Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 99 of 145
Found at i:33035846 original size:19 final size:19
Alignment explanation
Indices: 33035804--33035849 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
33035794 ATTGTAACAT
*
33035804 TATTTATAATTTTAAATATC
1 TATTTA-AATTTTAAATATA
33035824 TATTTAAATTTT-AATAATA
1 TATTTAAATTTTAAAT-ATA
33035843 TATTTAA
1 TATTTAA
33035850 TTTGTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTAAATTTTAAATATA
Found at i:33035861 original size:19 final size:18
Alignment explanation
Indices: 33035810--33035861 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
33035800 ACATTATTTA
* *
33035810 TAATTTTAAATATCTATT
1 TAATTTTAAAAATATATT
*
33035828 TAAATTTTAATAATATATT
1 T-AATTTTAAAAATATATT
33035847 TAATTTGTAAAAATA
1 TAATTT-TAAAAATA
33035862 GCAATAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATTTTAAAAATATATT
Found at i:33036892 original size:11 final size:11
Alignment explanation
Indices: 33036848--33036897 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
33036838 TTTAAAATTT
*
33036848 AAAAATTATTTA
1 AAAAATTA-TAA
*
33036860 AAAAATCATAA
1 AAAAATTATAA
33036871 ACAAAATTTATAA
1 A-AAAA-TTATAA
33036884 AAAAATTATAA
1 AAAAATTATAA
33036895 AAA
1 AAA
33036898 TTATAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 12 0.36
12 15 0.45
13 6 0.18
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:33036907 original size:16 final size:14
Alignment explanation
Indices: 33036886--33036920 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
33036876 ATTTATAAAA
33036886 AAATTATAAAAATTAT
1 AAATTAT-AAAA-TAT
33036902 AAATTATAAAATAT
1 AAATTATAAAATAT
33036916 AAATT
1 AAATT
33036921 TTTTATTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 4 0.21
16 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTATAAAATAT
Found at i:33037472 original size:9 final size:9
Alignment explanation
Indices: 33037450--33037480 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
33037440 CATTTTTTAA
33037450 TAAAAATTT
1 TAAAAATTT
33037459 T-AAAATTT
1 TAAAAATTT
33037467 TAAAAATTT
1 TAAAAATTT
33037476 TAAAA
1 TAAAA
33037481 CCTTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAAAAATTT
Found at i:33038030 original size:100 final size:102
Alignment explanation
Indices: 33037886--33038069 Score: 275
Period size: 100 Copynumber: 1.8 Consensus size: 102
33037876 AAACTTTTTC
* * * * *
33037886 AAAATAAGCAATTAAGCTCCTGCTTTATTTTTTCACTCATTTGGGTACTTGAACTTTCAAAATAC
1 AAAAAAAGCAATTAAGCCCCTACTTTATTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATAC
33037951 ATC-AAAAGGACCCTCAAACCTTCTTTTTAAAAAAAAA
66 ATCTAAAA-GACCCTCAAACCTTCTTTTTAAAAAAAAA
* *
33037988 AAAAAAAGCAATTAAGCCCCTAC-TT-TTTTTGCACTCAATTGGGTACTTGAACTTTTAAAATGC
1 AAAAAAAGCAATTAAGCCCCTACTTTATTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATAC
33038051 ATCTAAAAGACCCTCAAAC
66 ATCTAAAAGACCCTCAAAC
33038070 TTTTTCAAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
100 48 0.65
101 6 0.08
102 20 0.27
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (102 bp):
AAAAAAAGCAATTAAGCCCCTACTTTATTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATAC
ATCTAAAAGACCCTCAAACCTTCTTTTTAAAAAAAAA
Found at i:33038180 original size:18 final size:19
Alignment explanation
Indices: 33038132--33038182 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
33038122 TATAAAAGCT
*
33038132 ATAAATATTATTAAATTTTA
1 ATAAA-ATTATTAAATATTA
*
33038152 ATAAAA-AATTAAATATTA
1 ATAAAATTATTAAATATTA
33038170 A-AAAATTATTAAA
1 ATAAAATTATTAAA
33038183 AATCATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 4 0.15
18 17 0.63
19 1 0.04
20 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAAAATTATTAAATATTA
Found at i:33038311 original size:19 final size:19
Alignment explanation
Indices: 33038287--33038332 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
33038277 TTAAATTTTA
*
33038287 AAAATTTTATATATTTAT-T
1 AAAATTTAATA-ATTTATCT
*
33038306 AAAATTTAATAATTTTTCT
1 AAAATTTAATAATTTATCT
33038325 AAAATTTA
1 AAAATTTA
33038333 TTTTTATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
AAAATTTAATAATTTATCT
Found at i:33039795 original size:18 final size:18
Alignment explanation
Indices: 33039759--33039793 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
33039749 TTTACGATAA
33039759 CATTGATTTCTCATTTTT
1 CATTGATTTCTCATTTTT
*
33039777 CATTGA-TTCTTATTTTT
1 CATTGATTTCTCATTTTT
33039794 TCCATATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.17, C:0.14, G:0.06, T:0.63
Consensus pattern (18 bp):
CATTGATTTCTCATTTTT
Found at i:33040662 original size:34 final size:33
Alignment explanation
Indices: 33040574--33040686 Score: 124
Period size: 33 Copynumber: 3.4 Consensus size: 33
33040564 GTTTAGAGTT
* *
33040574 TTTTTAAAAAATTAATTAAATTAGATTTTTTGGG
1 TTTTTAAAAAATTAATTAAATTAG-GTTTTAGGG
33040608 -TTTTAAATAAA-TAATTAAATTAGGTTTTAGGG
1 TTTTTAAA-AAATTAATTAAATTAGGTTTTAGGG
**
33040640 TTTTTAAGAAAATTAATTAAATTATGG-TTTAGTT
1 TTTTTAA-AAAATTAATTAAATTA-GGTTTTAGGG
*
33040674 TTTTTAAATAATT
1 TTTTTAAAAAATT
33040687 TTGTTTTTAG
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
32 7 0.10
33 33 0.48
34 27 0.39
35 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.50
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAGGTTTTAGGG
Found at i:33041097 original size:125 final size:126
Alignment explanation
Indices: 33040742--33041634 Score: 1259
Period size: 125 Copynumber: 7.1 Consensus size: 126
33040732 AAAAAATTGT
* * *
33040742 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAGATAATATCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAA-ATAGTGTCAAA
* * * * *
33040806 AACGCTTCAAGTAGGATGCATTGTCAACGAAATTA-TGTAAGAAAAGCTCCCACGTGGACACTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTG-AA-AAAAGCTCCCACGTGGACGCTC
* *
33040869 TTTTTCTACAGTAGTTCTTGAAAAACA-AATTTT-AGAAGACGATTCTGAACAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAA-ATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAA
* * * *
33040932 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCCCATGTGCACGCTA
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
33040994 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAA-ATAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACA-AATAGTGTCAAA
* * * * * *
33041058 AATGCTTCAAGCAGGATGCACTATCA-TAAAATTACTGAAAAACGCTCCCACGCGAACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
33041119 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTTTGAACAAATATTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* *
33041184 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGACGCTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
33041244 TTTTTCTACAGTAGTTCCTGAGAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * *
33041309 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGACACTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
33041369 TTTTTCTACAGTAATTCCTGAAAAAATAATTTTGACAAGACGGTTCTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * * *
33041434 ACACTTCAAGCAGGATGCACTGTCAG-AAAATTGCTGAAAAAAGCTCCCACGCGAACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
33041494 TTTGTCTACAGTAGTTCTTG--AAAATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * *
33041557 ACACTTCAATCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
33041618 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
33041635 TTGTTTGGCC
Statistics
Matches: 687, Mismatches: 69, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
123 65 0.09
124 55 0.08
125 415 0.60
126 115 0.17
127 36 0.05
128 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:33041443 original size:375 final size:375
Alignment explanation
Indices: 33040742--33043350 Score: 1662
Period size: 376 Copynumber: 6.7 Consensus size: 375
33040732 AAAAAATTGT
* * *
33040742 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAGATAATATCAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAA-ATAATGTCAAA
* * * * * *
33040806 AACGCTTCAAGTAGGATGCATTGTCAACGAAATTATGTAAGAAAAGCTCCCACGTGGACACTCTT
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTA-CTAA-AAAAGCTCCCACGTGGACGCTCTT
* *
33040871 TTTCTACAGTAGTTCTTGAAAAACAAATTTTAGAAGACGATTCTGAACAAATAGTGTCAAAAACG
128 TTTCTACAGTAGTTCCTGAAAAACAAATTTTAGAAGACGATTCTGAAAAAATAGTGTCAAAAACG
* *
33040936 CTTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCCCATGTGCACGCTATTTTTCT
193 CTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGCACACTATTTTTCT
* * * **
33041001 ACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAATAATAGTGTCAAAAATGCTTC
258 ACAGTAATTCCTAAAAAAATAATTTTGACAAGACGGTTCTGAAATAATAGTGTAAAAAACACTTC
* *
33041066 AAGCAGGATGCACTATCATAAAATTACTGAAAAACGCTCCCACGCGAACGCTC
323 AAGCAGGATGCACTATCAGAAAATTACTGAAAAAAGCTCCCACGCGAACGCTC
* * *
33041119 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTTTGAACAAATATTGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAATGTCAAAA
* *
33041184 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCATGTGGACGCTTTTTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTCTTTTT
* *
33041249 CTACAGTAGTTCCTGAGAAAA-TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACGC
131 CTACAGTAGTTCCTGA-AAAACAAATTTT-AGAAGACGATTCTGAAAAAATAGTGTCAAAAACGC
* *
33041313 TTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGACACTTTTTTTCTA
194 TTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGCACACTATTTTTCTA
*
33041377 CAGTAATTCCTGAAAAAATAATTTTGACAAGACGGTTCTGAACA-AATAGTGTAAAAAACACTTC
259 CAGTAATTCCTAAAAAAATAATTTTGACAAGACGGTTCTGAA-ATAATAGTGTAAAAAACACTTC
* *
33041441 AAGCAGGATGCACTGTCAGAAAATTGCTGAAAAAAGCTCCCACGCGAACGCTC
323 AAGCAGGATGCACTATCAGAAAATTACTGAAAAAAGCTCCCACGCGAACGCTC
* **
33041494 TTTGTCTACAGTAGTTCTTG--AAAATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAATGTCAAAA
* *
33041557 ACACTTCAATCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTCTTTT
* ***** *** * * * **
33041622 TCTACAGTAGTTCTTGTTTGGCCTTAGGCTATA-AATGAGCCAAATT-T--CATTATCAG-GTTG
130 TCTACAGTAGTTCCTG-AAAAAC--AAATTTTAGAA-GA--C-GATTCTGAAAAAAT-AGTG-T-
* * *** * ** * * * * * *
33041682 C-ATAA-G-TTACAA-CAAGAAAAATTAGAGAGGCTAAGCA-CAATAAAAATTGAAGAT--GA-G
185 CAAAAACGCTT-CAAGCAGGATGCACT-GTCA-GC-AA-AATTACTGAAAA---AAGCTCCCATG
** * * * * ** *** * * *
33041739 TG-A-ACGTATTAGTGT--TGTTATTTACTATGATGCTGAGGTTCGTGACACCAAGAACGGCGT-
242 TGCACAC-TATTTTTCTACAG-TAATTCCTAAAAAAAT-A-ATT-TTG--A-CAAG-ACGG-TTC
*** * * * * * * * *
33041799 TGTTTTTTATCAGAG-AACACAACGCGACTAGTTTCTAACCAGAACATAG-ATTTAAT-AG-GAC
297 TG-AAATAAT-AGTGTAA-A-AA----AC-A-CTTC-AAGCAG--GAT-GCA-CT-ATCAGAAAA
* *** ** * *
33041860 TT-CATAAAAGAATTAGGCGTAAAATCTTCAGAATGCAC
346 TTAC-TGAAA-AA--A-GC-TCCCA-CGC--GAACGCTC
* * * * * * ***
33041898 --TGTC-AGCA-AAATTAC-T-AAAAAAGCTCCCATGTGGACGCTTTTTTTCTACAGTAGTTCTT
1 TTTTTCTA-CAGTAGTT-CTTGAAAAAA--T--AATTTTGA-G-------AAGAC-G--GTTC-T
* * *
33041957 GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACACTTAAAGCAGGATGCA
48 G----------------------------AACAAATAATGTCAAAAACGCTTCAAGCAGGATGCA
* ** * *
33042022 CTGTTAG-AAAATTACTGAAAAAAGCTCCCACACGAACGCTCTTTTTCTATAGTAGTTCCTGAAA
85 CTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAA
* * *
33042086 AA-ATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTG
149 AACA-AATTTT-AGAAGACGATTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTG
* * * * *
33042150 TCA-TAAAATTACTGAAAAACGCTCCCAAGTGAAAAAACTCTCATGTGGACGCTCTTTTTCTACA
212 TCAGCAAAATTACTG-AAAA-------AA--G------CTCCCATGTGCACACTATTTTTCTACA
* * * * * * * * *
33042214 GTAGTTCCTGAGAAAATAATTTTGAGAAGACTGTTCTGAAAAAATAGTGTCAAAACCGCTTCAAG
261 GTAATTCCTAAAAAAATAATTTTGACAAGACGGTTCTGAAATAATAGTGTAAAAAACACTTCAAG
* * *
33042279 CAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGAA-GCTC
326 CAGGATGCACTATCAG-AAAATTACTGAAAAAAGCTCCCACG-CGAACGCTC
* * *
33042329 TTTTTCTACAGTAGTTCCTG-AAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAATGTCAAAA
* * * *
33042393 ACGCTTCAAGCAGGATGCATTGTCAG-AAAATTGCTGAAAAAAGCTCTCACGTGAACGCTCTTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTCTTTT
* * *
