATTA
1 TTAATAAAACAATTA
65180103 CTCTATCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
TTAATAAAACAATTA
Found at i:65196230 original size:18 final size:18
Alignment explanation
Indices: 65196207--65196242 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
65196197 AGGAGGAACC
65196207 GGCTCTTCCTACAAATTA
1 GGCTCTTCCTACAAATTA
65196225 GGCTCTTCCTACAAATTA
1 GGCTCTTCCTACAAATTA
65196243 TCCTCTGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (18 bp):
GGCTCTTCCTACAAATTA
Found at i:65196248 original size:18 final size:18
Alignment explanation
Indices: 65196209--65196248 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
65196199 GAGGAACCGG
*
65196209 CTCTTCCTACAAATTAGG
1 CTCTTCCTACAAATTAGC
*
65196227 CTCTTCCTACAAATTATC
1 CTCTTCCTACAAATTAGC
65196245 CTCT
1 CTCT
65196249 GCCAGCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.38
Consensus pattern (18 bp):
CTCTTCCTACAAATTAGC
Found at i:65202418 original size:63 final size:63
Alignment explanation
Indices: 65202341--65202467 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
65202331 TTAATGGATA
65202341 TTTAGAACTGCTCGAGCTCGAGTTCAGTTTAATAATTATCAAATTAAATTCGAATAATTTACG
1 TTTAGAACTGCTCGAGCTCGAGTTCAGTTTAATAATTATCAAATTAAATTCGAATAATTTACG
65202404 TTTAGAACTGCTCGAGCTCGAGTTCAGTTTAATAATTATCAAATTAAATTCGAATAATTTACG
1 TTTAGAACTGCTCGAGCTCGAGTTCAGTTTAATAATTATCAAATTAAATTCGAATAATTTACG
65202467 T
1 T
65202468 ACACCTATAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (63 bp):
TTTAGAACTGCTCGAGCTCGAGTTCAGTTTAATAATTATCAAATTAAATTCGAATAATTTACG
Found at i:65203139 original size:31 final size:31
Alignment explanation
Indices: 65203104--65203162 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
65203094 TATTTAGAGT
*
65203104 TTAAATTTGTTAATTATTCTCATATTAAAGC
1 TTAAATTTGATAATTATTCTCATATTAAAGC
*
65203135 TTAAATTTGATAATTATTTTCATATTAA
1 TTAAATTTGATAATTATTCTCATATTAA
65203163 TGTTTGAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (31 bp):
TTAAATTTGATAATTATTCTCATATTAAAGC
Found at i:65208357 original size:12 final size:12
Alignment explanation
Indices: 65208340--65208377 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
65208330 TACACTTCCC
*
65208340 CCACCTCCACCT
1 CCACCTCCGCCT
65208352 CCACCTCCGCCT
1 CCACCTCCGCCT
*
65208364 CCGCCTCCGCCT
1 CCACCTCCGCCT
65208376 CC
1 CC
65208378 TGTACCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.08, C:0.68, G:0.08, T:0.16
Consensus pattern (12 bp):
CCACCTCCGCCT
Found at i:65208370 original size:18 final size:18
Alignment explanation
Indices: 65208343--65208377 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65208333 ACTTCCCCCA
65208343 CCTCCACCTCCACCTCCG
1 CCTCCACCTCCACCTCCG
* *
65208361 CCTCCGCCTCCGCCTCC
1 CCTCCACCTCCACCTCC
65208378 TGTACCAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.69, G:0.09, T:0.17
Consensus pattern (18 bp):
CCTCCACCTCCACCTCCG
Found at i:65208391 original size:60 final size:60
Alignment explanation
Indices: 65208295--65208438 Score: 207
Period size: 60 Copynumber: 2.4 Consensus size: 60
65208285 ACTTCCACCC
* * *
65208295 CCGCCTCCACCTCCTCCCCCTCCTGTACCAAAATGTACACTTCCCCCACCTCCACCTCCA
1 CCGCCGCCACCACCTCCACCTCCTGTACCAAAATGTACACTTCCCCCACCTCCACCTCCA
* * * * * *
65208355 CCTCCGCCTCCGCCTCCGCCTCCTGTACCAAAATGTACATTTCCCCCACCTCCACCTCCT
1 CCGCCGCCACCACCTCCACCTCCTGTACCAAAATGTACACTTCCCCCACCTCCACCTCCA
65208415 CCGCCGCCACCACCTCCACCTCCT
1 CCGCCGCCACCACCTCCACCTCCT
65208439 CCGCCGCCTC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 73 1.00
ACGTcount: A:0.16, C:0.57, G:0.07, T:0.20
Consensus pattern (60 bp):
CCGCCGCCACCACCTCCACCTCCTGTACCAAAATGTACACTTCCCCCACCTCCACCTCCA
Found at i:65208429 original size:24 final size:24
Alignment explanation
Indices: 65208400--65208446 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
65208390 TACATTTCCC
65208400 CCACCTCCACCTCCTCCGCCGCCA
1 CCACCTCCACCTCCTCCGCCGCCA
65208424 CCACCTCCACCTCCTCCGCCGCC
1 CCACCTCCACCTCCTCCGCCGCC
65208447 TCCTTGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.11, C:0.68, G:0.09, T:0.13
Consensus pattern (24 bp):
CCACCTCCACCTCCTCCGCCGCCA
Found at i:65210951 original size:27 final size:27
Alignment explanation
Indices: 65210921--65210988 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
65210911 ACCATTAAAC
* *
65210921 CGTGGCTAAAATGTTACAACACGAAAA
1 CGTGACTAAAACGTTACAACACGAAAA
*
65210948 CGTGACTAAAACGTTATAACACGAAAA
1 CGTGACTAAAACGTTACAACACGAAAA
*
65210975 CATGACTAAAACGT
1 CGTGACTAAAACGT
65210989 AAGATTTCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (27 bp):
CGTGACTAAAACGTTACAACACGAAAA
Found at i:65214360 original size:11 final size:11
Alignment explanation
Indices: 65214344--65214400 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
65214334 ATATATACTA
65214344 AATAAAATAAT
1 AATAAAATAAT
65214355 AATAAAATAAT
1 AATAAAATAAT
*
65214366 ATTTAAAATCAA-
1 A-ATAAAAT-AAT
* *
65214378 ATTAAAATATT
1 AATAAAATAAT
*
65214389 AATAAACTAAT
1 AATAAAATAAT
65214400 A
1 A
