Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 43 of 120
Found at i:11601751 original size:21 final size:21
Alignment explanation
Indices: 11601725--11601855 Score: 76
Period size: 21 Copynumber: 6.1 Consensus size: 21
11601715 TAAAATAGTA
11601725 TTATATTTTTTTTATATTT-TT
1 TTATATTTTTTTTAT-TTTCTT
11601746 TTATATTTTTTTTATTTTCTT
1 TTATATTTTTTTTATTTTCTT
* **
11601767 TTGAATTATTTAGATTTTATTTAGTT
1 TT--A-TATTT--TTTTTATTTTCTT
11601793 TTATATTTTATGTTT-TATTTCTT
1 TTATATTTT-T-TTTAT-TTTCTT
* *
11601816 TT-TATTTTTCTT-TTTT-TG
1 TTATATTTTTTTTATTTTCTT
* *
11601834 TTAT-TTGTTTTTATTTTATT
1 TTATATTTTTTTTATTTTCTT
11601854 TT
1 TT
11601856 TTAGACTTAT
Statistics
Matches: 87, Mismatches: 11, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
18 9 0.10
19 8 0.09
20 9 0.10
21 20 0.23
22 8 0.09
23 15 0.17
24 6 0.07
26 12 0.14
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (21 bp):
TTATATTTTTTTTATTTTCTT
Found at i:11601768 original size:10 final size:10
Alignment explanation
Indices: 11601725--11601763 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
11601715 TAAAATAGTA
11601725 TTATATTTTTT
1 TTATA-TTTTT
11601736 TTATATTTTT
1 TTATATTTTT
11601746 TTATATTTTT
1 TTATATTTTT
11601756 TT-TATTTT
1 TTATATTTT
11601764 CTTTTGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.21
10 17 0.61
11 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTATATTTTT
Found at i:11601768 original size:11 final size:10
Alignment explanation
Indices: 11601725--11601857 Score: 70
Period size: 11 Copynumber: 11.9 Consensus size: 10
11601715 TAAAATAGTA
11601725 TTATATTTTTT
1 TTAT-TTTTTT
*
11601736 TTATATTTTT
1 TTATTTTTTT
11601746 TTATATTTTTT
1 TTAT-TTTTTT
11601757 TTATTTTCTTT
1 TTATTTT-TTT
*
11601768 TGAATTATTTAGATT
1 T-TATT-TTT---TT
11601783 TTATTTAGTTTT
1 TTATTT--TTTT
*
11601795 ATATTTTATGTT
1 TTATTTT-T-TT
*
11601807 TTATTTCTTT
1 TTATTTTTTT
11601817 TTATTTTTCTT
1 TTATTTTT-TT
*
11601828 TT-TTTGTTAT
1 TTATTT-TTTT
*
11601838 TTGTTTTTATT
1 TTATTTTT-TT
11601849 TTATTTTTT
1 TTATTTTTT
11601858 AGACTTATAT
Statistics
Matches: 96, Mismatches: 11, Indels: 31
0.70 0.08 0.22
Matches are distributed among these distances:
10 31 0.32
11 36 0.38
12 18 0.19
13 3 0.03
14 3 0.03
15 5 0.05
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.77
Consensus pattern (10 bp):
TTATTTTTTT
Found at i:11601820 original size:10 final size:9
Alignment explanation
Indices: 11601805--11601855 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
11601795 ATATTTTATG
11601805 TTTTATTTCT
1 TTTTATTT-T
11601815 TTTTATTTT
1 TTTTATTTT
*
11601824 TCTT-TTTT
1 TTTTATTTT
*
11601832 TGTTATTTGT
1 TTTTATTT-T
11601842 TTTTATTTT
1 TTTTATTTT
11601851 ATTTT
1 -TTTT
11601856 TTAGACTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
8 7 0.20
9 8 0.23
10 20 0.57
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (9 bp):
TTTTATTTT
Found at i:11601855 original size:24 final size:23
Alignment explanation
Indices: 11601781--11601857 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 23
11601771 ATTATTTAGA
*
11601781 TTTTATTTAGTTTTATATTTTA-TG
1 TTTTATTT-GTTTT-TATTTTATTT
* *
11601805 TTTTATTTCTTTTTATTTTTCTTTTT
1 TTTTATTTGTTTTTA--TTT-TATTT
11601831 TTGTTATTTGTTTTTATTTTATTT
1 TT-TTATTTGTTTTTATTTTATTT
11601855 TTT
1 TTT
11601858 AGACTTATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
22 2 0.05
23 5 0.12
24 17 0.40
25 4 0.09
26 3 0.07
27 12 0.28
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (23 bp):
TTTTATTTGTTTTTATTTTATTT
Found at i:11604179 original size:21 final size:21
Alignment explanation
Indices: 11604132--11604181 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
11604122 GTTAAATCTA
*
11604132 ATCTTAGAAATATTCAATCGT
1 ATCTTGGAAATATTCAATCGT
11604153 ATCTTGGAAATATTCAATCGT