33042457 TCTACATTAGTTCTTGAAAAA-ATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACG
130 TCTACAGTAGTTCCTGAAAAACA-AATTTT-AGAAGACGATTCTGAAAAAATAGTGTCAAAAACG
* * * * * * *
33042521 CTTCAAGCAGGATGCATTGTCAG-AAAATTGCTGAAAAAAGCTCTCACGTGAACGCTCTTTTTCT
193 CTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGCACACTATTTTTCT
* * * * * * * *
33042585 ACATTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAACA-AATAGTGTCAAAAACGCTT
258 ACAGTAATTCCTAAAAAAATAATTTTGACAAGACGGTTCTGAA-ATAATAGTGTAAAAAACACTT
* * * * *
33042649 CAAGCAGGATGCATTGTCAGAAAATTGCTGAAAAAAGCTCTCACGTGAACGCTC
322 CAAGCAGGATGCACTATCAGAAAATTACTGAAAAAAGCTCCCACGCGAACGCTC
* * *
33042703 TTTTTCTACATTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAATGTCAAAA
* * * * *
33042768 ACGCATCAAGCAGGATGCACTGTCAACAAAATTAGTGAAAAAAGCTCACATGTGGACGCTCTTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTCTTTT
* * * *
33042833 TCTACAGTAGTTCTTGAAAAA-ATAATTTTGAGAAGACGGTTCTGGAAAAATAGTGTCAAATACG
130 TCTACAGTAGTTCCTGAAAAACA-AATTTT-AGAAGACGATTCTGAAAAAATAGTGTCAAAAACG
* * *
33042897 CTTCAAGCAGGATACACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGACACTTTTTTTCT
193 CTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGCACACTATTTTTCT
* * * * * * *
33042961 ATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACA-AATGGTGTCAAAAACGCTT
258 ACAGTAATTCCTAAAAAAATAATTTTGACAAGACGGTTCTGAA-ATAATAGTGTAAAAAACACTT
* * * * *
33043025 CAAGCAGGATGCATTGTCAGAAAATTGCTGAAAAAAGCTCTCACGTGAACGCTC
322 CAAGCAGGATGCACTATCAGAAAATTACTGAAAAAAGCTCCCACGCGAACGCTC
* **
33043079 TTTTTCTACATTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAATGTCAAAA
* * * * * * *
33043144 ACGCTTCAAGCAAGATGTATTGTCAGCAAAATTATTGAAAAAAAACTCCCACGTGTACGCTATTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT--AAAAAAGCTCCCACGTGGACGCTCTTT
* * * * * *
33043209 TTCTACAGTAGTTCTTGAAAAA-ATAATTTTGAGAAGATGGTTTTGAACAAATGGTGTCAAAAAC
129 TTCTACAGTAGTTCCTGAAAAACA-AATTTT-AGAAGACGATTCTGAAAAAATAGTGTCAAAAAC
* * * * * * * * *
33043273 ACTTCAATCAGGATGTACTGCCAGCAAAATTACTAAAAAAATCTCCCATGTGGACGCTCTTTTTC
192 GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGCACACTATTTTTC
*
33043338 TACAGTAGTTCCT
257 TACAGTAATTCCT
33043351 GTTTGGCCTT
Statistics
Matches: 1776, Mismatches: 292, Indels: 327
0.74 0.12 0.14
Matches are distributed among these distances:
373 84 0.05
374 173 0.10
375 276 0.16
376 431 0.24
377 221 0.12
378 57 0.03
379 12 0.01
380 4 0.00
382 7 0.00
383 4 0.00
384 6 0.00
385 5 0.00
386 4 0.00
387 2 0.00
389 4 0.00
390 162 0.09
391 2 0.00
392 1 0.00
393 3 0.00
394 5 0.00
395 1 0.00
396 10 0.01
397 6 0.00
398 1 0.00
399 1 0.00
400 2 0.00
401 7 0.00
402 12 0.01
404 7 0.00
406 5 0.00
407 1 0.00
414 2 0.00
415 1 0.00
417 4 0.00
418 4 0.00
419 3 0.00
421 1 0.00
422 2 0.00
429 1 0.00
430 5 0.00
431 3 0.00
432 4 0.00
433 6 0.00
434 12 0.01
435 2 0.00
436 1 0.00
437 1 0.00
438 6 0.00
439 7 0.00
440 11 0.01
441 14 0.01
442 11 0.01
443 12 0.01
444 11 0.01
445 50 0.03
446 39 0.02
447 1 0.00
448 2 0.00
449 4 0.00
450 4 0.00
451 5 0.00
452 3 0.00
453 2 0.00
455 3 0.00
456 5 0.00
457 7 0.00
458 10 0.01
459 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (375 bp):
TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAATGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTCTTTTT
CTACAGTAGTTCCTGAAAAACAAATTTTAGAAGACGATTCTGAAAAAATAGTGTCAAAAACGCTT
CAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGCACACTATTTTTCTACA
GTAATTCCTAAAAAAATAATTTTGACAAGACGGTTCTGAAATAATAGTGTAAAAAACACTTCAAG
CAGGATGCACTATCAGAAAATTACTGAAAAAAGCTCCCACGCGAACGCTC
Found at i:33042114 original size:125 final size:125
Alignment explanation
Indices: 33041892--33043348 Score: 1956
Period size: 125 Copynumber: 11.5 Consensus size: 125
33041882 AATCTTCAGA
* * *
33041892 ATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGACGCTTTTTTTCTACAGTAGTTCT
1 ATGCACTGTCAG-AAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCT
* *
33041956 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACACTTAAAGCAGG
65 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* ** * *
33042017 ATGCACTGTTAGAAAATTACTGAAAAAAGCTCCCACACGAACGCTCTTTTTCTATAGTAGTTCCT
1 ATGCACTGTCAGAAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTT
* *
33042082 GAAAAAATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAATGCTTCAAGCAGG
66 GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * *
33042142 ATGCACTGTCATAAAATTACTGAAAAACGCTCCCAAGTGAAAAAACTCTCATGTGGACGCTCTTT
1 ATGCACTGTCAGAAAATTACTGAAAAAAGCTCCC----------A----C--GTGAACGCTCTTT
* * * *
33042207 TTCTACAGTAGTTCCTGAGAAAATAATTTTGAGAAGACTG-TTCTGAAAAAATAGTGTCAAAACC
50 TTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGAC-GATTCTGAACAAATAGTGTCAAAAAC
33042271 GCTTCAAGCAGG
114 GCTTCAAGCAGG
*
33042283 ATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGAA-GCTCTTTTTCTACAGTAGTTC
1 ATGCACTGTCAG-AAAATTACTGAAAAAAGCTCCCACGT-GAACGCTCTTTTTCTACAGTAGTTC
*
33042346 CTG-AAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
64 TTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * * *
33042407 ATGCATTGTCAGAAAATTGCTGAAAAAAGCTCTCACGTGAACGCTCTTTTTCTACATTAGTTCTT
1 ATGCACTGTCAGAAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTT
33042472 GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
66 GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * * *
33042532 ATGCATTGTCAGAAAATTGCTGAAAAAAGCTCTCACGTGAACGCTCTTTTTCTACATTAGTTCTT
1 ATGCACTGTCAGAAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTT
33042597 GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
66 GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * * *
33042657 ATGCATTGTCAGAAAATTGCTGAAAAAAGCTCTCACGTGAACGCTCTTTTTCTACATTAGTTCTT
1 ATGCACTGTCAGAAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTT
*
33042722 GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCATCAAGCAGG
66 GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * * * *
33042782 ATGCACTGTCAACAAAATTAGTGAAAAAAGCTCACATGTGGACGCTCTTTTTCTACAGTAGTTCT
1 ATGCACTGTC-AGAAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCT
* *
33042847 TGAAAAAATAATTTTGAGAAGACGGTTCTGGAA-AAATAGTGTCAAATACGCTTCAAGCAGG
65 TGAAAAAATAATTTTGAGAAGACGATTCT-GAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * * * * * *
33042908 ATACACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGACACTTTTTTTCTATAGTAGTTCC
1 ATGCACTGTCAG-AAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCT
* *
33042972 TGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTCAAAAACGCTTCAAGCAGG
65 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * * *
33043033 ATGCATTGTCAGAAAATTGCTGAAAAAAGCTCTCACGTGAACGCTCTTTTTCTACATTAGTTCTT
1 ATGCACTGTCAGAAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTT
* * *
33043098 GAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTCAAAAACGCTTCAAGCAAG
66 GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * * * * *
33043158 ATGTATTGTCAGCAAAATTATTGAAAAAAAACTCCCACGTGTACGCTATTTTTCTACAGTAGTTC
1 ATGCACTGTCAG-AAAATTACTG-AAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTC
* * * * * *
33043223 TTGAAAAAATAATTTTGAGAAGATGGTTTTGAACAAATGGTGTCAAAAACACTTCAATCAGG
64 TTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * * * * *
33043285 ATGTACTGCCAGCAAAATTACTAAAAAAATCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTC
1 ATGCACTGTCAG-AAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTC
33043349 CTGTTTGGCC
Statistics
Matches: 1209, Mismatches: 92, Indels: 61
0.89 0.07 0.04
Matches are distributed among these distances:
123 12 0.01
124 120 0.10
125 684 0.57
126 165 0.14
127 115 0.10
131 1 0.00
135 1 0.00
139 1 0.00
141 100 0.08
142 10 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (125 bp):
ATGCACTGTCAGAAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTT
GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
Found at i:33042960 original size:376 final size:376
Alignment explanation
Indices: 33041892--33043351 Score: 1979
Period size: 376 Copynumber: 3.8 Consensus size: 376
33041882 AATCTTCAGA
* * *
33041892 ATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCATGTGGACGCTTTTTTTCTACAGTAGTTCTT
1 ATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTT
* *
33041957 GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACACTTAAAGCAGGATGCA
66 GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
* * * ** * *
33042022 CTGT-TAGAAAATTACTGAAAAAAGCTCCCACACGAACGCTCTTTTTCTATAGTAGTTCCTGAAA
131 CTGTCAACAAAATTAGTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTTGAAA
*
33042086 AAATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTGT
196 AAATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGT
* *
33042151 CA-TAAAATTACTGAAAAACGCTCCCAAGTGAAAAAACTCTCATGTGGACGCTCTTTTTCTACAG
261 CAGCAAAATTACT-AAAAA-------AA--G------CTCCCATGTGGACGCTCTTTTTCTACAG
* * *
33042215 TAGTTCCTGAGAAAATAATTTTGAGAAGACTGTTCTGAAAAAATAGTGTCAAAACCGCTTCAAGC
310 TAGTTCCTGAAAAAATAATTTTGAGAAGAC-GTTCTGAACAAATAGTGTCAAAAACGCTTCAAGC
33042280 AGG
374 AGG
* *
33042283 ATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCATGTGGAA-GCTCTTTTTCTACAGTAGTTCC
1 ATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGT-GAACGCTCTTTTTCTACAGTAGTTCT
33042347 TG-AAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
65 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * * *
33042411 ATTGTC-AGAAAATT-GCTGAAAAAAGCTCTCACGTGAACGCTCTTTTTCTACATTAGTTCTTGA
130 ACTGTCAACAAAATTAG-TGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTTGA
* *
33042474 AAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATT
194 AAAAATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * * * * * *
33042539 GTCAG-AAAATTGCTGAAAAAAGCTCTCACGTGAACGCTCTTTTTCTACATTAGTTCTTGAAAAA
259 GTCAGCAAAATTACTAAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAA
33042603 ATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
324 ATAATTTTGAGAAGACG-TTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * * *
33042657 ATGCATTGTCAG-AAAATTGCTGAAAAAAGCTCTCACGTGAACGCTCTTTTTCTACATTAGTTCT
1 ATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCT
*
33042721 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCATCAAGCAGGATGC
65 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * *
33042786 ACTGTCAACAAAATTAGTGAAAAAAGCTCACATGTGGACGCTCTTTTTCTACAGTAGTTCTTGAA
130 ACTGTCAACAAAATTAGTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTTGAA
* * * *
33042851 AAAATAATTTTGAGAAGACGGTTCTGGAA-AAATAGTGTCAAATACGCTTCAAGCAGGATACACT
195 AAAATAATTTTGAGAAGACGATT-TTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* * *
33042915 GTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGACACTTTTTTTCTATAGTAGTTCCTGAAAAA
259 GTCAGCAAAATTACTAAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAA
*
33042979 ATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTCAAAAACGCTTCAAGCAGG
324 ATAATTTTGAGAAGAC-GTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * * *
33043033 ATGCATTGTCAG-AAAATTGCTGAAAAAAGCTCTCACGTGAACGCTCTTTTTCTACATTAGTTCT
1 ATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCT
* * * *
33043097 TGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTCAAAAACGCTTCAAGCAAGATGT
65 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * * * * *
33043162 ATTGTCAGCAAAATTATTGAAAAAAAACTCCCACGTGTACGCTATTTTTCTACAGTAGTTCTTGA
130 ACTGTCAACAAAATTAGTG-AAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTTGA
* * * * * *
33043227 AAAAATAATTTTGAGAAGATGGTTTTGAACAAATGGTGTCAAAAACACTTCAATCAGGATGTACT
194 AAAAATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
* *
33043292 GCCAGCAAAATTACTAAAAAAATCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCCTG
259 GTCAGCAAAATTACTAAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCCTG
33043352 TTTGGCCTTA
Statistics
Matches: 973, Mismatches: 80, Indels: 45
0.89 0.07 0.04
Matches are distributed among these distances:
373 12 0.01
374 134 0.14
375 66 0.07
376 346 0.36
377 119 0.12
378 40 0.04
380 1 0.00
382 2 0.00
389 4 0.00
390 187 0.19
391 60 0.06