65214401 TTTATTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 28 0.74
12 7 0.18
13 2 0.05
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:65214870 original size:23 final size:23
Alignment explanation
Indices: 65214844--65214890 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
65214834 TTTCTTACTG
*
65214844 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCGGGATATTACAA
*
65214867 TAGTAATTTTTGGGATATTACAA
1 TAGTAATTTTCGGGATATTACAA
65214890 T
1 T
65214891 TAGGGTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAA
Found at i:65215866 original size:14 final size:14
Alignment explanation
Indices: 65215847--65215873 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
65215837 AAGAAAGACG
65215847 TATGAAAATTTTAT
1 TATGAAAATTTTAT
65215861 TATGAAAATTTTA
1 TATGAAAATTTTA
65215874 CCAATTTCAT
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:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
TATGAAAATTTTAT
Found at i:65217319 original size:25 final size:25
Alignment explanation
Indices: 65217288--65217353 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
65217278 GGCTCTCATG
*
65217288 AGCTTCCCGTTATATGACCCAGATA
1 AGCTTCCCGTTATATGACCCACATA
* * * * * *
65217313 AGTTTCCTGTAACATGACTCACATG
1 AGCTTCCCGTTATATGACCCACATA
65217338 AGCTTCCCGTTATATG
1 AGCTTCCCGTTATATG
65217354 GCTTGAGAGG
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (25 bp):
AGCTTCCCGTTATATGACCCACATA
Found at i:65224770 original size:21 final size:20
Alignment explanation
Indices: 65224744--65224793 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
65224734 ATATCAATTT
65224744 TTTTAAAAAATATTCATATAA
1 TTTTAAAAAATATTCA-ATAA
** *
65224765 TTTTAATTTAATATTTAATAA
1 TTTTAA-AAAATATTCAATAA
65224786 TTTTAAAA
1 TTTTAAAA
65224794 TATTTTTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTAAAAAATATTCAATAA
Found at i:65224795 original size:18 final size:19
Alignment explanation
Indices: 65224750--65224798 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
65224740 ATTTTTTTAA
*
65224750 AAAATATTCATATAATTTT
1 AAAATATTTATATAATTTT
65224769 AATTTAATATTTA-ATAATTTT
1 AA---AATATTTATATAATTTT
65224790 AAAATATTT
1 AAAATATTT
65224799 TTCATATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 7 0.27
19 2 0.08
21 10 0.38
22 7 0.27
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAAATATTTATATAATTTT
Found at i:65227413 original size:32 final size:33
Alignment explanation
Indices: 65227371--65227455 Score: 90
Period size: 32 Copynumber: 2.6 Consensus size: 33
65227361 TTAGGCCTCC
65227371 TATATTTATTTTT-AT-TTTAATATATATTTATAT
1 TATATTTATTTTTAATATTTAATA-AT-TTTATAT
65227404 TATA-TTATTTTTAATATTTAATAATTTTATACT
1 TATATTTATTTTTAATATTTAATAATTTTATA-T
*
65227437 T-T-TTTATTTATTAAAATTT
1 TATATTTATTT-TTAATATTT
65227456 TTTTATATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
32 21 0.46
33 18 0.39
34 7 0.15
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (33 bp):
TATATTTATTTTTAATATTTAATAATTTTATAT
Found at i:65227416 original size:16 final size:16
Alignment explanation
Indices: 65227371--65227434 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
65227361 TTAGGCCTCC
*
65227371 TATATTTATTTTTATTT
1 TATA-TTATTTTTATAT
*
65227388 TA-ATATATATTTATAT
1 TATAT-TATTTTTATAT
65227404 TATATTATTTTTAATAT
1 TATATTATTTTT-ATAT
* *
65227421 T-TAATAATTTTATA
1 TATATTATTTTTATA
65227435 CTTTTTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
15 4 0.10
16 26 0.67
17 9 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTATTTTTATAT
Found at i:65227420 original size:23 final size:22
Alignment explanation
Indices: 65227393--65227496 Score: 72
Period size: 23 Copynumber: 4.7 Consensus size: 22
65227383 TATTTTAATA
65227393 TATATTTATATTATATTATTTT
1 TATATTTATATTATATTATTTT
*
65227415 TAATATTTAATAATTTTA-TACTTTT
1 T-ATATTT-AT-ATTATATTA-TTTT
* *
65227440 T-TATTTAT-TAAAATT-TTTT
1 TATATTTATATTATATTATTTT
* *
65227459 TATATTTATCTTAACATTATTTT
1 TATATTTATATT-ATATTATTTT
* *
65227482 AATGTTTATATTATA
1 TATATTTATATTATA
65227497 ATAATATTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
19 5 0.08
20 9 0.14
21 2 0.03
22 9 0.14
23 24 0.38
24 4 0.06
25 10 0.16
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (22 bp):
TATATTTATATTATATTATTTT
Found at i:65227433 original size:27 final size:26
Alignment explanation
Indices: 65227385--65227442 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
65227375 TTTATTTTTA
* * *
65227385 TTTTAATATATATTTATATTATATTAT
1 TTTTAATATATAATAATATTATACT-T
* *
65227412 TTTTAATATTTAATAATTTTATACTT
1 TTTTAATATATAATAATATTATACTT
65227438 TTTTA
1 TTTTA
65227443 TTTATTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTAATATATAATAATATTATACTT
Found at i:65233745 original size:27 final size:28
Alignment explanation
Indices: 65233689--65233749 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
65233679 TTGAACCCCG
65233689 AACTCCGAACTTAGAACCTTGAATCCTA
1 AACTCCGAACTTAGAACCTTGAATCCTA
*
65233717 AACTCCGAACTT-GAATCTTGAA-CCTTA
1 AACTCCGAACTTAGAACCTTGAATCC-TA