1 ATCTTGGAAATATTCAATCGT
11604174 ATCTTGGA
1 ATCTTGGA
11604182 CGGCCAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (21 bp):
ATCTTGGAAATATTCAATCGT
Found at i:11605323 original size:14 final size:14
Alignment explanation
Indices: 11605301--11605339 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
11605291 AGGAAATTCC
11605301 ATTAGATTAATTTA
1 ATTAGATTAATTTA
11605315 GATTA-ATTAATTTA
1 -ATTAGATTAATTTA
11605329 ATTAGATTAAT
1 ATTAGATTAAT
11605340 AAATATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (14 bp):
ATTAGATTAATTTA
Found at i:11605338 original size:9 final size:9
Alignment explanation
Indices: 11605301--11605339 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
11605291 AGGAAATTCC
11605301 ATTAGATTA
1 ATTAGATTA
11605310 ATTTAGATTA
1 A-TTAGATTA
11605320 ATTA-ATTTA
1 ATTAGA-TTA
11605329 ATTAGATTA
1 ATTAGATTA
11605338 AT
1 AT
11605340 AAATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.04
9 16 0.59
10 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (9 bp):
ATTAGATTA
Found at i:11609728 original size:3 final size:3
Alignment explanation
Indices: 11609720--11609779 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
11609710 AAGCATTTAA
*
11609720 AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11609768 AAT AAT AAT AAT
1 AAT AAT AAT AAT
11609780 GGACATGTGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11609965 original size:25 final size:24
Alignment explanation
Indices: 11609937--11609997 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 24
11609927 AAATGGGTAA
*
11609937 ATAATAATAATAATAATTTGAAAGT
1 ATAATAATAATAATAACTTG-AAGT
11609962 ATAA-AA-AA-AA-AACTTGAAGT
1 ATAATAATAATAATAACTTGAAGT
11609982 A-AATAATAAATAATAA
1 ATAATAAT-AATAATAA
11609998 AAATGATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 11
0.71 0.02 0.26
Matches are distributed among these distances:
19 2 0.07
20 7 0.23
21 5 0.17
22 4 0.13
23 4 0.13
24 4 0.13
25 4 0.13
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.28
Consensus pattern (24 bp):
ATAATAATAATAATAACTTGAAGT
Found at i:11610061 original size:42 final size:43
Alignment explanation
Indices: 11609984--11610064 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 43
11609974 CTTGAAGTAA
* *
11609984 ATAATAAATAATAAAAATGATATAATTAGACAAATATACATAT
1 ATAAAAAATAATAAAAATGAAATAATTAGACAAATATACATAT
* *
11610027 ATAAAAAATAA-ACAAATGAAATAAATTATA-AAATATAC
1 ATAAAAAATAATAAAAATGAAAT-AATTAGACAAATATAC
11610065 TAATTCATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 17 0.52
43 16 0.48
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (43 bp):
ATAAAAAATAATAAAAATGAAATAATTAGACAAATATACATAT
Found at i:11610945 original size:11 final size:13
Alignment explanation
Indices: 11610929--11610962 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
11610919 TACGCGTAAG
11610929 AAAGAAAAA-C-A
1 AAAGAAAAATCAA
11610940 AAAGAAAAATCAA
1 AAAGAAAAATCAA
11610953 AAAGAAAAAT
1 AAAGAAAAAT
11610963 AGATCTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 1 0.05
13 11 0.52
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAGAAAAATCAA
Found at i:11613892 original size:18 final size:18
Alignment explanation
Indices: 11613871--11613908 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11613861 AAATCAACTA
11613871 ATTTTT-TTATATATTTTT
1 ATTTTTATT-TATATTTTT
*
11613889 ATTTTTATTTTTATTTTT
1 ATTTTTATTTATATTTTT
11613907 AT
1 AT
11613909 ATAATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
ATTTTTATTTATATTTTT
Found at i:11613921 original size:6 final size:6
Alignment explanation
Indices: 11613882--11613908 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11613872 TTTTTTTATA
11613882 TATTTT TATTTT TATTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TATTTT TAT