392 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (376 bp):
ATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTT
GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
CTGTCAACAAAATTAGTGAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCTTGAAA
AAATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGT
CAGCAAAATTACTAAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAAT
AATTTTGAGAAGACGTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
Found at i:33046859 original size:18 final size:18
Alignment explanation
Indices: 33046838--33046872 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33046828 AAAAGGAAAC
*
33046838 ATATAAGGGTTAGGATAA
1 ATATAAGGGTCAGGATAA
33046856 ATATAAGGGTCAGGATA
1 ATATAAGGGTCAGGATA
33046873 CGCACTTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.29, T:0.26
Consensus pattern (18 bp):
ATATAAGGGTCAGGATAA
Found at i:33055428 original size:32 final size:33
Alignment explanation
Indices: 33055384--33055447 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
33055374 TGAAACAAGA
33055384 AAAAACAAACTTTTAGTTTCAAATAAAAGGGTC
1 AAAAACAAACTTTTAGTTTCAAATAAAAGGGTC
33055417 AAAAA-AAACTTTTAGTTTCAAATAAAAGGGT
1 AAAAACAAACTTTTAGTTTCAAATAAAAGGGT
33055448 TAATTTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 26 0.84
33 5 0.16
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (33 bp):
AAAAACAAACTTTTAGTTTCAAATAAAAGGGTC
Found at i:33056057 original size:247 final size:247
Alignment explanation
Indices: 33055617--33056112 Score: 827
Period size: 247 Copynumber: 2.0 Consensus size: 247
33055607 AATAATTTGA
* * *
33055617 TAAACTTTAATATATAATTATATTATTTATAATTTATATATTATCTTTTATCAACTTAGCTTAGA
1 TAAACTTTAATATATAATTATATTATTTATAATTTATATATTATCTGTTATCAACTTAGCATAAA
*
33055682 ATTAGGATTAATTAGGATTTTTTTTTCTGCACAATAAAATAAGAGATGGGAATCAAAAGTAAATA
66 ATTAGGATTAATGAGGATTTTTTTTTCTGCACAATAAAATAAGAGATGGGAATCAAAAGTAAATA
* *
33055747 TGGACAAGTAGTAAAGTCTAAAGTGTCGCAATAGGTATATACATGTCTAGGATTGGATCTAGGAA
131 TGGACAAGTAGTAAAGTCTAAAGTGTCGCAATAGGTATATACATGTCTAGCATTAGATCTAGGAA
* *
33055812 GAGCTTGGTACTTAAGCAGTCAAATTGACTCACCTCTTCTTTTCTGGAATCC
196 GAGCTTGGTACTGAAGCAGTCAAATTGACTCACCTCCTCTTTTCTGGAATCC
*
33055864 TAAACTTTAATA-ATAATTATATTATTTATAATTTATATATTAAT-TGTTGTCAACTTAGCATAA
1 TAAACTTTAATATATAATTATATTATTTATAATTTATATATT-ATCTGTTATCAACTTAGCATAA
*
33055927 AATTAGGATTAATGAGGAATTTTTTATTTCTGCACAATAAAATAAGATATGGGAATCAAAAGTAA
65 AATTAGGATTAATGAGG-ATTTTTT-TTTCTGCACAATAAAATAAGAGATGGGAATCAAAAGTAA
* *
33055992 ATATGGAGAAGTAGTAAAGTC-AAAGTGTGGCAATAGGTATATACATGTCTAGCATTAGATCTAG
128 ATATGGACAAGTAGTAAAGTCTAAAGTGTCGCAATAGGTATATACATGTCTAGCATTAGATCTAG
*
33056056 GAAGAGCTTGGTACTGAAGTAGTCAAATTGACTCACCTCCTCTTTTCTGGAATCC
193 GAAGAGCTTGGTACTGAAGCAGTCAAATTGACTCACCTCCTCTTTTCTGGAATCC
33056111 TA
1 TA
33056113 CATGGTGTAT
Statistics
Matches: 233, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
246 60 0.26
247 115 0.49
248 58 0.25
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (247 bp):
TAAACTTTAATATATAATTATATTATTTATAATTTATATATTATCTGTTATCAACTTAGCATAAA
ATTAGGATTAATGAGGATTTTTTTTTCTGCACAATAAAATAAGAGATGGGAATCAAAAGTAAATA
TGGACAAGTAGTAAAGTCTAAAGTGTCGCAATAGGTATATACATGTCTAGCATTAGATCTAGGAA
GAGCTTGGTACTGAAGCAGTCAAATTGACTCACCTCCTCTTTTCTGGAATCC
Found at i:33057482 original size:12 final size:11
Alignment explanation
Indices: 33057457--33057494 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
33057447 GAACATGAAG
33057457 AATTTTA-ATT
1 AATTTTATATT
33057467 AATTTTATAGTT
1 AATTTTATA-TT
33057479 AATTTT-TATT
1 AATTTTATATT
33057489 AATTTT
1 AATTTT
33057495 GACTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:33063373 original size:11 final size:11
Alignment explanation
Indices: 33063357--33063395 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
33063347 TATATAAATA
33063357 TATAAATTAAT
1 TATAAATTAAT
*
33063368 TATAAAGTATAT
1 TATAAATTA-AT
33063380 TATTAAATTAAT
1 TA-TAAATTAAT
33063392 TATA
1 TATA
33063396 TTATAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:33063410 original size:24 final size:23
Alignment explanation
Indices: 33063342--33063410 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
33063332 TTTACATGAT
*
33063342 TTAATTATATA-AA-TATATAAA
1 TTAATTATATATAATTAAATAAA
* *
33063363 TTAATTATAAAGTATATT-ATTAAA
1 TTAATTATATA-TA-ATTAAATAAA
33063387 TTAATTATATTATAATTAAATAAA
1 TTAATTATA-TATAATTAAATAAA
33063411 GACAAATGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
21 10 0.27
23 4 0.11
24 21 0.57
25 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (23 bp):
TTAATTATATATAATTAAATAAA
Found at i:33064422 original size:21 final size:22
Alignment explanation
Indices: 33064394--33064457 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
33064384 GCTTTGCCGA
33064394 TCAGGCACTATATGTGTCGTAT
1 TCAGGCACTATATGTGTCGTAT
* **
33064416 T-AGGCACCACGTGTGTCGT-T
1 TCAGGCACTATATGTGTCGTAT
* *
33064436 TCAGGCACTTTATGTGTTGTAT
1 TCAGGCACTATATGTGTCGTAT
33064458 ACTGCTTCTG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAGGCACTATATGTGTCGTAT
Found at i:33067876 original size:39 final size:39
Alignment explanation
Indices: 33067833--33067946 Score: 104
Period size: 39 Copynumber: 3.1 Consensus size: 39
33067823 ATAATATGAT
33067833 TATTTTTTATTTAGTATAATTTTATAATTAAAGTTTTTA
1 TATTTTTTATTTAGTATAATTTTATAATTAAAGTTTTTA
* * * *
33067872 TATTTATATTTTTTAG-A-AA---TCTAA-T-AA---TATG
1 TATTT-T-TTATTTAGTATAATTTTATAATTAAAGTTTTTA
33067903 TATTTTTTATTTAGTATAATTTTATAATTAAAGTTTTTA
1 TATTTTTTATTTAGTATAATTTTATAATTAAAGTTTTTA
33067942 TATTT
1 TATTT
33067947 ATATTTTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 24
0.63 0.09 0.28
Matches are distributed among these distances:
29 7 0.13
30 2 0.04
31 9 0.16
34 6 0.11
35 2 0.04
36 6 0.11
39 14 0.25
40 2 0.04
41 7 0.13
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (39 bp):
TATTTTTTATTTAGTATAATTTTATAATTAAAGTTTTTA
Found at i:33067919 original size:70 final size:71
Alignment explanation
Indices: 33067821--33067962 Score: 268
Period size: 70 Copynumber: 2.0 Consensus size: 71
33067811 AACATGTAGT
33067821 TAATAATATGATTATTTTTTATTTAGTATAATTTTATAATTAAAGTTTTTATATTTATATTTTTT
1 TAATAATATGA-TATTTTTTATTTAGTATAATTTTATAATTAAAGTTTTTATATTTATATTTTTT
33067886 AGAAATC
65 AGAAATC
33067893 TAATAATATG-TATTTTTTATTTAGTATAATTTTATAATTAAAGTTTTTATATTTATATTTTTTA
1 TAATAATATGATATTTTTTATTTAGTATAATTTTATAATTAAAGTTTTTATATTTATATTTTTTA
33067957 GAAATC
66 GAAATC
33067963 GCTTTCAACA
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 60 0.86
72 10 0.14
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (71 bp):
TAATAATATGATATTTTTTATTTAGTATAATTTTATAATTAAAGTTTTTATATTTATATTTTTTA
GAAATC
Found at i:33069933 original size:127 final size:124
Alignment explanation
Indices: 33069656--33070006 Score: 472
Period size: 127 Copynumber: 2.8 Consensus size: 124
33069646 CCCAAACATG
* * * *
33069656 CTACTATAGCAAAAGCGCGTTCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAACAGCATCCTGC
** *
33069721 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGAC
66 TAGAAAAGATTTTAAATTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGAC
33069780 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AACAGCATCCTG
* * * **
33069844 CTTGAAAAGTTTTTTAAATTCTATTTG-TCAGAAACGTCAATTTGAAATTATTTCTTCCAGGAC
65 CTAGAAAAG-ATTTTAAA-T-TATTTGCTCAGAAACGTCAAGTCAAAATTATTT-TTCCAGGAC
* *
33069907 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAACAGCATCCTGC
** * * *
33069972 TAGAAGCGATTTTATACTATTTACTCAGAAACGTC
66 TAGAAAAGATTTTAAATTATTTGCTCAGAAACGTC
33070007 GATTTTATAC
Statistics
Matches: 200, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
124 69 0.34
125 19 0.09
126 32 0.16
127 80 0.40
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAACAGCATCCTGC
TAGAAAAGATTTTAAATTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGAC
Found at i:33070010 original size:28 final size:28
Alignment explanation
Indices: 33069978--33070034 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
33069968 CTGCTAGAAG
33069978 CGATTTTATACTATTTACTCAGAAACGT
1 CGATTTTATACTATTTACTCAGAAACGT
*
33070006 CGATTTTATACTATTTGCTCAGAAACGT
1 CGATTTTATACTATTTACTCAGAAACGT
33070034 C
1 C
33070035 AACTCGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (28 bp):
CGATTTTATACTATTTACTCAGAAACGT
Found at i:33071852 original size:20 final size:20
Alignment explanation
Indices: 33071819--33071856 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33071809 AAATACTTTT
33071819 TTTTAAATATATTTTTATAC
1 TTTTAAATATATTTTTATAC
33071839 TTTTATAATA-ATTTTTAT
1 TTTTA-AATATATTTTTAT
33071857 TTTTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTAAATATATTTTTATAC
Found at i:33071870 original size:20 final size:19
Alignment explanation
Indices: 33071816--33071871 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
33071806 ATTAAATACT
*
33071816 TTTTTTTAAATATATTTTTA
1 TTTTTTAAAATA-ATTTTTA
* *
33071836 TACTTTTATAATAATTTTTA
1 T-TTTTTAAAATAATTTTTA
33071856 TTTTTTAAAATTAATT
1 TTTTTTAAAA-TAATT
33071872 AATTGTTGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 7 0.24
20 14 0.48
21 8 0.28
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTAAAATAATTTTTA
Found at i:33080871 original size:26 final size:26
Alignment explanation
Indices: 33080820--33080871 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
33080810 ATGGACCGGG
** *
33080820 CCCGGGCCGGGCACGGGCTTATTTTT
1 CCCGGGCCGGGCACGGGCAAAATTTT
33080846 CCCGGGCCGGGC-CTGGGCAAAATTTT
1 CCCGGGCCGGGCAC-GGGCAAAATTTT
33080872 AAGCCCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.12, C:0.31, G:0.35, T:0.23
Consensus pattern (26 bp):
CCCGGGCCGGGCACGGGCAAAATTTT
Found at i:33083541 original size:27 final size:27
Alignment explanation
Indices: 33083511--33083567 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
33083501 GTCCCGACAT
* * *
33083511 ACTATCCCGTGTTTATTGTCCCAGTGG
1 ACTACCCCGTGTTTAGTGTCCCAATGG
33083538 ACTACCCCGTGTTTAGTGTCCCAATGG
1 ACTACCCCGTGTTTAGTGTCCCAATGG
33083565 ACT
1 ACT
33083568 TTATTGGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (27 bp):
ACTACCCCGTGTTTAGTGTCCCAATGG
Found at i:33087466 original size:19 final size:19
Alignment explanation
Indices: 33087438--33087483 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
33087428 TATATATAAT
*
33087438 AATAATATAAAAACCAGATA-
1 AATAA-ATAAAAA-CAAATAG
33087458 AATAAATAAAAACAAATAG
1 AATAAATAAAAACAAATAG
33087477 AATAAAT
1 AATAAAT
33087484 GTCTCATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 14 0.58
20 5 0.21
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.20
Consensus pattern (19 bp):
AATAAATAAAAACAAATAG
Found at i:33088098 original size:15 final size:15
Alignment explanation
Indices: 33088059--33088108 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
33088049 TGATTTGAAT
33088059 TTTTTTTCTTT-TTC
1 TTTTTTTCTTTGTTC
*
33088073 TTCGCTTTTCTTTGTTC
1 TT--TTTTTCTTTGTTC
33088090 TTTTTTTC-TTGTCTC
1 TTTTTTTCTTTGT-TC
33088105 TTTT
1 TTTT
33088109 GTTCAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 6 0.20
15 11 0.37
16 8 0.27
17 5 0.17
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTTTTTCTTTGTTC
Found at i:33090415 original size:3 final size:3
Alignment explanation
Indices: 33090407--33090437 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33090397 NNNNATTGAT
33090407 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33090438 CATCTTGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33091463 original size:20 final size:21
Alignment explanation
Indices: 33091438--33091476 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
33091428 AATTTGTTGA
33091438 TTAAATATTTATG-ATTATTT
1 TTAAATATTTATGAATTATTT
*
33091458 TTAAATTTTTATGAATTAT
1 TTAAATATTTATGAATTAT
33091477 AAATGGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TTAAATATTTATGAATTATTT
Found at i:33092537 original size:23 final size:21
Alignment explanation
Indices: 33092486--33092537 Score: 50
Period size: 23 Copynumber: 2.3 Consensus size: 21
33092476 CTTTTTTAAT
33092486 TAATATTTCTAAATTAAATTA