65233744 AACTCC
1 AACTCC
65233750 AAAATCGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
26 2 0.06
27 17 0.55
28 12 0.39
ACGTcount: A:0.34, C:0.30, G:0.10, T:0.26
Consensus pattern (28 bp):
AACTCCGAACTTAGAACCTTGAATCCTA
Found at i:65233759 original size:27 final size:26
Alignment explanation
Indices: 65233706--65233766 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
65233696 AACTTAGAAC
* * *
65233706 CTTGAATCCTAAACTCCGAACTTGAAT
1 CTTGAA-CCTAAACTCCAAAATCGAAT
65233733 CTTGAACCTTAAACTCCAAAATCGAAT
1 CTTGAACC-TAAACTCCAAAATCGAAT
*
65233760 CTCGAAC
1 CTTGAAC
65233767 TCGAATACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (26 bp):
CTTGAACCTAAACTCCAAAATCGAAT
Found at i:65247853 original size:60 final size:63
Alignment explanation
Indices: 65247780--65247903 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 63
65247770 TTGCAAATTC
* *
65247780 AAATATATTTTAA-T-T-TGTCATAATTTTAGAATTTCTTTTTTAGGTTAGAATTAACTTGGG
1 AAATATATTTTAATTATATATCATAATTTTAGAATTTCTTTTGTAGGTTAGAATTAACTTGGG
65247840 AAATATATTTTAATTTATATATCATAATTTTAGAATTTCTTTTGTAGGTTAGAATTAACTTGGG
1 AAATATATTTTAA-TTATATATCATAATTTTAGAATTTCTTTTGTAGGTTAGAATTAACTTGGG
65247904 GTTTCACCTA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
60 13 0.22
62 1 0.02
63 1 0.02
64 43 0.74
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (63 bp):
AAATATATTTTAATTATATATCATAATTTTAGAATTTCTTTTGTAGGTTAGAATTAACTTGGG
Found at i:65248263 original size:21 final size:21
Alignment explanation
Indices: 65248233--65248282 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 21
65248223 TTTATCCTTT
*
65248233 TTTTTCTTAATTAAAATATTA
1 TTTTTATTAATTAAAATATTA
65248254 TTTTTATT-A--AAAATATTA
1 TTTTTATTAATTAAAATATTA
*
65248272 ATTTTA-TAATT
1 TTTTTATTAATT
65248283 GATACTGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
17 1 0.04
18 15 0.62
20 1 0.04
21 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTTATTAATTAAAATATTA
Found at i:65266689 original size:21 final size:21
Alignment explanation
Indices: 65266663--65266718 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
65266653 AATAGCGGTG
*
65266663 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
65266684 GCGGTGAAATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
65266705 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
65266719 AACAATGGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:65266924 original size:30 final size:29
Alignment explanation
Indices: 65266887--65267043 Score: 224
Period size: 30 Copynumber: 5.2 Consensus size: 29
65266877 ATTCATTTAA
65266887 TAAAATACACTACATATATTTTTTTATTT
1 TAAAATACACTACATATATTTTTTTATTT
*
65266916 CTAGAATACACTACATATATTTTTTTTATTT
1 -TAAAATACACTACATATA-TTTTTTTATTT
65266947 TGAAAATACACTACATATATTTTTTTATTTT
1 T-AAAATACACTACATATATTTTTTTA-TTT
*
65266978 TAAAATACACTACATGTATTTTTTTATTAT
1 TAAAATACACTACATATATTTTTTTATT-T
* *
65267008 TAAAATCCATTACATATATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTA-TTT
65267038 TAAAAT
1 TAAAAT
65267044 TTTAAATACA
Statistics
Matches: 116, Mismatches: 6, Indels: 10
0.88 0.05 0.08
Matches are distributed among these distances:
29 2 0.02
30 81 0.70
31 33 0.28
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (29 bp):
TAAAATACACTACATATATTTTTTTATTT
Found at i:65266953 original size:61 final size:60
Alignment explanation
Indices: 65266887--65267043 Score: 235
Period size: 61 Copynumber: 2.6 Consensus size: 60
65266877 ATTCATTTAA
*
65266887 TAAAATACACTACATATATTTTTTTATTTCTAGAATACACTACATATATTTTTTTTATT-T
1 TAAAATACACTACATATATTTTTTTATTTCTAAAATACACTACATATA-TTTTTTTATTAT
* *
65266947 TGAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACATGTATTTTTTTATTAT
1 T-AAAATACACTACATATATTTTTTTATTTCTAAAATACACTACATATATTTTTTTATTAT
* * *
65267008 TAAAATCCATTACATATATTTTTTTATTTTTAAAAT
1 TAAAATACACTACATATATTTTTTTATTTCTAAAAT
65267044 TTTAAATACA
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
60 44 0.49
61 46 0.51
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (60 bp):
TAAAATACACTACATATATTTTTTTATTTCTAAAATACACTACATATATTTTTTTATTAT
Found at i:65268007 original size:22 final size:23
Alignment explanation
Indices: 65267981--65268026 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
65267971 AAATATTAGC
*
65267981 ATTATAA-AAATTGAATGATAAA
1 ATTATAATAAATTAAATGATAAA
*
65268003 ATTATAATAAATTAAATTATAAA
1 ATTATAATAAATTAAATGATAAA
65268026 A
1 A
65268027 ATTTGAACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
ATTATAATAAATTAAATGATAAA
Found at i:65279593 original size:49 final size:49
Alignment explanation
Indices: 65279536--65279634 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
65279526 AATCGCGTAC
65279536 TAATCAATTTGAAACCTGTATAAGTTTTACCATTGAA-CTCGTGGTGTGA
1 TAATCAATTTGAAACCTGTATAAGTTTTACCATTGAATCT-GTGGTGTGA
**
65279585 TAATCAATTTGAAATTTGTATAAGTTTTACCATTGAATCTGTGGTGTGA
1 TAATCAATTTGAAACCTGTATAAGTTTTACCATTGAATCTGTGGTGTGA
65279634 T
1 T
65279635 GATACGCTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 45 0.96