11613909 ATAATATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:11629156 original size:21 final size:21
Alignment explanation
Indices: 11629130--11629174 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
11629120 ACTCAGTCAA
11629130 GAAATATTTCACTTAAAATTT
1 GAAATATTTCACTTAAAATTT
11629151 GAAATATTTCACTTAAAATTT
1 GAAATATTTCACTTAAAATTT
11629172 GAA
1 GAA
11629175 GGTCCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (21 bp):
GAAATATTTCACTTAAAATTT
Found at i:11629198 original size:16 final size:16
Alignment explanation
Indices: 11629179--11629215 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
11629169 TTTGAAGGTC
11629179 CAAAAAAAAAACAAAA
1 CAAAAAAAAAACAAAA
*
11629195 CAAAACAAAAACAAAA
1 CAAAAAAAAAACAAAA
11629211 -AAAAA
1 CAAAAA
11629216 GGAGAGGCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAACAAAA
Found at i:11629199 original size:11 final size:11
Alignment explanation
Indices: 11629179--11629215 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
11629169 TTTGAAGGTC
*
11629179 CAAAAAAAAAA
1 CAAAAACAAAA
11629190 C-AAAACAAAA
1 CAAAAACAAAA
11629200 CAAAAACAAAA
1 CAAAAACAAAA
11629211 -AAAAA
1 CAAAAA
11629216 GGAGAGGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAACAAAA
Found at i:11630475 original size:46 final size:44
Alignment explanation
Indices: 11630408--11630523 Score: 115
Period size: 46 Copynumber: 2.6 Consensus size: 44
11630398 ATTATACAGG
* * ** *
11630408 TCTTATTTCCCTGAGACTACAGTGGAACAGACCGAAGAATTTTAGT
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAG-ATAGTA-A
* * **
11630454 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGATAGTAA
* *
11630498 TCCTATCTCCCTGATATTACAGTGGA
1 TCTTATCTCCCTGAGATTACAGTGGA
11630524 GCGGATTAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
44 23 0.40
45 4 0.07
46 31 0.53
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGATAGTAA
Found at i:11630809 original size:131 final size:131
Alignment explanation
Indices: 11630454--11631315 Score: 717
Period size: 131 Copynumber: 6.6 Consensus size: 131
11630444 GAATTTTAGT
* * ** * * *
11630454 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-ATAGT-A-ATCCTATCTCCCTGATATT
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAAT-TTCAGATCTTATCTCCCTGAGATT
*
11630516 ACAGTGGAGCGGATTAAAACT-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGTC
65 ACAGTGGAGCGGATTAAAA-TGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTC
*
11630580 AGA
129 AGG
* * * * * * ** * *
11630583 TATTGTCTCCCTGATATTGCAGCGGAGCAGATTGAAG-ATAGT-A-ATCCTATCTCCCTGAGATT
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAAT-TTCAGATCTTATCTCCCTGAGATT
11630645 ACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTCA
65 ACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTCA
11630710 GG
130 GG
* *
11630712 TCTTATTTCCCTGATATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
11630777 CAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTCAG
66 CAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTCAG
11630842 G
131 G
*
11630843 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
* * * * * * * ** ** **
11630908 CAGCGGAGCAGATT-GAA-GCTAGTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAA
66 CAGTGGAGCGGATTAAAATG-AAG-GATCTTATCTCTCTGAAG-TTACAGCAGAGTAGA-T--CG
*
11630970 TG-AAGG
125 TGTCAGG
* * ** ** *
11630976 ATCTTATCTCCCTGAGATTACAGTGGAGCGGA-TTAA-AA-TGAAGGATCTTATCTCTCTGA-AG
1 -TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCA-GATCTTATCTCCCTGAGA-
*** ** * * * * * ** ** *
11631037 TTACAGCATAGTAGA-T--CATGTCAGG-TCTTCTTTCCCTG-AGATTACAGTGGAACAGACCGA
63 TTACAGTGGAGCGGATTAAAATG-AAGGATCTTATCTCTCTGAAG-TTACAGCAGAGTAGATC--
* *
11631097 AGAATTTCAGA
124 -G--TGTCAGG
* * ** * * *
11631108 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAGT-A-ATCCTATCTCCCTGAGATT