1 TAATATTTCTAAATTAAATTA
* * *
33092507 CAATTATTTTTAAAATTAATTTA
1 TAA-TATTTCT-AAATTAAATTA
33092530 GTAATATT
1 -TAATATT
33092538 ATGAAAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 6 0.25
23 14 0.58
24 2 0.08
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (21 bp):
TAATATTTCTAAATTAAATTA
Found at i:33098314 original size:18 final size:18
Alignment explanation
Indices: 33098291--33098326 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33098281 GAAATCAACA
33098291 AGAAACAAAAGAAAGATT
1 AGAAACAAAAGAAAGATT
*
33098309 AGAAACAGAAGAAAGATT
1 AGAAACAAAAGAAAGATT
33098327 TACCAATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.19, T:0.11
Consensus pattern (18 bp):
AGAAACAAAAGAAAGATT
Found at i:33113318 original size:16 final size:16
Alignment explanation
Indices: 33113267--33113334 Score: 55
Period size: 16 Copynumber: 4.0 Consensus size: 16
33113257 CAGAAGAATA
*
33113267 TGCCAAACCACAAATCT
1 TGCCAAAACACAAAT-T
* *
33113284 CGCCAAAAACATAAAATT
1 TGCC-AAAACA-CAAATT
33113302 TGCCAAAACACAAATT
1 TGCCAAAACACAAATT
* *
33113318 TGTCAAATCACATAATT
1 TGCCAAAACACA-AATT
33113335 CACCAATCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
16 15 0.37
17 13 0.32
18 9 0.22
19 4 0.10
ACGTcount: A:0.47, C:0.25, G:0.06, T:0.22
Consensus pattern (16 bp):
TGCCAAAACACAAATT
Found at i:33114079 original size:15 final size:15
Alignment explanation
Indices: 33114056--33114087 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33114046 CATTTCACTA
33114056 TTATCTCTTTTATAT
1 TTATCTCTTTTATAT
*
33114071 TTATGTCTTTTATAT
1 TTATCTCTTTTATAT
33114086 TT
1 TT
33114088 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.09, G:0.03, T:0.69
Consensus pattern (15 bp):
TTATCTCTTTTATAT
Found at i:33123003 original size:46 final size:46
Alignment explanation
Indices: 33122934--33123022 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
33122924 GTCTACTATC
*
33122934 TTTAAACTCAATACAACAGGTGATTTAAGTCATATCACATCCTGTT
1 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
* * *
33122980 TTTAAACTCAATATAACAAGTGATTTAAGTCCTATCAGATCCT
1 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCT
33123023 AATATAGCAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (46 bp):
TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
Found at i:33131099 original size:20 final size:20
Alignment explanation
Indices: 33131074--33131114 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
33131064 TTGCAGGGTT
33131074 TTGGAGTTAT-ATAATGTTAC
1 TTGGAGTTATAAT-ATGTTAC
*
33131094 TTGGAGTTTTAATATGTTAC
1 TTGGAGTTATAATATGTTAC
33131114 T
1 T
33131115 CTATGGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.49
Consensus pattern (20 bp):
TTGGAGTTATAATATGTTAC
Found at i:33134784 original size:26 final size:26
Alignment explanation
Indices: 33134748--33134800 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
33134738 ACCCTCACAC
* * *
33134748 TAATATTGCAGCATAGCTGCCAGTAG
1 TAATAATGCAGCAGAGCTGCCAATAG
33134774 TAATAATGCAGCAGAGCTGCCAATAG
1 TAATAATGCAGCAGAGCTGCCAATAG
33134800 T
1 T
33134801 CAGAATGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (26 bp):
TAATAATGCAGCAGAGCTGCCAATAG
Found at i:33134807 original size:26 final size:26
Alignment explanation
Indices: 33134754--33134807 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
33134744 ACACTAATAT
* * *
33134754 TGCAGCATAGCTGCCAGTAGTAATAA
1 TGCAGCAGAGCTGCCAATAGTAAGAA
*
33134780 TGCAGCAGAGCTGCCAATAGTCAGAA
1 TGCAGCAGAGCTGCCAATAGTAAGAA
33134806 TG
1 TG
33134808 GCTAAAAGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (26 bp):
TGCAGCAGAGCTGCCAATAGTAAGAA
Found at i:33134927 original size:32 final size:32
Alignment explanation
Indices: 33134857--33135096 Score: 229
Period size: 32 Copynumber: 7.5 Consensus size: 32
33134847 AAATGGCTAC
* * * * *
33134857 AAGCCATAAGTA-CAGTAATGTGATTGTCACA
1 AAGCCATCAGTAGCAGTGATATGATCGGCACA
33134888 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAGCAGTGATATGATCGGCACA
* * * *
33134920 CAA-CCATCAGTAACGGTAACATGATCGGCACA
1 -AAGCCATCAGTAGCAGTGATATGATCGGCACA
33134952 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAGCAGTGATATGATCGGCACA
* * * *
33134984 CAGCTATCAGTAACAGTGAAATATGATCGACACA
1 AAGCCATCAGTAGCAGTG--ATATGATCGGCACA
* * *
33135018 AAGCCATCAGTAAC-GAT-ACTATGAACGACACA
1 AAGCCATCAGTAGCAG-TGA-TATGATCGGCACA
* *
33135050 AAGCCATCAGTAGCGGT-ACTATGATCAGCACA
1 AAGCCATCAGTAGCAGTGA-TATGATCGGCACA
33135082 AAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
33135097 TCGCAGTAAA
Statistics
Matches: 176, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
31 14 0.08
32 132 0.75
33 4 0.02
34 26 0.15
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTGATATGATCGGCACA
Found at i:33134985 original size:64 final size:64
Alignment explanation
Indices: 33134884--33135096 Score: 254
Period size: 64 Copynumber: 3.3 Consensus size: 64
33134874 ATGTGATTGT
33134884 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATCGG
1 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATCGG
* * * *
33134948 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCTATCAGTAACAGTGAAATATGATCG
1 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAAC-G-GTAACATGATCG
*
33135013 A
64 G
* * * *
33135014 CACAAAGCCATCAGTAAC-GAT-ACTATGAACGACACA-AAGCCATCAGTAGCGGT-ACTATGAT
1 CACAAAGCCATCAGTAGCAG-TGA-TATGATCGGCACACAA-CCATCAGTAACGGTAAC-ATGAT
*
33135075 CAG
62 CGG
33135078 CACAAAGCCATCAGTAGCA
1 CACAAAGCCATCAGTAGCA
33135097 TCGCAGTAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
63 1 0.01
64 72 0.57
65 5 0.04
66 48 0.38
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.17
Consensus pattern (64 bp):
CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATCGG
Found at i:33135030 original size:98 final size:95
Alignment explanation
Indices: 33134857--33135093 Score: 273
Period size: 98 Copynumber: 2.5 Consensus size: 95
33134847 AAATGGCTAC
* * * * * *
33134857 AAGCCATAAGTA-CAGTAATGTGATTGTCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAC
1 AAGCCATCAGTAGCAGT-ATATGATCGGCACAAAGCCATCAGTAACAGTGATATGATCGACACAC
* * *
33134921 AACCATCAGTAACGGTAAC-ATGATCGGCACA
65 AACCATCAGTAACGAT-ACTATGAACGACACA
* *
33134952 AAGCCATCAGTAGCAGTGATATGATCGGCACACAGCTATCAGTAACAGTGAAATATGATCGACAC
1 AAGCCATCAGTAGCAGT-ATATGATCGGCACAAAGCCATCAGTAACAGTG--ATATGATCGACAC
33135017 A-AAGCCATCAGTAACGATACTATGAACGACACA
63 ACAA-CCATCAGTAACGATACTATGAACGACACA
* *
33135050 AAGCCATCAGTAGCGGTACTATGATCAGCACAAAGCCATCAGTA
1 AAGCCATCAGTAGCAGTA-TATGATCGGCACAAAGCCATCAGTA
33135094 GCATCGCAGT
Statistics
Matches: 120, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
95 11 0.09
96 30 0.25
97 5 0.04
98 74 0.62
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (95 bp):
AAGCCATCAGTAGCAGTATATGATCGGCACAAAGCCATCAGTAACAGTGATATGATCGACACACA
ACCATCAGTAACGATACTATGAACGACACA
Found at i:33135148 original size:26 final size:26
Alignment explanation
Indices: 33135096--33135149 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
33135086 CATCAGTAGC
* * *
33135096 ATCGCAGTAAAGTTGCTAGCAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
* *
33135122 ATCGCAGCAAAGCTGCCAGTAATAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
33135148 AT
1 AT
33135150 ATGTGGCTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGCAACAGT
Found at i:33139521 original size:92 final size:93
Alignment explanation
Indices: 33139353--33139537 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 93
33139343 GCCGATTTTT
33139353 CACCCTTTGTGCAAGCTGTTGAAAATAAATCAAATTTGTGTAAATTTATTATAAAAATAATAAAA
1 CACCCTTTGTGCAAGCTGTTGAAAATAAATCAAATTTGTGTAAATTTATTATAAAAATAATAAAA
33139418 ATTAAATATTTTCATAATTTGAATGAAA
66 ATTAAATATTTTCATAATTTGAATGAAA
33139446 CACCCTTTGT-CAAGCTGTTGAAAATAAATCAAATTTGTGTAAATTTATTATAAAAATAATAAAA
1 CACCCTTTGTGCAAGCTGTTGAAAATAAATCAAATTTGTGTAAATTTATTATAAAAATAATAAAA
33139510 ATTAAATATTTTCATAATTTGAATGAAA
66 ATTAAATATTTTCATAATTTGAATGAAA
33139538 ATTAATTATT
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 82 0.89
93 10 0.11
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (93 bp):
CACCCTTTGTGCAAGCTGTTGAAAATAAATCAAATTTGTGTAAATTTATTATAAAAATAATAAAA
ATTAAATATTTTCATAATTTGAATGAAA
Found at i:33139563 original size:28 final size:28
Alignment explanation
Indices: 33139507--33139564 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
33139497 AAAAATAATA
**
33139507 AAAATTAAATATTTTCATAATTTGAATG
1 AAAATTAAATATTTTCATAATTAAAATG
*
33139535 AAAATTAATTATTTT-ATAATTAAATATG
1 AAAATTAAATATTTTCATAATTAAA-ATG
33139563 AA
1 AA
33139565 TTTTGACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (28 bp):
AAAATTAAATATTTTCATAATTAAAATG
Found at i:33141982 original size:20 final size:19
Alignment explanation
Indices: 33141956--33142012 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
33141946 TTGTACTTCG
33141956 GTACCCCTGATTGCACTTA
1 GTACCCCTGATTGCACTTA
* *
33141975 CGTTCCCCTG-TTGTACTTA
1 -GTACCCCTGATTGCACTTA
* *
33141994 GTACCCCTCATCGCACTTA
1 GTACCCCTGATTGCACTTA
33142013 TGTGCTCCTG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 7 0.23
19 15 0.50
20 8 0.27
ACGTcount: A:0.18, C:0.35, G:0.14, T:0.33
Consensus pattern (19 bp):
GTACCCCTGATTGCACTTA
Found at i:33142010 original size:38 final size:39
Alignment explanation
Indices: 33141945--33142032 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 39
33141935 GTAGAAAACG
* * * *
33141945 GTTGTACTTCGGTACCCCTGATTGCACTTACGTTCCCCT
1 GTTGTACTTCAGTACCCCTCATCGCACTTACGTGCCCCT
* *
33141984 GTTGTACTT-AGTACCCCTCATCGCACTTATGTGCTCCT
1 GTTGTACTTCAGTACCCCTCATCGCACTTACGTGCCCCT
*
33142022 GTTGTATTTCA
1 GTTGTACTTCA
33142033 ATTCTCCTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 31 0.76
39 10 0.24
ACGTcount: A:0.15, C:0.30, G:0.17, T:0.39
Consensus pattern (39 bp):
GTTGTACTTCAGTACCCCTCATCGCACTTACGTGCCCCT
Found at i:33148335 original size:19 final size:21
Alignment explanation
Indices: 33148306--33148351 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
33148296 GTTATATACA
33148306 TATATATATACATACAT-TTT
1 TATATATATACATACATATTT
*
33148326 TATA-ATATACGTACATATTT
1 TATATATATACATACATATTT
*
33148346 TTTATA
1 TATATA
33148352 ACTTATATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 11 0.50
20 10 0.45
21 1 0.05
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (21 bp):
TATATATATACATACATATTT
Found at i:33148362 original size:22 final size:20
Alignment explanation
Indices: 33148309--33148365 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
33148299 ATATACATAT
*
33148309 ATATATACATACATTTTTATA
1 ATATATACATA-TTTTTTATA
33148330 ATATACGTACATATTTTTTATA
1 ATATA--TACATATTTTTTATA
33148352 ACTTATATACATAT
1 A--TATATACATAT
33148366 ATACATACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.16
22 16 0.52
23 6 0.19
24 4 0.13
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATATACATATTTTTTATA
Found at i:33148553 original size:4 final size:4
Alignment explanation
Indices: 33148544--33148568 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
33148534 TTTTATTCAT
33148544 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
33148569 GCTTTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:33151445 original size:21 final size:21
Alignment explanation
Indices: 33151395--33151445 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
33151385 GTCCCTTCTA
*
33151395 AATTAGAAATCATAAAGCAAG
1 AATTAGAAATCAGAAAGCAAG
* * *
33151416 ATTTTGAAATGAGAAATGC-AG
1 AATTAGAAATCAGAAA-GCAAG
33151437 AATTAGAAA
1 AATTAGAAA
33151446 AGAAGATAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.24
Consensus pattern (21 bp):
AATTAGAAATCAGAAAGCAAG
Found at i:33167787 original size:7 final size:7
Alignment explanation
Indices: 33167777--33167818 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
33167767 CTAAAAATTA
*
33167777 ATATATA
1 ATATATT
33167784 ATATATT
1 ATATATT
33167791 ATATATT
1 ATATATT
33167798 ATATATT
1 ATATATT
33167805 ATATATT
1 ATATATT
*
33167812 ATTTATT
1 ATATATT
33167819 TTTATCTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATATT
Found at i:33168043 original size:28 final size:28
Alignment explanation
Indices: 33167992--33168045 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
33167982 ACTGTTCTAA
*
33167992 AATATTTATAAAAAAGGCATCTAATTTT
1 AATATTTATAAAAAAGGCAACTAATTTT
*
33168020 AATATTTA-CAAAAAGGACAACTAATT
1 AATATTTATAAAAAAGG-CAACTAATT
33168046 ATTGAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.33
Consensus pattern (28 bp):
AATATTTATAAAAAAGGCAACTAATTTT
Found at i:33184838 original size:21 final size:21
Alignment explanation
Indices: 33184809--33184849 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33184799 AAGCCCGAAA
* *
33184809 GCTACACAGAAGCACATAAGT
1 GCTAAACAGAAACACATAAGT
*
33184830 GCTAAACAGAAACCCATAAG
1 GCTAAACAGAAACACATAAG
33184850 GGTTGAACGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.12
Consensus pattern (21 bp):
GCTAAACAGAAACACATAAGT
Found at i:33184868 original size:21 final size:21
Alignment explanation
Indices: 33184838--33184941 Score: 73
Period size: 21 Copynumber: 5.0 Consensus size: 21
33184828 GTGCTAAACA
33184838 GAAACCCATAAGGGTTGAACG
1 GAAACCCATAAGGGTTGAACG
** * * *
33184859 GAGGCTCATAAGAGCTGAACG
1 GAAACCCATAAGGGTTGAACG
* **
33184880 GAAACCCATAAGGGTTAAATA
1 GAAACCCATAAGGGTTGAACG
* * * * * *
33184901 GAAGCTCAAAAGAGCTAAACG
1 GAAACCCATAAGGGTTGAACG
*
33184922 GAAACCCATTAGGGTTGAAC
1 GAAACCCATAAGGGTTGAAC
33184942 AAAAACTCAT
Statistics
Matches: 56, Mismatches: 27, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.15
Consensus pattern (21 bp):
GAAACCCATAAGGGTTGAACG
Found at i:33184870 original size:42 final size:42
Alignment explanation
Indices: 33184814--33184952 Score: 170
Period size: 42 Copynumber: 3.3 Consensus size: 42
33184804 CGAAAGCTAC
* * *
33184814 ACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGA
* * * *
33184856 ACGGAGGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGA
* * *
33184898 ATAGAAGCTCAAAAGAGCTAAACGGAAACCCATTAGGGTTGA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGA
* *
33184940 ACAAAAACTCATA
1 ACAGAAGCTCATA
33184953 TGAGTTAACA
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGA
Found at i:33190892 original size:31 final size:31
Alignment explanation
Indices: 33190854--33190933 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
33190844 CAAACCTTTC
33190854 AAAGTGCTCAAATAAGGGACAAAAGTTTTTG
1 AAAGTGCTCAAATAAGGGACAAAAGTTTTTG
** * **
33190885 AAAGTGCTCAAATAAAAGCCAAACTTTTTTG
1 AAAGTGCTCAAATAAGGGACAAAAGTTTTTG
*
33190916 AAAGTACTCAAATAAGGG
1 AAAGTGCTCAAATAAGGG
33190934 CTTCTCATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGTGCTCAAATAAGGGACAAAAGTTTTTG
Found at i:33191319 original size:17 final size:18
Alignment explanation
Indices: 33191297--33191330 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33191287 ATAATTGTAA
33191297 TTTAAAT-TGTAATTATT
1 TTTAAATATGTAATTATT
33191314 TTTAAATATGTAATTAT
1 TTTAAATATGTAATTAT
33191331 CATAATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATATGTAATTATT
Found at i:33203218 original size:19 final size:20
Alignment explanation
Indices: 33203188--33203225 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33203178 GGGTAGGACT
33203188 GTTTTCACAAAATCTGCATC
1 GTTTTCACAAAATCTGCATC
*
33203208 GTTTT-ACAAAATGTGCAT
1 GTTTTCACAAAATCTGCAT
33203226 TAACATGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (20 bp):
GTTTTCACAAAATCTGCATC
Found at i:33208290 original size:5 final size:5
Alignment explanation
Indices: 33208280--33208306 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
33208270 ACATATGCTC
33208280 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
33208307 TCCGAGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:33226276 original size:175 final size:176
Alignment explanation
Indices: 33226066--33226416 Score: 695
Period size: 175 Copynumber: 2.0 Consensus size: 176
33226056 ATAATTAAAA
33226066 TTAAATATTTTAATAATTTAAGTGAAAATTAATTATTTTAAAATTAATGTATGAATTTCGACAAA
1 TTAAATATTTTAATAATTTAAGTGAAAATTAATTATTTTAAAATTAATGTATGAATTTCGACAAA
33226131 AAAGTACTACGAAACTACATAAATTGGAGCTTAAAAGGTGCTAAAAAAGTTTATGTATTTTTGTG
66 AAAGTACTACGAAACTACATAAATTGGAGCTTAAAAGGTGCTAAAAAAGTTTATGTATTTTTGTG
33226196 TTTCCAGTTACCATGTCTTGGCAGACTTTATTTGTTGCCATAGTTG
131 TTTCCAGTTACCATGTCTTGGCAGACTTTATTTGTTGCCATAGTTG
33226242 TTAAATA-TTTAATAATTTAAGTGAAAATTAATTATTTTAAAATTAATGTATGAATTTCGACAAA
1 TTAAATATTTTAATAATTTAAGTGAAAATTAATTATTTTAAAATTAATGTATGAATTTCGACAAA
33226306 AAAGTACTACGAAACTACATAAATTGGAGCTTAAAAGGTGCTAAAAAAGTTTATGTATTTTTGTG
66 AAAGTACTACGAAACTACATAAATTGGAGCTTAAAAGGTGCTAAAAAAGTTTATGTATTTTTGTG
33226371 TTTCCAGTTACCATGTCTTGGCAGACTTTATTTGTTGCCATAGTTG
131 TTTCCAGTTACCATGTCTTGGCAGACTTTATTTGTTGCCATAGTTG
33226417 AGCTATTGTC
Statistics
Matches: 175, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
175 168 0.96
176 7 0.04
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (176 bp):
TTAAATATTTTAATAATTTAAGTGAAAATTAATTATTTTAAAATTAATGTATGAATTTCGACAAA
AAAGTACTACGAAACTACATAAATTGGAGCTTAAAAGGTGCTAAAAAAGTTTATGTATTTTTGTG
TTTCCAGTTACCATGTCTTGGCAGACTTTATTTGTTGCCATAGTTG
Found at i:33228724 original size:17 final size:16
Alignment explanation
Indices: 33228702--33228745 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
33228692 ATGAAATAAT
*
33228702 ATATTTTATAAGTATTA
1 ATATTTTATAA-CATTA
33228719 ATATTTGTATAACATTA
1 ATATTT-TATAACATTA
*
33228736 TTATTTTATA
1 ATATTTTATA
33228746 GATTATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.17
17 15 0.62
18 5 0.21
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (16 bp):
ATATTTTATAACATTA
Found at i:33239697 original size:50 final size:49
Alignment explanation
Indices: 33239627--33239810 Score: 179
Period size: 51 Copynumber: 3.6 Consensus size: 49
33239617 ATGTGAAAGT
* * *
33239627 GAAAGTGATGGTCACTTGTGTAGTACTATGCGCAGGCTACTACGTGTACCA
1 GAAAGT-A-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * **
33239678 GAAAGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCG
1 GAAAG-TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * * * * *
33239728 GATAACTTCGATCACGTGTGTAGTACTATGTTCAGGCTACTACGTGTATCG
1 GA-AA-GTAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
*
33239779 GATAGTGATGGTCACATGTGTAGTACTATGTG
1 GAAAGT-A-GGTCACATGTGTAGTACTATGTG
33239811 AACCAGTATA
Statistics
Matches: 105, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
49 1 0.01
50 38 0.36
51 65 0.62
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GAAAGTAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
Found at i:33243264 original size:179 final size:179
Alignment explanation
Indices: 33242963--33243304 Score: 623
Period size: 179 Copynumber: 1.9 Consensus size: 179
33242953 TGATTTCATC
*
33242963 AAAACTTGAAGGTGGATTATGGCATTTTTTTAGAGAAAATGGAGAATATGCAAGAGAAAATGGAA
1 AAAACTTGAAGGTGGATTATGGCATTTTTTTAGAGAAAATGGAGAATATGCAAGAAAAAATGGAA
* *
33243028 AAAGAAGAATATAGAGGCCATGGGGGAGCTTACCAACTAGTTCTTAGCTGAATGGTGAGGGGGGG
66 AAAGAAGAACATAGAGGCCATGGGGGAGCTGACCAACTAGTTCTTAGCTGAATGGTGA-GGGGGG
33243093 TTCCCCATTCTTCATTTTAAATACAACAAAAATGAATATAGAGAAAATGG
130 TTCCCCATTCTTCATTTTAAATACAACAAAAATGAATATAGAGAAAATGG
33243143 AAAACTTGAAGGTGGATTATGGCA-TTTTTTAGAGAAAATGGAGAATATGCAAGAAAAAATGGAA
1 AAAACTTGAAGGTGGATTATGGCATTTTTTTAGAGAAAATGGAGAATATGCAAGAAAAAATGGAA
* *
33243207 AAAGAAGAACATAGAGGCCATGGGGGAGCTGGCCAACTAGTTCTTAGTTGAATGGTGAGGGGGGT
66 AAAGAAGAACATAGAGGCCATGGGGGAGCTGACCAACTAGTTCTTAGCTGAATGGTGAGGGGGGT
33243272 TCCCCATTCTTCATTTTAAATACAACAAAAATG
131 TCCCCATTCTTCATTTTAAATACAACAAAAATG
33243305 GGTTCAAGGC
Statistics
Matches: 157, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
178 40 0.25
179 93 0.59
180 24 0.15
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (179 bp):
AAAACTTGAAGGTGGATTATGGCATTTTTTTAGAGAAAATGGAGAATATGCAAGAAAAAATGGAA
AAAGAAGAACATAGAGGCCATGGGGGAGCTGACCAACTAGTTCTTAGCTGAATGGTGAGGGGGGT
TCCCCATTCTTCATTTTAAATACAACAAAAATGAATATAGAGAAAATGG
Found at i:33246393 original size:39 final size:39
Alignment explanation
Indices: 33246324--33246403 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
33246314 CATATGGTTG
* * *
33246324 AATGTTATGTGATTATATGAATATTATGATATATTCTTA
1 AATGTTATGTGATTATATGAATAATATGATAGATGCTTA
** *
33246363 AATGTTATGTGATTATATGTGTAATGTGATAGATGCTTA
1 AATGTTATGTGATTATATGAATAATATGATAGATGCTTA
33246402 AA
1 AA
33246404 AGTGAATATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (39 bp):
AATGTTATGTGATTATATGAATAATATGATAGATGCTTA
Found at i:33250779 original size:39 final size:39
Alignment explanation
Indices: 33250706--33250781 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
33250696 TTATGACATA
* *
33250706 TGCTTGAATGTTATGTGATTATATGATTATTGTGATATC
1 TGCTTAAATGTTATGTGATTATATGATTAATGTGATATC
*
33250745 TGCTTAAATGTTATGTGGTTATATG-TGTAATGTGATA
1 TGCTTAAATGTTATGTGATTATATGAT-TAATGTGATA
33250782 GGTGATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.47
Consensus pattern (39 bp):
TGCTTAAATGTTATGTGATTATATGATTAATGTGATATC
Found at i:33250791 original size:39 final size:39
Alignment explanation
Indices: 33250712--33250796 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
33250702 CATATGCTTG
* * *
33250712 AATGTTATGTGATTATATGATTATTGTGATATCTGCTTA
1 AATGTTATGTGATTATATGATTAATGTGATAGCTGATTA
* *
33250751 AATGTTATGTGGTTATATG-TGTAATGTGATAGGTGATTA
1 AATGTTATGTGATTATATGAT-TAATGTGATAGCTGATTA
*
33250790 AAAGTTA
1 AATGTTA
33250797 ATATGTTTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 1 0.03
39 38 0.97
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (39 bp):
AATGTTATGTGATTATATGATTAATGTGATAGCTGATTA
Found at i:33251653 original size:80 final size:80
Alignment explanation
Indices: 33251520--33251760 Score: 482
Period size: 80 Copynumber: 3.0 Consensus size: 80
33251510 TTCAAGACTT
33251520 TGGTTTTCAAACGAGAAATAAAATGCAAGTTTGGTATCATTTTTCCATGTGATATTGATACCACT
1 TGGTTTTCAAACGAGAAATAAAATGCAAGTTTGGTATCATTTTTCCATGTGATATTGATACCACT
33251585 TAAAGAAAATATCGA
66 TAAAGAAAATATCGA
33251600 TGGTTTTCAAACGAGAAATAAAATGCAAGTTTGGTATCATTTTTCCATGTGATATTGATACCACT
1 TGGTTTTCAAACGAGAAATAAAATGCAAGTTTGGTATCATTTTTCCATGTGATATTGATACCACT
33251665 TAAAGAAAATATCGA
66 TAAAGAAAATATCGA
33251680 TGGTTTTCAAACGAGAAATAAAATGCAAGTTTGGTATCATTTTTCCATGTGATATTGATACCACT
1 TGGTTTTCAAACGAGAAATAAAATGCAAGTTTGGTATCATTTTTCCATGTGATATTGATACCACT
33251745 TAAAGAAAATATCGA
66 TAAAGAAAATATCGA
33251760 T
1 T
33251761 ACCTTAGTAT
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 161 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (80 bp):
TGGTTTTCAAACGAGAAATAAAATGCAAGTTTGGTATCATTTTTCCATGTGATATTGATACCACT
TAAAGAAAATATCGA
Found at i:33253535 original size:21 final size:21
Alignment explanation
Indices: 33253511--33253625 Score: 54
Period size: 22 Copynumber: 5.2 Consensus size: 21
33253501 TTTTCGACAT
33253511 TATGCCATAGTGTCTTTCAAC
1 TATGCCATAGTGTCTTTCAAC
* * * * *
33253532 TATGGTCTTA-TTTATTTTCGACAT
1 TAT-GCCATAGTGT-CTTTC-A-AC
33253556 TATGCCATAGTGTCTTTCAAC
1 TATGCCATAGTGTCTTTCAAC
* * * * *
33253577 TATGGTCTTA-TTTATTTTCGACAT
1 TAT-GCCATAGTGT-CTTTC-A-AC
33253601 TATGCCATAGTGTCTTTCAAC
1 TATGCCATAGTGTCTTTCAAC
33253622 TATG
1 TATG
33253626 GTCTTATTTA
Statistics
Matches: 64, Mismatches: 20, Indels: 20
0.62 0.19 0.19
Matches are distributed among these distances:
21 16 0.25
22 18 0.28
23 18 0.28
24 12 0.19
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (21 bp):
TATGCCATAGTGTCTTTCAAC
Found at i:33253539 original size:45 final size:45
Alignment explanation
Indices: 33253490--33253653 Score: 328
Period size: 45 Copynumber: 3.6 Consensus size: 45
33253480 TTTCAGCCAC
33253490 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
33253535 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
33253580 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
33253625 GGTCTTATTTATTTTCGACATTATGCCAT
1 GGTCTTATTTATTTTCGACATTATGCCAT
33253654 TTCCATCATG
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 119 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (45 bp):
GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
Found at i:33261425 original size:115 final size:113