50 2 0.04
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.40
Consensus pattern (49 bp):
TAATCAATTTGAAACCTGTATAAGTTTTACCATTGAATCTGTGGTGTGA
Found at i:65285883 original size:20 final size:21
Alignment explanation
Indices: 65285843--65285883 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
65285833 TTTATTTATT
*
65285843 TGATTTTTTTTGAAATATTTA
1 TGATTTTTTTTAAAATATTTA
65285864 TGATTTTTTTTAAAAT-TTTA
1 TGATTTTTTTTAAAATATTTA
65285884 CTAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (21 bp):
TGATTTTTTTTAAAATATTTA
Found at i:65291428 original size:42 final size:40
Alignment explanation
Indices: 65291363--65291471 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 40
65291353 AGCTGCATAA
* * *
65291363 TTGGCAAGAAAGCTCGTCAAACTGAGCAAGTTTTCTACACAG
1 TTGGCAAGAAAGCTCATCCAACTGAG-AA-CTTTCTACACAG
* *
65291405 TTGGCAAGAAAACTCATCCAACTGGGAGAACTTTCTACATAG
1 TTGGCAAGAAAGCTCATCCAACT--GAGAACTTTCTACACAG
* * *
65291447 TTGACAGGAAAGCTCTTCCAACTGA
1 TTGGCAAGAAAGCTCATCCAACTGA
65291472 ACGAGCTTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.04
42 49 0.88
43 2 0.04
44 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (40 bp):
TTGGCAAGAAAGCTCATCCAACTGAGAACTTTCTACACAG
Found at i:65291481 original size:42 final size:42
Alignment explanation
Indices: 65291367--65291485 Score: 107
Period size: 42 Copynumber: 2.9 Consensus size: 42
65291357 GCATAATTGG
* * * * * *
65291367 CAAGAAAGCTCGTCAAACTGAGCAAGTTTTCTACACAGTTGG
1 CAAGAAAGCTCATCCAACTGAACGAGCTTTCTACACAGTTGA
* * * *
65291409 CAAGAAAACTCATCCAACTGGGA-GAACTTTCTACATAGTTGA
1 CAAGAAAGCTCATCCAACT-GAACGAGCTTTCTACACAGTTGA
* *
65291451 CAGGAAAGCTCTTCCAACTGAACGAGCTTTC-ACAC
1 CAAGAAAGCTCATCCAACTGAACGAGCTTTCTACAC
65291486 CCTCTAAAAA
Statistics
Matches: 59, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
41 5 0.08
42 53 0.90
43 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (42 bp):
CAAGAAAGCTCATCCAACTGAACGAGCTTTCTACACAGTTGA
Found at i:65295907 original size:30 final size:29
Alignment explanation
Indices: 65295844--65295907 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
65295834 TAAGAATTAT
* *
65295844 AAATTTAGTTTCTATATTTTTATTTTTAG
1 AAATTTAATTTCTATATTTTTAATTTTAG
*
65295873 AAATTTAATTTCTCTAATTTTTAGATTTTA-
1 AAATTTAATTTCTAT-ATTTTTA-ATTTTAG
65295903 AAATT
1 AAATT
65295908 CAAGTCCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 13 0.43
30 12 0.40
31 5 0.17
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (29 bp):
AAATTTAATTTCTATATTTTTAATTTTAG
Found at i:65298140 original size:28 final size:27
Alignment explanation
Indices: 65298104--65298175 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
65298094 TTTCTTTATA
*
65298104 TATATATTTTAGAATTTTTAAAAAATAT
1 TATAAATTTTAGAATTTTT-AAAAATAT
*
65298132 TATAAATTTT-GAAATTTTTATAAATAT
1 TATAAATTTTAG-AATTTTTAAAAATAT
* * *
65298159 TTTGAATTTTAAAATTT
1 TATAAATTTTAGAATTT
65298176 ATTTTGATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (27 bp):
TATAAATTTTAGAATTTTTAAAAATAT
Found at i:65302019 original size:21 final size:20
Alignment explanation
Indices: 65301973--65302020 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
65301963 AACCCTACTG
* * *
65301973 TTTTCGTTGTTGTTTTTTCA
1 TTTTTGTTGTTATTTTATCA
65301993 TATTTTGTTGTTATTTTATCA
1 T-TTTTGTTGTTATTTTATCA
65302014 CTTTTTG
1 -TTTTTG
65302021 CCACTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.10, C:0.08, G:0.12, T:0.69
Consensus pattern (20 bp):
TTTTTGTTGTTATTTTATCA
Found at i:65302274 original size:16 final size:17
Alignment explanation
Indices: 65302243--65302276 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
65302233 TATATTTTAA
*
65302243 AAAATTATATAAAAAAT
1 AAAATTATAAAAAAAAT
65302260 AAAATT-TAAAAAAAAT
1 AAAATTATAAAAAAAAT
65302276 A
1 A
65302277 CGAGTCCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATTATAAAAAAAAT
Found at i:65303001 original size:15 final size:13
Alignment explanation
Indices: 65302975--65303009 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
65302965 TTTATTAGTA
65302975 TTTATTTTAAATT
1 TTTATTTTAAATT
65302988 TTTATTTGTAAAATT
1 TTTATTT-T-AAATT
65303003 TTTATTT
1 TTTATTT
65303010 AATATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 1 0.05
15 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTATTTTAAATT
Found at i:65305202 original size:21 final size:19
Alignment explanation
Indices: 65305155--65305203 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
65305145 TTTTAGATAC
*
65305155 ATATTTTTTTTTATAATTT
1 ATATTTTATTTTATAATTT
* *
65305174 ATAGTTTATTTTATATTTT
1 ATATTTTATTTTATAATTT
65305193 AAATATTTTAT
1 --ATATTTTAT
65305204 AAGTACCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.67
21 8 0.33
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
ATATTTTATTTTATAATTT
Found at i:65305321 original size:21 final size:22
Alignment explanation
Indices: 65305277--65305324 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
65305267 TATAATTAAA