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAAT-TTCAGATCTTATCTCCCTGAGATT
* *
11631170 ACAGTAGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCA
65 ACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTCA
11631235 GG
130 GG
* * *
11631237 TCTTATTTCCCTGAGATTACAGTGGGACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
* *
11631302 CAGCGGAGCAGATT
66 CAGTGGAGCGGATT
11631316 GAAGCCAGTA
Statistics
Matches: 604, Mismatches: 96, Indels: 64
0.79 0.13 0.08
Matches are distributed among these distances:
128 1 0.00
129 212 0.35
130 12 0.02
131 276 0.46
132 37 0.06
133 9 0.01
134 55 0.09
135 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (131 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
CAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTCAG
G
Found at i:11631010 original size:219 final size:220
Alignment explanation
Indices: 11630404--11631217 Score: 921
Period size: 219 Copynumber: 3.7 Consensus size: 220
11630394 GTTCATTATA
* * *
11630404 CAGGTCTTATTTCCCTGAGACTACAGTGGAACAGACCGAAGAATTTTAGTTCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* *
11630469 ATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
* * ** ** * * * *
11630534 ACT-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-T--CGTGTCA-GATATTGTCTCCC
131 ACTGAAGGATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATG-AAGGATCTTATCTCTC
* * * * *
11630594 TGATA-TTGCAGCGGAGCAGATTGAAGAT
195 TGA-AGTTACAGCAGAGTAGATCG-TG-T
* * * * * ** ** *
11630622 -AGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGA-TTAA-AA-TGAAGGATCTTATCTCTCT
1 CAG--GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCA-GATCTTATCTCCCT
* * * * * * * * * *
11630683 GA-AGTTACAGCAGAGTAGATCG-TG-TCAG--GTCTTATTTCCCTGATATTACAGTGGAACAGA
63 GAGA-TTACAGCGGAGCAGATTGAAGCT-AGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGA
** * **
11630743 CCGAAGAATTTCA-GATCTTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAATGAAGGATCTT
126 -TTAA-AACTGAAGGATCTTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAATGAAGGATCTT
11630806 ATCTCTCTGAAGTTACAGCAGAGTAGATCGTGT
188 ATCTCTCTGAAGTTACAGCAGAGTAGATCGTGT
11630839 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
11630904 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
11630969 A-TGAAGGATCTTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTC
131 ACTGAAGGATCTTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTC
* *
11631032 TGAAGTTACAGCATAGTAGATCATGT
195 TGAAGTTACAGCAGAGTAGATCGTGT
*
11631058 CAGGTCTTCTTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
*
11631123 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTAGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
*
11631188 A-TGAAGGATCTTATCTCTCTGAAGTTACAG
131 ACTGAAGGATCTTATCTCCCTGAAGTTACAG
11631218 CAGAGTAGAT
Statistics
Matches: 502, Mismatches: 69, Indels: 49
0.81 0.11 0.08
Matches are distributed among these distances:
214 27 0.05
215 5 0.01
216 62 0.12
217 38 0.08
218 41 0.08
219 298 0.59
220 5 0.01
221 26 0.05
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (220 bp):
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
ACTGAAGGATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCT
GAAGTTACAGCAGAGTAGATCGTGT
Found at i:11631117 original size:175 final size:175
Alignment explanation
Indices: 11630578--11631315 Score: 831
Period size: 175 Copynumber: 4.2 Consensus size: 175
11630568 GTAGATCGTG
* * * * * * *
11630578 TCAGATATTGTCTCCCTGATATTGCAGCGGAGCAGATT-GAA-GATAGTAATCCTATCTCCCTGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATGA-AG-GATCTTATCTCCCTGA
* *
11630641 GATTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGT
64 GATTACAGTAGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCAT
*