Alignment explanation
Indices: 33260961--33261494 Score: 416
Period size: 114 Copynumber: 4.7 Consensus size: 113
33260951 AGGGAAAACG
* *
33260961 CCGCTAAAGCATAATATTAACGGCG-TTTTGTGTGAAGCGCCGCAAAATATCTTAACCAAAACGC
1 CCGCTAAAGCATACTATTAACGGCGCTTTT-TGAGAAGCGCCGCAAAATATCTTAACCAAAACGC
* * * * *
33261025 AGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAG-GGAACACG
65 AGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCTATGAGAAAC-CA
* * *** * **
33261074 CCGCTAAGGCATACTATTAGCGGCGCTTCCAGAGAAGCGCCGCAAAATTTGGTAACCAAAACGCA
1 CCGCTAAAGCATACTATTAACGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCA
* * * * * * * * *
33261139 -ACTTTTTTTCTTGATGTATAC-AGTTACTAGTGGCGAATATTAAAAAACA
66 GA-GTTTTGTCTTGAGGTATACTAG-AATTAGTGGCG-CTATGAGAAACCA
* * * * * **** * * *
33261188 CCGCTAAATCATAGTATTAGCAGTGCTTGGCAAAAAGCGCCGCAAAATATGC-TCACCAAAATGC
1 CCGCTAAAGCATACTATTAACGGCGCTTTTTGAGAAGCGCCGCAAAATAT-CTTAACCAAAACGC
* * * * * * *
33261252 AAAGTTTTTTCATCAGGTATATTAGAATTAGTGGCGCTTATGGGAGAA-CG
65 AGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGC-TATGAGA-AACCA
* *
33261302 CCGCTAAAGCATACTATTAACGGCGCTTTTTGAGAAGCGCCGCAAAATATATTAACAAAAACGCA
1 CCGCTAAAGCATACTATTAACGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCA
* * * * * *
33261367 GCGTTTAAGTCTTGATGTACACTGGAATTAGTGGCGTCCATGAGAAACCA
66 GAGTTT-TGTCTTGAGGTATACTAGAATTAGTGGCG-CTATGAGAAACCA
* ** *
33261417 CCGCTAAAGCATAGTA-TAAGCACCGCTTTTTGAGAAGCGCCGGAAAATATCTTAACCAAAACGC
1 CCGCTAAAGCATACTATTAA-CGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGC
33261481 AGAGTTTTGGTCTT
65 AGAGTTTT-GTCTT
33261495 AACCATGCAT
Statistics
Matches: 320, Mismatches: 85, Indels: 30
0.74 0.20 0.07
Matches are distributed among these distances:
112 3 0.01
113 76 0.24
114 141 0.44
115 99 0.31
116 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (113 bp):
CCGCTAAAGCATACTATTAACGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCA
GAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCTATGAGAAACCA
Found at i:33261477 original size:229 final size:227
Alignment explanation
Indices: 33260994--33261489 Score: 546
Period size: 229 Copynumber: 2.2 Consensus size: 227
33260984 CGTTTTGTGT
* * *
33260994 GAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGG
1 GAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGTCATCAGGTATACTAGAATTAGTGG
* * *
33261059 CGCAAAGGGAACACGCCGCTAAGGCATACTATTAGCGGCGCTTCCAGAGAAGCGCCGCAAAATTT
66 CGCAAAGGGAACACGCCGCTAAAGCATACTATTAACGGCGCTTCCAGAGAAGCGCCGCAAAATAT
* * *** * ** * *
33261124 GGTAACCAAAACGCAACTTTTTTTCTTGATGTATACAGTTACTAGTGGCGAATATTAAAAAACAC
131 AGTAACAAAAACGCAACTTTAAGTCTTGATGTACACAGGAACTAGTGGCGAACATGAAAAAACAC
* * **
33261189 CGCTAAATCATAGTATTAGCAGTGCTTGGCAA
196 CGCTAAAGCATAGTATAAGCACCGCTTGGCAA
* * * * * *
33261221 AAAGCGCCGCAAAATATGC-TCACCAAAATGCAAAGTTTTTTCATCAGGTATATTAGAATTAGTG
1 GAAGCGCCGCAAAATAT-CTTAACCAAAACGCAGAGTTTTGTCATCAGGTATACTAGAATTAGTG
* * ***
33261285 GCGCTTATGGGAGA-ACGCCGCTAAAGCATACTATTAACGGCGCTTTTTGAGAAGCGCCGCAAAA
65 GCGC-AAAGGGA-ACACGCCGCTAAAGCATACTATTAACGGCGCTTCCAGAGAAGCGCCGCAAAA
* * * * ** *
33261349 TATATTAACAAAAACGCAGCGTTTAAGTCTTGATGTACACTGGAATTAGTGGCGTCCATGAGAAA
128 TATAGTAACAAAAACGCAAC-TTTAAGTCTTGATGTACACAGGAACTAGTGGCGAACATGAAAAA
* ****
33261414 CCACCGCTAAAGCATAGTATAAGCACCGCTTTTTGA
192 ACACCGCTAAAGCATAGTATAAGCACCGCTTGGCAA
*
33261450 GAAGCGCCGGAAAATATCTTAACCAAAACGCAGAGTTTTG
1 GAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTG
33261490 GTCTTAACCA
Statistics
Matches: 215, Mismatches: 49, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
227 57 0.27
228 67 0.31
229 91 0.42
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (227 bp):
GAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGTCATCAGGTATACTAGAATTAGTGG
CGCAAAGGGAACACGCCGCTAAAGCATACTATTAACGGCGCTTCCAGAGAAGCGCCGCAAAATAT
AGTAACAAAAACGCAACTTTAAGTCTTGATGTACACAGGAACTAGTGGCGAACATGAAAAAACAC
CGCTAAAGCATAGTATAAGCACCGCTTGGCAA
Found at i:33270834 original size:21 final size:21
Alignment explanation
Indices: 33270801--33270840 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33270791 AGTAGACGCG
* *
33270801 GCAGTGAGGGAAGCAGAGGCT
1 GCAGCGAGAGAAGCAGAGGCT
33270822 GCAGCGAGAGAAGCAGAGG
1 GCAGCGAGAGAAGCAGAGG
33270841 TTCAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.47, T:0.05
Consensus pattern (21 bp):
GCAGCGAGAGAAGCAGAGGCT
Found at i:33271322 original size:42 final size:42
Alignment explanation
Indices: 33271222--33271508 Score: 263
Period size: 42 Copynumber: 6.8 Consensus size: 42
33271212 GTTTTTGTAC
* * * * *
33271222 AAAAGCGCCGCTAAAGAACATGTTCTGTAGCAGCGTTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* *
33271264 AAAAGGCGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATAA
1 AAAA-ACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* *
33271307 AAAAACGCCGTTAAAGAACATGCTCTTTAGCGGCGCTTA-ATA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATA-A
* * *
33271349 AAAAACGCCACTAAAGATCATGTTCTTTAGCGGCACTTAT-A
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* * * * **
33271390 AAAAACGCCGCTAAAGAACATGTTCTTCAGCAGCGTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
** * * * * * **
33271432 CTAAGCACCGCTGAAGAACATGTTCTTTAGCGGCGTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* ** *
33271474 ATAAGTGCCGCTAAAGAACATGATCTTTAGCGGCG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
33271509 TTTTTGGTTG
Statistics
Matches: 207, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
41 35 0.17
42 135 0.65
43 37 0.18
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
Found at i:33271457 original size:83 final size:83
Alignment explanation
Indices: 33271222--33271465 Score: 283
Period size: 83 Copynumber: 2.9 Consensus size: 83
33271212 GTTTTTGTAC
* * *
33271222 AAAAGCGCCGCTAAAGAACATGTTCTGTAGCAGCGTTTGTAAAAAAGGCGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGAACATGTTCT-TAGCAGCGTTTATTAAAAA-GCGCCGCTAAAGATCATG
*
33271287 TTCTTTAGCGGCGCTTATAA
64 TTCTTTAGCGGCACTTATAA
* * * * * * *
33271307 AAAAACGCCGTTAAAGAACATGCTCTTTAGCGGCGCTTAATAAAAAACGCCACTAAAGATCATGT
1 AAAAACGCCGCTAAAGAACATGTTC-TTAGCAGCGTTTATTAAAAAGCGCCGCTAAAGATCATGT
33271372 TCTTTAGCGGCACTTAT-A
65 TCTTTAGCGGCACTTATAA
* *** * * *
33271390 AAAAACGCCGCTAAAGAACATGTTCTTCAGCAGCGTTTTTTTCTAAGCACCGCTGAAGAACATGT
1 AAAAACGCCGCTAAAGAACATGTTCTT-AGCAGCGTTTATTAAAAAGCGCCGCTAAAGATCATGT
33271455 TCTTTAGCGGC
65 TCTTTAGCGGC
33271466 GTTTTTTTAT
Statistics
Matches: 132, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
82 2 0.02
83 60 0.45
84 33 0.25
85 36 0.27
86 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (83 bp):
AAAAACGCCGCTAAAGAACATGTTCTTAGCAGCGTTTATTAAAAAGCGCCGCTAAAGATCATGTT
CTTTAGCGGCACTTATAA
Found at i:33272979 original size:21 final size:21
Alignment explanation
Indices: 33272953--33272996 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
33272943 AAAATGTACA
33272953 AATTTAAAATTTTTGTGGCAG
1 AATTTAAAATTTTTGTGGCAG
33272974 AATTTAAAATTTTTGTGGCAG
1 AATTTAAAATTTTTGTGGCAG
33272995 AA
1 AA
33272997 ATGTGAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (21 bp):
AATTTAAAATTTTTGTGGCAG
Found at i:33273005 original size:22 final size:21
Alignment explanation
Indices: 33272957--33273005 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
33272947 TGTACAAATT
*
33272957 TAAAATTTTTGTGGCAGAATT
1 TAAAATTTTTGTGGCAGAATG
33272978 TAAAATTTTTGTGGCAGAAATG
1 TAAAATTTTTGTGGCAG-AATG
*
33273000 TGAAAT
1 TAAAAT
33273006 GGAGTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (21 bp):
TAAAATTTTTGTGGCAGAATG
Found at i:33278409 original size:63 final size:63
Alignment explanation
Indices: 33278316--33278445 Score: 181
Period size: 63 Copynumber: 2.0 Consensus size: 63
33278306 ATAAATGGTG
* * *
33278316 AAATGGAGAAATAGGAAACATTTGGAAATGATTATGGTTTTCTCCAAACTGAAAATGAAAATGA
1 AAATGGAGAAATA-GAAACATTTGGAAATGAATATCGTTTTCTCCAAAATGAAAATGAAAATGA
* **
33278380 AAATGGGGAAAT-GAAATCATTTGGAAATGAATATCGTTTTCTGTAAAATGAAAATGAAAATGA
1 AAATGGAGAAATAGAAA-CATTTGGAAATGAATATCGTTTTCTCCAAAATGAAAATGAAAATGA
33278443 AAA
1 AAA
33278446 ATGAAATTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
62 4 0.07
63 44 0.75
64 11 0.19
ACGTcount: A:0.47, C:0.06, G:0.20, T:0.27
Consensus pattern (63 bp):
AAATGGAGAAATAGAAACATTTGGAAATGAATATCGTTTTCTCCAAAATGAAAATGAAAATGA
Found at i:33294336 original size:76 final size:76
Alignment explanation
Indices: 33294200--33294355 Score: 192
Period size: 76 Copynumber: 2.1 Consensus size: 76
33294190 TGAACCATTC
* * * *
33294200 ACTCATCATCTCGAAGAAGGCTTCCTTAGCCTCTCCTCCTCAGCCTTCAGATATGAGCCTTGCG-
1 ACTCATCATCTCGAAGAAGGCTTACTTAGCCTCTCCTCCTCAGCCCTCAAATACGAGCCTTGCGC
*
33294264 TCGCTCGATGCT
66 T-GCTCGAAGCT
* * *
33294276 ACTCATCATCTGGAAGAAGGGC-TACTTAGCCTCTCTTCC-CAGGCCCTCAAATACGGGCCTTGC
1 ACTCATCATCTCGAAGAA-GGCTTACTTAGCCTCTCCTCCTCA-GCCCTCAAATACGAGCCTTGC
33294339 GCTGCTCGAAGCT
64 GCTGCTCGAAGCT
33294352 ACTC
1 ACTC
33294356 CATGAACAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
75 2 0.03
76 63 0.91
77 4 0.06
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.26
Consensus pattern (76 bp):
ACTCATCATCTCGAAGAAGGCTTACTTAGCCTCTCCTCCTCAGCCCTCAAATACGAGCCTTGCGC
TGCTCGAAGCT
Found at i:33296112 original size:24 final size:24
Alignment explanation
Indices: 33296023--33296113 Score: 96
Period size: 24 Copynumber: 3.8 Consensus size: 24
33296013 TCATGTACAT
*
33296023 GTATGCTCAT-ACGAGCTATGAATCG
1 GTATGCTC-TCACGAGCTGT-AATCG
*
33296048 GTATGCTCTCACGAGCTGTAATTG
1 GTATGCTCTCACGAGCTGTAATCG
* *
33296072 GGATGC-CCCACGAGCTGTAATCG
1 GTATGCTCTCACGAGCTGTAATCG
* *
33296095 GTCTACTCTCACGAGCTGT
1 GTATGCTCTCACGAGCTGT
33296114 GGGTCAGAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
23 18 0.33
24 21 0.38
25 16 0.29
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (24 bp):
GTATGCTCTCACGAGCTGTAATCG
Found at i:33306865 original size:8 final size:8
Alignment explanation
Indices: 33306852--33306877 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
33306842 AATTTCAATT
33306852 TTATTTAA
1 TTATTTAA
33306860 TTATTTAA
1 TTATTTAA
33306868 TTATTTAA
1 TTATTTAA
33306876 TT
1 TT
33306878 TATTGAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTTAA
Found at i:33310576 original size:19 final size:19
Alignment explanation
Indices: 33310552--33310624 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
33310542 AATCTTCAAG
33310552 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
33310571 GATATGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
33310590 GATATGTTATCTTAGATAT
1 GATATGCAATCTTAGATAT
33310609 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
33310625 AGATATGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33310650 original size:22 final size:22
Alignment explanation
Indices: 33310552--33310647 Score: 75
Period size: 19 Copynumber: 4.7 Consensus size: 22
33310542 AATCTTCAAG
33310552 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
33310571 GATATGAAATCTTAG---ATAT
1 GATATGCAATCTTAGAAGATAT
**
33310590 GATATGTTATCTTAG-A--TAT
1 GATATGCAATCTTAGAAGATAT
33310609 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
33310631 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
33310648 GATTTAATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
19 45 0.71
20 1 0.02
22 5 0.08
23 12 0.19
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:33317322 original size:88 final size:88
Alignment explanation
Indices: 33317173--33317662 Score: 719
Period size: 88 Copynumber: 5.6 Consensus size: 88
33317163 GTGAAGATAA
* * * * * *
33317173 CAGATTTTTCCTTCCTGCACCGATAGCAAAGCAGATCGAGGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
** *
33317238 GTAGCGGAGCAGGCTAAAAATAG
66 ACAGCGGAGCAGGTTAAAAATAG
** * *
33317261 CAGATCTTGCCTTCCTGCACCGACAGCGAAAAATATCGAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
33317326 GCAGCGGAGCAGGTTAAAAATAG
66 ACAGCGGAGCAGGTTAAAAATAG
*
33317349 CAGATCTTGCCTTCCTGCAACGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
33317414 ACAGTGGAGCAGGTTAAAAATAG