65305277 TATAAAAACATATAATATTATT
1 TATAAAAACATATAATATTATT
*
65305299 TATATAAACA-ATAAT-TTATTT
1 TATAAAAACATATAATATTA-TT
65305320 TATAA
1 TATAA
65305325 CTTTTCGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 11 0.48
22 9 0.39
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
TATAAAAACATATAATATTATT
Found at i:65312402 original size:42 final size:42
Alignment explanation
Indices: 65312307--65312408 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 42
65312297 TTATTAAATC
65312307 ATTAA-CATAAAAATCAATCGTTCAACAATTTATAAGCAAAAA
1 ATTAACCA-AAAAATCAATCGTTCAACAATTTATAAGCAAAAA
** * * * * *
65312349 ACGAACAAAAAAATCAA-CAGTTTAATAATTTATATGCAACAA
1 ATTAACCAAAAAATCAATC-GTTCAACAATTTATAAGCAAAAA
*
65312391 ATTAACCAAAAAAACAAT
1 ATTAACCAAAAAATCAAT
65312409 AATTTAAGTT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.24
Consensus pattern (42 bp):
ATTAACCAAAAAATCAATCGTTCAACAATTTATAAGCAAAAA
Found at i:65319706 original size:81 final size:81
Alignment explanation
Indices: 65319571--65319732 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
65319561 TTTGAATGAG
65319571 GTGTCTCCATTAATAAATGCAACTCTCAATATTCTTTCTTCTCTATTGGAATTCCTTCTCAATCT
1 GTGTCTCCATTAATAAATGCAACTCTCAATATTCTTTCTTCTCTATTGGAATTCCTTCTCAATCT
65319636 GCCCAGACAGCCTCTC
66 GCCCAGACAGCCTCTC
65319652 GTGTCTCCATTAATAAATGCAACTCTCAATATTCTTTCTTCTCTATTGGAATTCCTTCTCAATCT
1 GTGTCTCCATTAATAAATGCAACTCTCAATATTCTTTCTTCTCTATTGGAATTCCTTCTCAATCT
65319717 GCCCAGACAGCCTCTC
66 GCCCAGACAGCCTCTC
65319733 TTTCTACACC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.23, C:0.30, G:0.10, T:0.37
Consensus pattern (81 bp):
GTGTCTCCATTAATAAATGCAACTCTCAATATTCTTTCTTCTCTATTGGAATTCCTTCTCAATCT
GCCCAGACAGCCTCTC
Found at i:65323573 original size:47 final size:47
Alignment explanation
Indices: 65323504--65323597 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
65323494 CAAGTGCCCT
* *
65323504 AATCGATACGTATCTCTCGTTTGTTACAAGGAAAGATGGAAAGCATG
1 AATCGATACGTAGCTCTCGTTTGTGACAAGGAAAGATGGAAAGCATG
* *
65323551 AATCGATACGTAGCTCTGGTTTGTGACAAGGAAATATGGAAAGCATG
1 AATCGATACGTAGCTCTCGTTTGTGACAAGGAAAGATGGAAAGCATG
65323598 GGTCAGCCGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (47 bp):
AATCGATACGTAGCTCTCGTTTGTGACAAGGAAAGATGGAAAGCATG
Found at i:65327656 original size:14 final size:14
Alignment explanation
Indices: 65327635--65327667 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
65327625 GCTCATTTAT
65327635 TTAT-TTATTATTA
1 TTATATTATTATTA
*
65327648 TTATATTATTATTT
1 TTATATTATTATTA
65327662 TTATAT
1 TTATAT
65327668 ACTATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATATTATTATTA
Found at i:65327753 original size:47 final size:45
Alignment explanation
Indices: 65327644--65327756 Score: 113
Period size: 47 Copynumber: 2.4 Consensus size: 45
65327634 TTTATTTATT
* *
65327644 ATTATTATATTAT-TATTTTTATATACTATAATATATATGTCTAAA
1 ATTATTATATTATATATATTTATAAACTATAATATATA-GTCTAAA
* * * *
65327689 ATTATTACGAATCTATATATTTATAAACTTTAATATATA-TCTAATA
1 ATTATTA-TATTATATATATTTATAAACTATAATATATAGTCTAA-A
65327735 ATAATATTATATTATATATATT
1 AT--TATTATATTATATATATT
65327757 CAATATTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
45 12 0.22
46 6 0.11
47 31 0.57
48 5 0.09
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.50
Consensus pattern (45 bp):
ATTATTATATTATATATATTTATAAACTATAATATATAGTCTAAA
Found at i:65362439 original size:130 final size:129
Alignment explanation
Indices: 65362218--65362482 Score: 347
Period size: 130 Copynumber: 2.0 Consensus size: 129
65362208 TTAAACATTT
* * * *
65362218 TGAAAAGCTATCGATTCGAAAACGGGATAGTGTGAGCTTCTGAACATCAGCCTGATATATTCCAA
1 TGAAAAGCTACCGATTCGAAAACAGGA-AGTGTGAGCTTCTGAACATCAGCCTAACATATTCCAA
* * *
65362283 AGTGACAATGCATAAGGAAAGAGGAAACACTGGAGTAAGCACATTGAATGCCTAGTAAGTTCATA
65 AGTGACAATGCACAAGGAAAGAGGAAACACTGAAGTAAGCACATTGAATGCCTAGTAAGTCCATA
* *
65362348 TGAAAAGCTACCGATTCGAAAACAGG-AGTGTGAGCTTCTGAACGATCCGTCTAACATATTCTAC
1 TGAAAAGCTACCGATTCGAAAACAGGAAGTGTGAGCTTCTGAAC-ATCAGCCTAACATATTC--C
* * * * *
65362412 AAAGTGACAATGTACAAGGAAAG-GGAAACATTGAAGTAAGTATATTGAATGCTTAGTAAGTCCA
63 AAAGTGACAATGCACAAGGAAAGAGGAAACACTGAAGTAAGCACATTGAATGCCTAGTAAGTCCA
65362476 TA
128 TA
65362478 T-AAAA
1 TGAAAA
65362483 TTTACTTAGC
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
128 17 0.14
129 17 0.14
130 62 0.53
131 22 0.19
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (129 bp):
TGAAAAGCTACCGATTCGAAAACAGGAAGTGTGAGCTTCTGAACATCAGCCTAACATATTCCAAA
GTGACAATGCACAAGGAAAGAGGAAACACTGAAGTAAGCACATTGAATGCCTAGTAAGTCCATA
Found at i:65363953 original size:4 final size:4
Alignment explanation
Indices: 65363944--65363971 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
65363934 TTAATAAATC
65363944 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
65363972 ACATTAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:65365166 original size:29 final size:30
Alignment explanation
Indices: 65365107--65365164 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