11630706 GTCAGGTCTTATTTCCCTGATATTACAGTGGAACAGACCGAAGAATT
129 GTCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
* * *
11630753 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGA-A
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATGAAGGATCTTATCTCCCTGAGA
* ** ** * * *
11630817 GTTACAGCAGAGTAGA-T--CGTGTCAGG-TCTTATTTCCCTG-AGATTACAGTGGAACAGACCG
66 -TTACAGTAGAGCGGATTAAAATG-AAGGATCTTATCTCTCTGAAG-TTACA---G--CAGA--G
* * * * * * ** * *
11630877 AAGA--ATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAG
121 TAGATCATGTCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAAT-T
* * *
11630930 T-A-ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATGAAGGATCTTATCTCCCTGAGA
* *
11630993 TTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCATAGTAGATCATGT
66 TTACAGTAGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCATGT
*
11631058 CAGGTCTTCTTTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
131 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
* * * *
11631103 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAA-GCTAGTAATCCTATCTCCCTGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATG-AAG-GATCTTATCTCCCTGA
**
11631166 GATTACAGTAGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGC
64 GATTACAGTAGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCAT
* *
11631231 GTCAGGTCTTATTTCCCTGAGATTACAGTGGGACAGACCGAAAAATT
129 GTCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
11631278 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
11631316 GAAGCCAGTA
Statistics
Matches: 469, Mismatches: 68, Indels: 52
0.80 0.12 0.09
Matches are distributed among these distances:
171 6 0.01
172 18 0.04
173 45 0.10
174 8 0.02
175 314 0.67
176 8 0.02
177 46 0.10
178 18 0.04
179 6 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (175 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATGAAGGATCTTATCTCCCTGAGA
TTACAGTAGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCATGT
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
Found at i:11631203 original size:44 final size:44
Alignment explanation
Indices: 11630454--11631217 Score: 352
Period size: 44 Copynumber: 17.5 Consensus size: 44
11630444 GAATTTTAGT
* * *
11630454 TCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAA-GATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGA-AG-GA
* * *
11630498 TCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAACT-AAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAA-TGAAGGA
* * * ** *
11630542 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-T--CGTGTCA-GA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATG-AAGGA
* * * * * * *
11630583 TATTGTCTCCCTGATATTGCAGCGGAGCAGATT-GAA-GATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGA-AG-GA
* *
11630627 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGAAGGA
* ** * ** *
11630671 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-T--CGTGTCAGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATG-AAGGA
* * * ** **
11630712 TCTTATTTCCCTGATATTACAGTGGAACAGACCGAAGAATTTCA-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA-TGAAGGA
*
11630758 TCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGAAGGA
* ** * ** *
11630802 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-T--CGTGTCAGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATG-AAGGA
* * ** **
11630843 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCA-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA-TGAAGGA
* * * *
11630889 TCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAA-GCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATG-AAG-GA
* *
11630933 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGAAGGA
*
11630977 TCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGAAGGA
* *** * * *
11631021 TCTTATCTCTCTGA-AGTTACAGCATAGTAGA-T--CATGTCAGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATG-AAGGA
* * * ** **
11631062 TCTTCTTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCA-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA-TGAAGGA
* * * *
11631108 TCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAA-GCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATG-AAG-GA
* * *
11631152 TCCTATCTCCCTGAGATTACAGTAGAGCGGATTAAAATGAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGAAGGA
*
11631196 TCTTATCTCTCTGA-AGTTACAG
1 TCTTATCTCCCTGAGA-TTACAG
11631218 CAGAGTAGAT
Statistics
Matches: 531, Mismatches: 133, Indels: 112
0.68 0.17 0.14
Matches are distributed among these distances:
40 1 0.00
41 98 0.18
42 19 0.04
43 15 0.03
44 280 0.53
45 21 0.04
46 94 0.18
47 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGAAGGA
Found at i:11631303 original size:87 final size:86
Alignment explanation
Indices: 11631019--11631314 Score: 266
Period size: 87 Copynumber: 3.4 Consensus size: 86
11631009 TAAAATGAAG
* * * *
11631019 GATCTTATCTCTCTGAAGTTACAGCATAGTAGATC-ATGTCAGGTCTTCTTTCCCTGAGATTACA
1 GATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGA-GTCAGGTCTTATTTCCCTGAGATTACA
*
11631083 GTGGAACAGACCGAAGAATTTCA
65 GTGG-ACAGACCGAAAAATTTCA
* * * * *
11631106 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAG-CTAGTAATCCTATCTCCCTGAGAT
1 GATCTTATCTCCCTGAAG-TTACAGCAGAGCAGATCG-AGTC-AG--GTCTTATTTCCCTGAGAT
* * **
11631169 TACAGT--AGAG-CGGATTAAAA-TGAA
61 TACAGTGGACAGACCGA--AAAATTTCA
* * *
11631193 GGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGGTCTTATTTCCCTGAGATTACA
1 -GATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAGTCAGGTCTTATTTCCCTGAGATTACA
11631258 GTGGGACAGACCGAAAAATTTCA
65 GT-GGACAGACCGAAAAATTTCA
*
11631281 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGAT
1 GATCTTATCTCCCTGAAG-TTACAGCAGAGCAGAT
11631315 TGAAGCCAGT
Statistics
Matches: 163, Mismatches: 29, Indels: 34
0.72 0.13 0.15
Matches are distributed among these distances:
85 21 0.13
86 7 0.04
87 68 0.42
88 41 0.25
89 6 0.04
90 20 0.12
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (86 bp):
GATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGAGTCAGGTCTTATTTCCCTGAGATTACAG
TGGACAGACCGAAAAATTTCA
Found at i:11633240 original size:2 final size:2
Alignment explanation
Indices: 11633184--11633221 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
11633174 TTGTAAATAC
* *
11633184 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11633222 TTTAATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11640647 original size:16 final size:18
Alignment explanation
Indices: 11640614--11640651 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
11640604 TGCAATTTCG
11640614 ATTATAAAATAAATTTTA
1 ATTATAAAATAAATTTTA
* *
11640632 ATTA-AAAATATATTTAA
1 ATTATAAAATAAATTTTA
11640649 ATT
1 ATT
11640652 TGAATATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTATAAAATAAATTTTA
Found at i:11641251 original size:29 final size:28
Alignment explanation
Indices: 11641219--11641279 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
11641209 AAAAGCCATT
*
11641219 TTTTTTCAAAATTTACCGAAATGGGCCAA
1 TTTTTTCAAAATTTACCGAAATGGACC-A
* ** *
11641248 TTTTTTGATTATTTACCGGAATGGACCA
1 TTTTTTCAAAATTTACCGAAATGGACCA
11641276 TTTT
1 TTTT
11641280 CCGGGAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGACCA
Found at i:11641714 original size:122 final size:122
Alignment explanation
Indices: 11641497--11641720 Score: 396
Period size: 122 Copynumber: 1.8 Consensus size: 122
11641487 TTATTTCGAG
* *
11641497 TTGACGTTTCTGGTCAAATAGTATAAAATCGCTTCTATCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGGTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAAAAATTGTG
11641562 AAATCGCGCCCTCGTGGACGCGATATTGCTACAGTAGGTCATGTAAGAAATATTTTT
66 AAATCGCGCCCTCGTGGACGCGATATTGCTACAGTAGGTCATGTAAGAAATATTTTT
11641619 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAAAAATTGT
1 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAAAAATTGT
* *
11641683 GAAATCGCGCCCTTGTGGACGCGATTTTGCTACAGTAG
65 GAAATCGCGCCCTCGTGGACGCGATATTGCTACAGTAG
11641721 CAAGTTTGGG
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
122 96 0.99
123 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (122 bp):
TTGACGTTTCTGGTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAAAAATTGTG
AAATCGCGCCCTCGTGGACGCGATATTGCTACAGTAGGTCATGTAAGAAATATTTTT
Found at i:11643107 original size:10 final size:10
Alignment explanation
Indices: 11643092--11643118 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
11643082 TAAAATTATC
11643092 AAATTATGTA
1 AAATTATGTA
11643102 AAATTATGTA
1 AAATTATGTA
11643112 AAATTAT
1 AAATTAT
11643119 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:11643162 original size:56 final size:55
Alignment explanation
Indices: 11643102--11643228 Score: 170
Period size: 56 Copynumber: 2.3 Consensus size: 55
11643092 AAATTATGTA
11643102 AAATTATGTAAAATTATTAAG-CCAAAAAAAT-T-TTAATTAAATTAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCC-AAAAAATGTGTTAA-T-AATTA-GTAAAATTATC
* **
11643158 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATCGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAAATGTGTTAATAATTAGTAAAATTATC
11643213 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
11643229 GGTTAGGGTT
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
55 27 0.42
56 30 0.46
57 4 0.06
58 4 0.06
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAAATGTGTTAATAATTAGTAAAATTATC
Found at i:11643163 original size:18 final size:18
Alignment explanation
Indices: 11643140--11643174 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11643130 AATTTTAATT
11643140 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
*
11643158 AAATTATGTAAAATTAT
1 AAATTAGGTAAAATTAT
11643175 TAAGTCCAAA
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:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:11643267 original size:28 final size:28
Alignment explanation
Indices: 11643230--11643342 Score: 201
Period size: 28 Copynumber: 4.0 Consensus size: 28
11643220 GTAAAATTAG
*
11643230 GTTAGGGTTAGGGTTTTTATTTAAGTTA
1 GTTAGGGTTAGGGTTTTTAATTAAGTTA
11643258 GTTAGGGTTAGGG-TTTTAATTAAGTTA
1 GTTAGGGTTAGGGTTTTTAATTAAGTTA
11643285 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
1 -GTTAGGGTTAGGGTTTTTAATTAAGTTA
11643314 GTTAGGGTTAGGGTTTTTAATTAAGTTA
1 GTTAGGGTTAGGGTTTTTAATTAAGTTA
11643342 G
1 G
11643343 GGTTTTTAAT
Statistics
Matches: 82, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
27 13 0.16
28 55 0.67
29 14 0.17
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (28 bp):
GTTAGGGTTAGGGTTTTTAATTAAGTTA
Found at i:11643343 original size:18 final size:18
Alignment explanation
Indices: 11643320--11643555 Score: 152
Period size: 18 Copynumber: 14.7 Consensus size: 18
11643310 GTTAGTTAGG
11643320 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
11643338 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* * *
11643356 ATTA--G--ATT-AGT--
1 GTTAGGGTTTTTAATTAA
*
11643367 GTTAGGGTTTTAAATTAA
1 GTTAGGGTTTTTAATTAA
11643385 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
11643403 ATTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
11643414 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
11643432 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
11643450 GTTA-GG---TT-A-GGA
1 GTTAGGGTTTTTAATTAA
*
11643462 -TTAGGGTTTATAATTAA
1 GTTAGGGTTTTTAATTAA
11643479 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