66 ACAGCGGAGCAGGTTAAAAATAG
** *
33317437 CAGATCTTGCCTTCCTGCAATGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
33317502 ACAGCGGAGCAGGTTAAAAATAG
66 ACAGCGGAGCAGGTTAAAAATAG
** *
33317525 CAGATCTTGCCTTCCTATACCGACAGCTAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
33317590 ACAGCGAAGCAGGTTAAAAATAG
66 ACAGCGGAGCAGGTTAAAAATAG
** * * * *
33317613 CAGATCTTGCCTTCCTATATCGACAGCGAAGCAAATCGATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
33317663 CTATCTCTCT
Statistics
Matches: 368, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 368 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
ACAGCGGAGCAGGTTAAAAATAG
Found at i:33317358 original size:44 final size:44
Alignment explanation
Indices: 33317310--33317624 Score: 177
Period size: 44 Copynumber: 7.2 Consensus size: 44
33317300 AGACACTAGC
*
33317310 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
* **** * ** * * * *
33317354 CTTGCCTTCCTGCAACGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGCAGAT
* * *
33317398 CTTGCCTCCCTGGGTTACAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
* *** * ** * * * *
33317442 CTTGCCTTCCTGCAATGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGCAGAT
* * *
33317486 CTTGCCTCCCTAGGTTACAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
* ***** * * ** * * * *
33317530 CTTGCCTTCCTATACCGACAGCTAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGCAGAT
*
33317574 CTTGCCTCCCTGGGTTACAGCGAAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
33317618 CTTGCCT
1 CTTGCCT
33317625 TCCTATATCG
Statistics
Matches: 179, Mismatches: 86, Indels: 12
0.65 0.31 0.04
Matches are distributed among these distances:
43 53 0.30
44 74 0.41
45 52 0.29
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
Found at i:33317731 original size:44 final size:44
Alignment explanation
Indices: 33317664--33317758 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
33317654 ACCCCAGCCC
* *
33317664 TATCTCTCTGGATAGCAGTGGAATAGGTTGAAGATTGT-AAGTCA
1 TATCTCCCTGGATAGCAATGGAATAGGTTGAAGATTGTGAA-TCA
*
33317708 TATCTCCCTGG-TCAGCAATGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGAT-AGCAATGGAATAGGTTGAAGATTGTGAATCA
33317752 TATCTCC
1 TATCTCC
33317759 TTGAGCAACA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 43 0.93
45 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (44 bp):
TATCTCCCTGGATAGCAATGGAATAGGTTGAAGATTGTGAATCA
Found at i:33317779 original size:44 final size:44
Alignment explanation
Indices: 33317679--33317783 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 44
33317669 CTCTGGATAG
*
33317679 CAGTGGAATAGGTTGAAGATTGTAAGTCATATCTCCCTGGTCAG
1 CAGTGGAATAGGTTGAAGATTGTAAGTCATATCTCCCTGGTCAA
* * *
33317723 CAATGGAATAGGTTGAAGATTGTGAA-TCCTATCTCCTTGAG-CAA
1 CAGTGGAATAGGTTGAAGATTGT-AAGTCATATCTCCCTG-GTCAA
*
33317767 CAGTGGAGTAGGTTGAA
1 CAGTGGAATAGGTTGAA
33317784 AATAGCAGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 50 0.94
45 3 0.06
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (44 bp):
CAGTGGAATAGGTTGAAGATTGTAAGTCATATCTCCCTGGTCAA
Found at i:33318396 original size:45 final size:44
Alignment explanation
Indices: 33318145--33318654 Score: 227
Period size: 44 Copynumber: 11.7 Consensus size: 44
33318135 CTGAAGATGG
* * *
33318145 CGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG--AAT
* *** *
33318191 --AATCCTATCTCCCTGAAGTCATAGTGGAGCAGA-TTAA-AAT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAT
* * * *
33318231 CATAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TC--GCAT
1 C-GA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAT
* * * * * * *
33318273 CTAGTCTTATCTCACTGAATTTGCAGTGGATCAGA-TTAAGTAAG
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAT
* * * *
33318317 C-AAGCCTTATACT-CCTGAAGTTGTAGT-GAGGCAGACTGAAGATGT
1 CGAA-TCTTAT-CTCCCTGAAGTTGCAGTGGA-GCAGACTCAAGA-AT
* *
33318362 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG--AAT
* * * *
33318408 --AATCCTATCTCCCTAAAGTTGCAGTGGAG-TGTA-TTAA-AAT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ACTCAAGAAT
* * ** * *
33318448 CACATATCTTATCTCTCTGAAGTTGCA-AAGAGCATA-TC-A-CAT
1 C-GA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAT
** * *
33318490 CGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAT
* *
33318535 CGAGTGTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAT
* * * * * * * *
33318580 C-AAGTCATATCCCCCTGAAATTGTAGTGGGGCAGACTAAATAAA
1 CGAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAT
* ** * *
33318624 CAAATCCCATCTCCCTAAAGTTGTAGTGGAG
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAG
33318655 TGGATTAGAA
Statistics
Matches: 353, Mismatches: 79, Indels: 66
0.71 0.16 0.13
Matches are distributed among these distances:
40 46 0.13
41 15 0.04
42 8 0.02
43 27 0.08
44 143 0.41
45 108 0.31
46 5 0.01
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAT
Found at i:33318516 original size:217 final size:217
Alignment explanation
Indices: 33318132--33318524 Score: 617
Period size: 217 Copynumber: 1.8 Consensus size: 217
33318122 GCAATTTAAA
33318132 AGACTGAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* * * *
33318197 ATCTCCCTGAAGTCATAGTGGAGCAGATTAAAATCATAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTAAAGTCACAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
* * * *
33318262 GCAGATCGCATCTAGTCTTATCTCACTGAATTTGCAGTGGATCAGATTAAGTAAGCAAGCCTTAT
131 GCAGATCACATCGAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGATTAAGTAAGCAAGCCTTAT
33318327 ACTCCTGAAGTTGTAGTGAGGC
196 ACTCCTGAAGTTGTAGTGAGGC
* *
33318349 AGACTGAAGATGTCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
** * *
33318414 ATCTCCCTAAAGTTGCAGTGGAG-TGTATTAAAATCACATATCTTATCTCTCTGAAGTTGCAAAG
66 ATCTCCCTAAAGTCACAGTGGAGCAG-ATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAG
* * *
33318478 AGCATATCACATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
130 AGCAGATCACATCGAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGA
33318525 CCCAAGAAAA
Statistics
Matches: 158, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
216 1 0.01
217 157 0.99
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (217 bp):
AGACTGAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
ATCTCCCTAAAGTCACAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
GCAGATCACATCGAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGATTAAGTAAGCAAGCCTTAT
ACTCCTGAAGTTGTAGTGAGGC
Found at i:33319178 original size:19 final size:20
Alignment explanation
Indices: 33319154--33319200 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
33319144 AATCTTCAAG
*
33319154 GATATGTAATCTT-AGATAT
1 GATATGCAATCTTAAGATAT
33319173 GATATGCAATCTTAAAAGATAT
1 GATATGCAATCTT--AAGATAT
33319195 GATATG
1 GATATG
33319201 ATATGATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 12 0.50
22 12 0.50
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (20 bp):
GATATGCAATCTTAAGATAT
Found at i:33319195 original size:17 final size:17
Alignment explanation
Indices: 33319144--33319195 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
33319134 ATGGAAACAT
* * *
33319144 AATCTTCAAGGATATGT
1 AATCTTAAAAGATATGC
*
33319161 AATCTTAGATATGATATGC
1 AATCTTA-A-AAGATATGC
33319180 AATCTTAAAAGATATG
1 AATCTTAAAAGATATG
33319196 ATATGATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (17 bp):
AATCTTAAAAGATATGC
Found at i:33321093 original size:9 final size:9
Alignment explanation
Indices: 33321079--33321104 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33321069 CCAAAAACTT
33321079 CATCATCTA
1 CATCATCTA
33321088 CATCATCTA
1 CATCATCTA
33321097 CATCATCT
1 CATCATCT
33321105 TCTCCAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (9 bp):
CATCATCTA
Found at i:33325906 original size:18 final size:18
Alignment explanation
Indices: 33325883--33325917 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33325873 AATAAACATG
33325883 AAGCATTAAAA-TAGTTTC
1 AAGCA-TAAAAGTAGTTTC
33325901 AAGCATAAAAGTAGTTT
1 AAGCATAAAAGTAGTTT
33325918 GGCACGTCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (18 bp):
AAGCATAAAAGTAGTTTC
Found at i:33329470 original size:22 final size:22
Alignment explanation
Indices: 33329442--33329485 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
33329432 TATCACACCC
33329442 CTGCACAAATTCGTAAGCATCT
1 CTGCACAAATTCGTAAGCATCT
33329464 CTGCACAAATTCGTAAGCATCT
1 CTGCACAAATTCGTAAGCATCT
33329486 TTGTTCATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (22 bp):
CTGCACAAATTCGTAAGCATCT
Found at i:33342034 original size:40 final size:40
Alignment explanation
Indices: 33341979--33342058 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
33341969 TTGCCCTACG
33341979 AGGAGACTTTTACCAGAGGGATGATACACAGCACAGATCC
1 AGGAGACTTTTACCAGAGGGATGATACACAGCACAGATCC
*
33342019 AGGAGACTTTTACCAGAGGGATGATTCACAGCACAGATCC
1 AGGAGACTTTTACCAGAGGGATGATACACAGCACAGATCC
33342059 CCGGATTCTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.19
Consensus pattern (40 bp):
AGGAGACTTTTACCAGAGGGATGATACACAGCACAGATCC
Found at i:33348306 original size:18 final size:18
Alignment explanation
Indices: 33348263--33348306 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
33348253 ACTCAATCCA
* *
33348263 AACCCAAGTATCCAACCC
1 AACCCAATTACCCAACCC
33348281 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
33348299 AACCCAAT
1 AACCCAAT
33348307 CATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
AACCCAATTACCCAACCC
Found at i:33348356 original size:6 final size:6
Alignment explanation
Indices: 33348347--33348389 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
33348337 AAATAAAATT
* *
33348347 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAGT CTAAAA GTAAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA-A CTAAAA CTAAAA
33348390 AACATATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.63, C:0.14, G:0.05, T:0.19
Consensus pattern (6 bp):
CTAAAA
Found at i:33348417 original size:9 final size:9
Alignment explanation
Indices: 33348405--33348445 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
33348395 ATAATTTAGG
*
33348405 TAATTCGGT
1 TAATTCAGT
33348414 TAATTCAGT
1 TAATTCAGT
33348423 TAATTCAGT
1 TAATTCAGT
*
33348432 TAATTCGGT
1 TAATTCAGT
33348441 TAATT
1 TAATT
33348446 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (9 bp):
TAATTCAGT
Found at i:33348991 original size:59 final size:59
Alignment explanation
Indices: 33348925--33349114 Score: 156
Period size: 59 Copynumber: 3.2 Consensus size: 59
33348915 GAATGACTTG
* *
33348925 GTGGCTATTTAATGT-AAGTAGG-TGCCATT-GTGGCTA-CTTAAAGTTTTGTGGACGCCCTT
1 GTGGCTATCTAA-GTCAAGT-GGATGCC-TTCGTGGCTATC-TAAAGTTGTGTGGACGCCCTT
* * * *
33348984 GTGGCTATCTAAGTCAAGTGGATGTCTTCGTGGCTATCTAATGTTGTGTGGATGCCTTT
1 GTGGCTATCTAAGTCAAGTGGATGCCTTCGTGGCTATCTAAAGTTGTGTGGACGCCCTT
* * * * * * * * *
33349043 GTGGCTATCTGATGTTACA-TGGATGCCTTCATGACTATTTGATGTTATGTGGACGCCTTT
1 GTGGCTATCT-AAGTCA-AGTGGATGCCTTCGTGGCTATCTAAAGTTGTGTGGACGCCCTT
33349103 GTGGCTATCTAA
1 GTGGCTATCTAA
33349115 TATTGTGTGG
Statistics
Matches: 109, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
58 6 0.06
59 53 0.49
60 49 0.45
61 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (59 bp):
GTGGCTATCTAAGTCAAGTGGATGCCTTCGTGGCTATCTAAAGTTGTGTGGACGCCCTT
Found at i:33349037 original size:30 final size:30
Alignment explanation
Indices: 33348817--33349143 Score: 188
Period size: 30 Copynumber: 10.9 Consensus size: 30
33348807 AAGTCCGTTA
*
33348817 TATGTGGATACCTTTGTGGCTATCTAATGT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
*
33348847 TATATGAGA-GCCTTTGTGGCTATATCTATATG-
1 TATGTG-GATGCCTTTGTGGC--TATCTA-ATGT
** *
33348879 TATGT--ACACCTTTATGGCTATCT--TGT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
* * * *
33348905 GTACGTGTTTGAATGACTTGGTGGCTATTTAATG-
1 -TA--TG--TGGATGCCTTTGTGGCTATCTAATGT
* * *
33348939 TAAGTAGG-TGCCATTGTGGCTA-CTTAAAGT
1 TATGT-GGATGCCTTTGTGGCTATC-TAATGT
* * *
33348969 TTTGTGGACGCCCTTGTGGCTATCTAA-GT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
* * * *