65365097 TCCGAGCCTT
*
65365107 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
65365137 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
65365165 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:65365394 original size:13 final size:13
Alignment explanation
Indices: 65365376--65365407 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
65365366 TTTCCAGCAA
65365376 TTATGAATTTATT
1 TTATGAATTTATT
65365389 TTATGAATTTATT
1 TTATGAATTTATT
*
65365402 TGATGA
1 TTATGA
65365408 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:65365615 original size:50 final size:50
Alignment explanation
Indices: 65365502--65365743 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
65365492 ATTTGGGTAA
* * *
65365502 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
65365558 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
65365608 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
65365658 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
65365708 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
65365744 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:65365691 original size:100 final size:103
Alignment explanation
Indices: 65365502--65365751 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
65365492 ATTTGGGTAA
65365502 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
65365567 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
65365608 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
65365670 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
65365708 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
65365752 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:65372754 original size:29 final size:30
Alignment explanation
Indices: 65372695--65372752 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
65372685 TCCGAGCCTT
*
65372695 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
65372725 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
65372753 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:65372982 original size:13 final size:13
Alignment explanation
Indices: 65372964--65372995 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
65372954 TTTCCAGCAA
65372964 TTATGAATTTATT
1 TTATGAATTTATT
65372977 TTATGAATTTATT
1 TTATGAATTTATT
*
65372990 TGATGA
1 TTATGA
65372996 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:65373203 original size:50 final size:50
Alignment explanation
Indices: 65373090--65373331 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
65373080 ATTTGGGTAA
* * *
65373090 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
65373146 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
65373196 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
65373246 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
65373296 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
65373332 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:65373279 original size:100 final size:103
Alignment explanation
Indices: 65373090--65373339 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
65373080 ATTTGGGTAA
65373090 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
65373155 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
65373196 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
65373258 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
65373296 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
65373340 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:65374991 original size:39 final size:39
Alignment explanation
Indices: 65374942--65375051 Score: 114
Period size: 39 Copynumber: 2.8 Consensus size: 39
65374932 TCGTTACCTG
* * *
65374942 AGGATATGCAACAAAGGCTACATCTTATTATATTACCCA
1 AGGATCTGCAACAAAGGCTAGATCTCATTATATTACCCA
* * * * *
65374981 AGGGTCTGCAACGAATGCTAGATCTCGTTATATTACCTA
1 AGGATCTGCAACAAAGGCTAGATCTCATTATATTACCCA
* *
65375020 AGGATCTACAA-AAAGTGCTAGATCTCGTTATA
1 AGGATCTGCAACAAAG-GCTAGATCTCATTATA
65375052 ATCTATACAA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
38 2 0.03
39 56 0.97
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (39 bp):
AGGATCTGCAACAAAGGCTAGATCTCATTATATTACCCA
Found at i:65385781 original size:22 final size:22
Alignment explanation
Indices: 65385756--65385799 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
65385746 CATAAATTTT
*
65385756 TTTAAAAAAATATAATAATAAA
1 TTTAAAAAAATATAAAAATAAA
*
65385778 TTTAAAAATATATAAAAATAAA
1 TTTAAAAAAATATAAAAATAAA
65385800 AATATTGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
TTTAAAAAAATATAAAAATAAA
Found at i:65385792 original size:16 final size:16
Alignment explanation
Indices: 65385761--65385804 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 16
65385751 ATTTTTTTAA
65385761 AAAAATATAATAATAAATTT
1 AAAAATAT-ATAA-AAA--T
65385781 AAAAATATATAAAAAT
1 AAAAATATATAAAAAT
65385797 AAAAATAT
1 AAAAATAT
65385805 TGTTGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.38
18 3 0.12
19 4 0.17