33348998 CAAGTGGATGTCTTCGTGGCTATCTAATGT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
* *
33349028 TGTGTGGATGCCTTTGTGGCTATCTGATGT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
** ** * * *
33349058 TACATGGATGCCTTCATGACTATTTGATGT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
* *
33349088 TATGTGGACGCCTTTGTGGCTATCTAATAT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
* * *
33349118 TGTGTGGACGCCTTTGTAGCTATCTA
1 TATGTGGATGCCTTTGTGGCTATCTA
33349144 TCTATTGTGC
Statistics
Matches: 223, Mismatches: 53, Indels: 42
0.70 0.17 0.13
Matches are distributed among these distances:
25 2 0.01
27 2 0.01
28 5 0.02
29 43 0.19
30 137 0.61
31 5 0.02
32 10 0.04
33 17 0.08
35 2 0.01
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (30 bp):
TATGTGGATGCCTTTGTGGCTATCTAATGT
Found at i:33365021 original size:29 final size:28
Alignment explanation
Indices: 33364854--33365289 Score: 315
Period size: 28 Copynumber: 15.6 Consensus size: 28
33364844 TTCAGATTTC
* *
33364854 GCCACAAAGGCGTTCCTTT-CCAAAGATA
1 GCCACAAAGGC-TTCCTTTAACAGAGATA
* * * * *
33364882 GCCACAGAGGTTGTCCTTT--TAGAGTCTC
1 GCCACAAAGGCT-TCCTTTAACAGAG-ATA
* * * *
33364910 GCCACGAAGGCATCCTTTTAACAAAGATT
1 GCCACAAAGGCTTCC-TTTAACAGAGATA
* * *
33364939 TCCAC-AAGGCCTTCATTTAACTGAGATA
1 GCCACAAAGG-CTTCCTTTAACAGAGATA
* * * *
33364967 GCCACAAAGACATCTTTTTAATAGAGATA
1 GCCACAAAGGCTTC-CTTTAACAGAGATA
* *
33364996 GCCACAAAGACTTCGTTATAACAGAGATCA
1 GCCACAAAGGCTTCCTT-TAACAGAGAT-A
*
33365026 -TCACAAAGGCTTCCTTATAACAGAGATCA
1 GCCACAAAGGCTTCCTT-TAACAGAGAT-A
* *
33365055 -CCATAAAGGCTTCCTTATAACAGAGATT
1 GCCACAAAGGCTTCCTT-TAACAGAGATA
* ** *
33365083 GCAACAAAGTTTTCCTTT-ACAGGGATA
1 GCCACAAAGGCTTCCTTTAACAGAGATA
* *
33365110 GCCACAAAGGATT-TTTTAACAGAGATA
1 GCCACAAAGGCTTCCTTTAACAGAGATA
* * *
33365137 GCCACAAAGGCTTCATTTAACAGTGAAA
1 GCCACAAAGGCTTCCTTTAACAGAGATA
* * * *
33365165 GCCATAAAGGCTTACTTTTACAAAGATA
1 GCCACAAAGGCTTCCTTTAACAGAGATA
*
33365193 GCCACGAAA-ACTTCCTTTAACAGAGATA
1 GCCAC-AAAGGCTTCCTTTAACAGAGATA
*
33365221 GCCACAAAGGCTTCCTTT--CAAAGATA
1 GCCACAAAGGCTTCCTTTAACAGAGATA
33365247 GCCACAAAGGCTTCCATTT---AGAGATA
1 GCCACAAAGGCTTCC-TTTAACAGAGATA
33365273 GCCACAAAGGCTTCCTT
1 GCCACAAAGGCTTCCTT
33365290 AGATTGTGCC
Statistics
Matches: 327, Mismatches: 65, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
25 2 0.01
26 46 0.14
27 50 0.15
28 115 0.35
29 110 0.34
30 4 0.01
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (28 bp):
GCCACAAAGGCTTCCTTTAACAGAGATA
Found at i:33365167 original size:28 final size:28
Alignment explanation
Indices: 33364926--33365286 Score: 269
Period size: 29 Copynumber: 13.0 Consensus size: 28
33364916 AAGGCATCCT
* **
33364926 TTTAACAAAGATTTCCAC-AAGGCCTTCA
1 TTTAACAGAGATAGCCACAAAGG-CTTCA
* * * *
33364954 TTTAACTGAGATAGCCACAAAGACATCTT
1 TTTAACAGAGATAGCCACAAAGGCTTC-A
* * *
33364983 TTTAATAGAGATAGCCACAAAGACTTCG
1 TTTAACAGAGATAGCCACAAAGGCTTCA
* *
33365011 TTATAACAGAGATCA-TCACAAAGGCTTCC
1 TT-TAACAGAGAT-AGCCACAAAGGCTTCA
* *
33365040 TTATAACAGAGATCA-CCATAAAGGCTTCC
1 TT-TAACAGAGAT-AGCCACAAAGGCTTCA
* * ** *
33365069 TTATAACAGAGATTGCAACAAAGTTTTCC
1 TT-TAACAGAGATAGCCACAAAGGCTTCA
* * *
33365098 TTT-ACAGGGATAGCCACAAAGGATT-T
1 TTTAACAGAGATAGCCACAAAGGCTTCA
33365124 TTTAACAGAGATAGCCACAAAGGCTTCA
1 TTTAACAGAGATAGCCACAAAGGCTTCA
* * *
33365152 TTTAACAGTGAAAGCCATAAAGGCTT-A
1 TTTAACAGAGATAGCCACAAAGGCTTCA
* * * *
33365179 CTTTTACAAAGATAGCCACGAAA-ACTTCC
1 -TTTAACAGAGATAGCCAC-AAAGGCTTCA
*
33365208 TTTAACAGAGATAGCCACAAAGGCTTCC
1 TTTAACAGAGATAGCCACAAAGGCTTCA
*
33365236 TTT--CAAAGATAGCCACAAAGGCTTCCA
1 TTTAACAGAGATAGCCACAAAGGCTT-CA
33365263 TTT---AGAGATAGCCACAAAGGCTTC
1 TTTAACAGAGATAGCCACAAAGGCTTC
33365287 CTTAGATTGT
Statistics
Matches: 274, Mismatches: 47, Indels: 27
0.79 0.14 0.08
Matches are distributed among these distances:
25 1 0.00
26 42 0.15
27 45 0.16
28 83 0.30
29 102 0.37
30 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (28 bp):
TTTAACAGAGATAGCCACAAAGGCTTCA
Found at i:33365306 original size:24 final size:25
Alignment explanation
Indices: 33365214--33365292 Score: 115
Period size: 26 Copynumber: 3.1 Consensus size: 25
33365204 TTCCTTTAAC
*
33365214 AGAGATAGCCACAAAGGCTTCCTTT
1 AGAGATAGCCACAAAGGCTTCCATT
*
33365239 CAAAGATAGCCACAAAGGCTTCCATTT
1 -AGAGATAGCCACAAAGGCTTCCA-TT
33365266 AGAGATAGCCACAAAGGCTTCC-TT
1 AGAGATAGCCACAAAGGCTTCCATT
33365290 AGA
1 AGA
33365293 TTGTGCCACA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
24 5 0.10
26 42 0.86
27 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (25 bp):
AGAGATAGCCACAAAGGCTTCCATT
Found at i:33376223 original size:23 final size:23
Alignment explanation
Indices: 33376180--33376230 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
33376170 AAAAACATAA
33376180 AAATAAAAGTAAAGTAAAGCAAG
1 AAATAAAAGTAAAGTAAAGCAAG
*
33376203 TAAATAAAA-TAAAG-ACGAGCAAG
1 -AAATAAAAGTAAAGTA-AAGCAAG
33376226 AAATA
1 AAATA
33376231 TTAAACTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 6 0.24
23 11 0.44
24 8 0.32
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.14
Consensus pattern (23 bp):
AAATAAAAGTAAAGTAAAGCAAG
Found at i:33377423 original size:24 final size:25
Alignment explanation
Indices: 33377380--33377428 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
33377370 TCAATTTAGT
33377380 CCTTGAACCTAAAACATGCAAATTG
1 CCTTGAACCTAAAACATGCAAATTG
33377405 CCTTGAACCT-AAACATGCAAATTG
1 CCTTGAACCTAAAACATGCAAATTG
33377429 GCCATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (25 bp):
CCTTGAACCTAAAACATGCAAATTG
Found at i:33383183 original size:21 final size:21
Alignment explanation
Indices: 33383154--33383227 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
33383144 CAATAATAAG
33383154 AATACTTTTATTTTAAAATTT
1 AATACTTTTATTTTAAAATTT
* **
33383175 AATA-TTTTTTTTTAAAATAAA
1 AATACTTTTATTTTAAAAT-TT
33383196 AATACTTTTATTTTAAAATTT
1 AATACTTTTATTTTAAAATTT
*
33383217 AATATTTTTAT
1 AATACTTTTAT
33383228 AATTAATCCG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 13 0.30
21 18 0.41
22 13 0.30
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
AATACTTTTATTTTAAAATTT
Found at i:33384279 original size:21 final size:21
Alignment explanation
Indices: 33384229--33384279 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
33384219 GGTGAACCGC
*
33384229 TTTTTA-TAAATTTTTTAATA
1 TTTTTATTAAATCTTTTAATA
33384249 TATTTT-TTAAATCTTTT-ATGA
1 T-TTTTATTAAATCTTTTAAT-A
33384270 TTTTTATTAA
1 TTTTTATTAA
33384280 TTTATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTATTAAATCTTTTAATA
Found at i:33384995 original size:18 final size:18
Alignment explanation
Indices: 33384972--33385012 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
33384962 TTACAAAATA
**
33384972 AAAATATATAACCTTTTT
1 AAAATATATAAAATTTTT
33384990 AAAATATATAAAATTTTT
1 AAAATATATAAAATTTTT
33385008 AAAAT
1 AAAAT
33385013 TTTCAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATATAAAATTTTT
Found at i:33385831 original size:20 final size:20
Alignment explanation
Indices: 33385808--33385871 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
33385798 CAGCTCCTTT
*
33385808 AGCTCGTTTCAGCTCCAA-TC
1 AGCTCATTTCAGCT-CAATTC
*
33385828 AGCTCATTTGAGCTCAATTC
1 AGCTCATTTCAGCTCAATTC
*
33385848 AGCTCA-TTCGAGCTCAATTT
1 AGCTCATTTC-AGCTCAATTC
33385868 AGCT
1 AGCT
33385872 TTCTTTCAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.13
20 33 0.87
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (20 bp):
AGCTCATTTCAGCTCAATTC
Found at i:33388138 original size:6 final size:6
Alignment explanation
Indices: 33388129--33388199 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
33388119 TAATGAAATC
* * * **
33388129 GAAAAA GAAAAC GAAAAA GAAAAA GAAATTA -CAAAA GAAAAA GAAATC
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAA-AA GAAAAA GAAAAA GAAAAA
** *
33388177 GAAAAA GTGAGA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAA
33388200 TGAAGAAAAG
Statistics
Matches: 47, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
5 1 0.02
6 45 0.96
7 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.06
Consensus pattern (6 bp):
GAAAAA
Found at i:33388143 original size:12 final size:12
Alignment explanation
Indices: 33388123--33388183 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
33388113 ACATTGTAAT
*
33388123 GAAATCGAAAAA
1 GAAAACGAAAAA
33388135 GAAAACGAAAAA
1 GAAAACGAAAAA
* *
33388147 GAAAAAGAAATTA
1 GAAAACGAAA-AA
*
33388160 CAAAA-GAAAAA
1 GAAAACGAAAAA
*
33388171 GAAATCGAAAAA
1 GAAAACGAAAAA
33388183 G
1 G
33388184 TGAGAGAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
11 4 0.10
12 31 0.77
13 5 0.12
ACGTcount: A:0.70, C:0.07, G:0.16, T:0.07
Consensus pattern (12 bp):
GAAAACGAAAAA
Found at i:33388150 original size:18 final size:18
Alignment explanation
Indices: 33388129--33388183 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
33388119 TAATGAAATC
33388129 GAAAAAGAAAACGAAAAA
1 GAAAAAGAAAACGAAAAA
33388147 GAAAAAGAAATTAC--AAAA
1 GAAAAAGAAA--ACGAAAAA
*
33388165 GAAAAAGAAATCGAAAAA
1 GAAAAAGAAAACGAAAAA
33388183 G
1 G
33388184 TGAGAGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 1 0.03
18 29 0.91
20 2 0.06
ACGTcount: A:0.73, C:0.05, G:0.16, T:0.05
Consensus pattern (18 bp):
GAAAAAGAAAACGAAAAA
Found at i:33388243 original size:16 final size:18
Alignment explanation
Indices: 33388222--33388260 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
33388212 ATTGAGATTG
33388222 AGAAAAA-A-ATTGAAAA
1 AGAAAAAGATATTGAAAA
*
33388238 AGAAAAAGATGTTGAAAA
1 AGAAAAAGATATTGAAAA
33388256 AGAAA
1 AGAAA
33388261 CGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (18 bp):
AGAAAAAGATATTGAAAA
Found at i:33389136 original size:13 final size:13
Alignment explanation
Indices: 33389113--33389146 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
33389103 TCATCCACCT
33389113 TTTTATACCTTTGG
1 TTTT-TACCTTTGG
33389127 TTTTTACCTTTGG
1 TTTTTACCTTTGG
33389140 TTTTTAC
1 TTTTTAC
33389147 TTCTTCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.62
Consensus pattern (13 bp):
TTTTTACCTTTGG
Found at i:33393977 original size:15 final size:14
Alignment explanation
Indices: 33393956--33393991 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
33393946 ATAATCCTTA
*
33393956 ATAATTATCTTAAT
1 ATAATTATCCTAAT
33393970 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
33393985 ATAATTA
1 ATAATTA
33393992 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:33398692 original size:29 final size:29
Alignment explanation
Indices: 33398659--33398731 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
33398649 ACACAATTCT
*
33398659 AATAATAAAAAAAATATAATACT-AATAA
1 AATAATAAAAAAAATATAATAATAAATAA
*
33398687 CAATAATAAAATAAATATAATAATAAATAA
1 -AATAATAAAAAAAATATAATAATAAATAA
*
33398717 AATAAATAAATAAAA
1 AAT-AATAAAAAAAA
33398732 GGGGAGGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 24 0.63
30 14 0.37
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.25
Consensus pattern (29 bp):
AATAATAAAAAAAATATAATAATAAATAA
Found at i:33398694 original size:20 final size:20
Alignment explanation
Indices: 33398661--33398720 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
33398651 ACAATTCTAA
*
33398661 TAATAAAAAAAATATAATAC
1 TAATAAAAAAAATAAAATAC
* *
33398681 TAATAACAATAATAAAATA-
1 TAATAAAAAAAATAAAATAC
33398700 -AATATAATAATAAATAAAATA
1 TAATA-AA-AA-AAATAAAATA
33398721 AATAAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 18 0.56
21 9 0.28
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (20 bp):
TAATAAAAAAAATAAAATAC
Found at i:33398703 original size:12 final size:12
Alignment explanation
Indices: 33398688--33398729 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
33398678 TACTAATAAC
33398688 AATAATAAAATA
1 AATAATAAAATA
33398700 AAT-ATAATAATA
1 AATAATAA-AATA
*
33398712 AATAAAATAAATA
1 AATAATA-AAATA
33398725 AATAA
1 AATAA
33398730 AAGGGGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 4 0.15
12 10 0.38
13 11 0.42
14 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAATAAAATA
Done.