20 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATATATAAAAAT
Found at i:65385864 original size:21 final size:21
Alignment explanation
Indices: 65385840--65385880 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65385830 AAATTCAAAG
65385840 TAATATATAAAAATA-AATAAA
1 TAATATA-AAAAATATAATAAA
*
65385861 TAATTTAAAAAATATAATAA
1 TAATATAAAAAATATAATAA
65385881 TTTATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAATATAAAAAATATAATAAA
Found at i:65385870 original size:55 final size:51
Alignment explanation
Indices: 65385736--65385881 Score: 145
Period size: 57 Copynumber: 2.7 Consensus size: 51
65385726 CAAAGAACTT
* * *
65385736 TATAAAAATACATAAATTTTTTTAAAAAA-ATATAATAATAAATTTAAAAATA
1 TATAAAAATAAATAAA-TTATTTAAAAAATAT-TAATAATAAATTCAAAAATA
*
65385788 TATAAAAATAAA-AATATTGTTGATAAAAAATATTAATATATAAAATTCAAAGTAATA
1 TATAAAAATAAATAA-ATTATT--TAAAAAATATTAATA-AT-AAATTCAAA--AATA
*
65385845 TATAAAAATAAATAAATAATTTAAAAAATA-TAATAAT
1 TATAAAAATAAATAAATTATTTAAAAAATATTAATAAT
65385882 TTATTTAAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
51 6 0.08
52 12 0.15
53 14 0.17
54 9 0.11
55 17 0.21
57 20 0.25
58 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (51 bp):
TATAAAAATAAATAAATTATTTAAAAAATATTAATAATAAATTCAAAAATA
Found at i:65385871 original size:20 final size:21
Alignment explanation
Indices: 65385848--65385890 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
65385838 AGTAATATAT
65385848 AAAAATA-AATAAATAATTTA
1 AAAAATATAATAAATAATTTA
* *
65385868 AAAAATATAATAATTTATTTA
1 AAAAATATAATAAATAATTTA
65385889 AA
1 AA
65385891 TTTATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATATAATAAATAATTTA
Found at i:65386573 original size:22 final size:20
Alignment explanation
Indices: 65386537--65386594 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
65386527 GGGCCGGCCC
65386537 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
65386559 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
*
65386580 A-GTATTTTAAAAATA
1 ATTTATTTTAAAAATA
65386595 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 2 0.06
20 11 0.33
21 5 0.15
22 7 0.21
23 8 0.24
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:65386605 original size:30 final size:31
Alignment explanation
Indices: 65386562--65386651 Score: 105
Period size: 31 Copynumber: 3.0 Consensus size: 31
65386552 ACCAAAAATT
* * **
65386562 TATTTTAAAAATTAAAAAAGTATTTTAAAAA-
1 TATTTT-AAAATTAAAAAAATAATAAAAAAAG
65386593 TATTTTAAAATTAAAAAAATAATAAAAAAAG
1 TATTTTAAAATTAAAAAAATAATAAAAAAAG
*
65386624 TATTTTAAAATTGAAAAAAT--TAAAAAAA
1 TATTTTAAAATTAAAAAAATAATAAAAAAA
65386652 TAAATATATT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
29 8 0.15
30 20 0.38
31 25 0.47
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (31 bp):
TATTTTAAAATTAAAAAAATAATAAAAAAAG
Found at i:65386643 original size:40 final size:42
Alignment explanation
Indices: 65386575--65386654 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 42
65386565 TTTAAAAATT
***
65386575 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAATA
1 AAAAAAGTATTTTAAAAATATGAAAAAATTAAAAAAATAATA
65386617 AAAAAAGTATTTT-AAAAT-TGAAAAAATTAAAAAAATAA
1 AAAAAAGTATTTTAAAAATATGAAAAAATTAAAAAAATAA
65386655 ATATATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 17 0.49
41 5 0.14
42 13 0.37
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (42 bp):
AAAAAAGTATTTTAAAAATATGAAAAAATTAAAAAAATAATA
Found at i:65389042 original size:18 final size:17
Alignment explanation
Indices: 65389019--65389052 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65389009 CAACTTTTTC
*
65389019 TTTTTTTGAAAATACAA
1 TTTTTTTTAAAATACAA
65389036 TTTTTTTTAAAATACAA
1 TTTTTTTTAAAATACAA
65389053 GAATTTTAAA
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:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTTTTTTAAAATACAA
Found at i:65389104 original size:21 final size:19
Alignment explanation
Indices: 65389073--65389134 Score: 88
Period size: 21 Copynumber: 3.1 Consensus size: 19
65389063 AACACGAAAA
65389073 TTTTGAAACACGAGATTTTT
1 TTTTGAAACACGA-ATTTTT
65389093 TTTTGAAAACACGAATTTTCT
1 TTTTG-AAACACGAATTTT-T
65389114 TTTTGAAACACGAAATTTTT
1 TTTTGAAACACG-AATTTTT
65389134 T
1 T
65389135 AAAACACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
20 19 0.49
21 20 0.51
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTTGAAACACGAATTTTT
Found at i:65389146 original size:17 final size:17
Alignment explanation
Indices: 65389113--65389148 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
65389103 ACGAATTTTC
* *
65389113 TTTTTGAAACACGAAAT
1 TTTTTAAAACACAAAAT
65389130 TTTTTAAAACACAAAAT
1 TTTTTAAAACACAAAAT
65389147 TT
1 TT
65389149 ATTTTTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (17 bp):
TTTTTAAAACACAAAAT
Found at i:65389167 original size:22 final size:21
Alignment explanation
Indices: 65389128--65389170 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
65389118 GAAACACGAA
* *
65389128 ATTTTTTAAAACACAAAATTT
1 ATTTTTGAAAACAAAAAATTT
65389149 ATTTTTGAAAACATAAAAATTT
1 ATTTTTGAAAACA-AAAAATTT
65389171 TGATAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTTTTGAAAACAAAAAATTT
Found at i:65389254 original size:18 final size:18
Alignment explanation
Indices: 65389197--65389437 Score: 133
Period size: 18 Copynumber: 13.5 Consensus size: 18
65389187 ACGAGGATTT
65389197 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
65389214 TTTATT-AAAA-ACGGTCAAT
1 TTT-TTGAAAACAC-G-AAAA
65389233 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* **
65389251 TTTTTG-AAAGACGGGAA
1 TTTTTGAAAACACGAAAA
* **
65389268 TTTTTAAAAACACGGGAATTT
1 TTTTTGAAAACAC--GAA-AA
* *
65389289 TTTTTGAAAATACAAAAA
1 TTTTTGAAAACACGAAAA
*
65389307 TTTTTG-AAACACTG-GAA
1 TTTTTGAAAACAC-GAAAA
*
65389324 -TTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* *
65389341 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACACGAAAA
*
65389358 TTTTTGAAAACACGAAAT
1 TTTTTGAAAACACGAAAA
* *
65389376 TTTTTTAAAATAC-AAGAA
1 TTTTTGAAAACACGAA-AA
* **
65389394 TTTTAG-AAACACGAATT
1 TTTTTGAAAACACGAAAA
* *
65389411 TTTTTGAAAACGCGATAA
1 TTTTTGAAAACACGAAAA
*
65389429 TTCTTGAAA
1 TTTTTGAAA
65389438 CGATAAATTT
Statistics
Matches: 167, Mismatches: 39, Indels: 35
0.69 0.16 0.15
Matches are distributed among these distances:
16 6 0.04
17 62 0.37
18 73 0.44
19 12 0.07
20 3 0.02
21 11 0.07
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:65389269 original size:17 final size:17
Alignment explanation
Indices: 65389197--65389438 Score: 118
Period size: 17 Copynumber: 13.6 Consensus size: 17
65389187 ACGAGGATTT
*
65389197 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAGAA
*
65389214 TTTATT-AAAAACG-GTCAA
1 TTT-TTGAAACACGAG--AA
*
65389232 TTTTTTGAAAACACGAAAA
1 -TTTTTG-AAACACGAGAA
* *
65389251 TTTTTGAAAGACGGGAA
1 TTTTTGAAACACGAGAA
* *
65389268 TTTTTAAAAACACGGGAA
1 TTTTT-GAAACACGAGAA
* * *
65389286 TTTTTTTTGAAAATACAAAAA
1 ---TTTTTG-AAACACGAGAA
65389307 TTTTTGAAACACTG-GAA
1 TTTTTGAAACAC-GAGAA
65389324 -TTTTGAAAACACGAGAA
1 TTTTTG-AAACACGAGAA
*
65389341 TTTTTGAAACATGAGAA
1 TTTTTGAAACACGAGAA
65389358 TTTTTGAAAACACGA-AA
1 TTTTTG-AAACACGAGAA
* * *
65389375 TTTTTTTAAAATACAAGAA
1 --TTTTTGAAACACGAGAA
* *
65389394 TTTTAGAAACACGA-ATT
1 TTTTTGAAACACGAGA-A
* *
65389411 TTTTTGAAAACGCGATAA
1 TTTTTG-AAACACGAGAA
*
65389429 TTCTTGAAAC
1 TTTTTGAAAC
65389439 GATAAATTTT
Statistics
Matches: 171, Mismatches: 31, Indels: 46
0.69 0.12 0.19
Matches are distributed among these distances:
16 7 0.04
17 75 0.44
18 58 0.34
19 13 0.08
20 6 0.04
21 12 0.07
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (17 bp):
TTTTTGAAACACGAGAA
Found at i:65389307 original size:56 final size:55
Alignment explanation
Indices: 65389232--65389345 Score: 165
Period size: 56 Copynumber: 2.1 Consensus size: 55
65389222 AAACGGTCAA
* * *
65389232 TTTTTTGAAAACACGAAAATTTTTGAAAGACGGGAATTTTTAAAAACACGGGAATT
1 TTTTTTGAAAACACAAAAATTTTTGAAACACGGGAA-TTTTAAAAACACGAGAATT
* * *
65389288 TTTTTTGAAAATACAAAAATTTTTGAAACACTGGAATTTTGAAAACACGAGAATT
1 TTTTTTGAAAACACAAAAATTTTTGAAACACGGGAATTTTAAAAACACGAGAATT
65389343 TTT
1 TTT
65389346 GAAACATGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 20 0.38
56 32 0.62
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (55 bp):
TTTTTTGAAAACACAAAAATTTTTGAAACACGGGAATTTTAAAAACACGAGAATT
Found at i:65389380 original size:35 final size:35
Alignment explanation
Indices: 65389289--65389419 Score: 128
Period size: 35 Copynumber: 3.8 Consensus size: 35
65389279 ACGGGAATTT
* * *
65389289 TTTTTGAAAATACAAAAATTTTTGAAACACTG-GAA
1 TTTTTGAAAACACGAAATTTTTTGAAACA-TGAGAA
65389324 -TTTTGAAAACACGAGAA-TTTTTGAAACATGAGAA
1 TTTTTGAAAACACGA-AATTTTTTGAAACATGAGAA
* *
65389358 TTTTTGAAAACACGAAATTTTTTTAAA-ATACAAGAA
1 TTTTTGAAAACACGAAATTTTTTGAAACAT--GAGAA
* *
65389394 TTTTAG-AAACACGAATTTTTTTGAAA
1 TTTTTGAAAACACGAAATTTTTTGAAA
65389420 ACGCGATAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
33 2 0.02
34 30 0.36
35 42 0.51
36 9 0.11
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.35
Consensus pattern (35 bp):
TTTTTGAAAACACGAAATTTTTTGAAACATGAGAA
Found at i:65389438 original size:35 final size:33
Alignment explanation
Indices: 65389307--65389455 Score: 93
Period size: 35 Copynumber: 4.3 Consensus size: 33
65389297 AATACAAAAA
* ** *
65389307 TTTTTGAAACACTGGAATTTTGAAAACACGAGA-A
1 TTTTTAAAACACAAGAATTTTG-AAACACGA-ATT
* **
65389341 TTTTTGAAACATGAGAATTTTTGAAAACACGAAATT
1 TTTTTAAAACACAAGAA-TTTTG-AAACACG-AATT
*
65389377 TTTTTAAAATACAAGAATTTTAGAAACACGAATT
1 TTTTTAAAACACAAGAATTTT-GAAACACGAATT
* * * **
65389411 TTTTTGAAAACGCGATAATTCTTGAAACGATAAATT
1 TTTTT-AAAACACAAGAATT-TTGAAAC-ACGAATT
65389447 TTTTTAAAA
1 TTTTTAAAA
65389456 AAAAGTGAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 13
0.78 0.12 0.11
Matches are distributed among these distances:
34 23 0.24
35 44 0.47
36 27 0.29
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (33 bp):
TTTTTAAAACACAAGAATTTTGAAACACGAATT
Done.