11643497 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
11643508 GTTAGGG-TTTTAATTAA
1 GTTAGGGTTTTTAATTAA
11643525 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
11643543 ATTAGGGTTTTTA
1 GTTAGGGTTTTTA
11643556 TTACATCAAA
Statistics
Matches: 165, Mismatches: 25, Indels: 56
0.67 0.10 0.23
Matches are distributed among these distances:
11 13 0.08
12 7 0.04
13 6 0.04
14 10 0.06
15 5 0.03
16 5 0.03
17 14 0.08
18 105 0.64
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:11643389 original size:47 final size:47
Alignment explanation
Indices: 11643292--11643548 Score: 412
Period size: 47 Copynumber: 5.5 Consensus size: 47
11643282 TTAGGTTAGG
* *
11643292 GTTAGGGTTTTTAATTAAGTTA-GTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAA
* *
11643338 GTTAGGGTTTTTAATTAAATTAGATTAGTGTTAGGGTTTTAAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAA
*
11643385 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAA
* *
11643432 GTTAGGGTTTTTAATTAAGTTAGGTTAGGATTAGGG-TTTATAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTA-AATTAA
*
11643479 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTT-AATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAA
11643525 GTTAGGGTTTTTAATTAAATTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
11643549 GTTTTTATTA
Statistics
Matches: 196, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
46 53 0.27
47 140 0.71
48 3 0.02
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.46
Consensus pattern (47 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAA
Found at i:11643603 original size:25 final size:26
Alignment explanation
Indices: 11643551--11643614 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
11643541 AAATTAGGGT
11643551 TTTTATTACATCAAATAGAACTTCTA
1 TTTTATTACATCAAATAGAACTTCTA
* *
11643577 TTTTATTATATTAAATA-AACTTCTA
1 TTTTATTACATCAAATAGAACTTCTA
11643602 TTTTATTACATCA
1 TTTTATTACATCA
11643615 GATAATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTATTACATCAAATAGAACTTCTA
Found at i:11644049 original size:18 final size:18
Alignment explanation
Indices: 11644022--11644056 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11644012 CAGAAAAGGA
* *
11644022 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
11644040 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
11644057 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:11644701 original size:7 final size:7
Alignment explanation
Indices: 11644691--11644715 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11644681 TTATATACAT
11644691 AATACTA
1 AATACTA
11644698 AATACTA
1 AATACTA
11644705 AATACTA
1 AATACTA
11644712 AATA
1 AATA
11644716 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:11645697 original size:31 final size:32
Alignment explanation
Indices: 11645652--11645714 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
11645642 AGATAATTTT
11645652 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
11645684 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
11645715 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (32 bp):
AAAGAGTTTTTATTAGGATTCAATTACTCTTG
Found at i:11646066 original size:4 final size:4
Alignment explanation
Indices: 11646016--11646050 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
11646006 ATCTATCCTT
11646016 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
11646051 ACTAATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:11646301 original size:15 final size:16
Alignment explanation
Indices: 11646267--11646332 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 16
11646257 TTATTCTTTA
11646267 AAAAAACAAAAAAAGC
1 AAAAAACAAAAAAAGC
* *
11646283 AAAAAA-AAAAAGAGT
1 AAAAAACAAAAAAAGC
* **
11646298 AAAAAGCGCAAAAA-C
1 AAAAAACAAAAAAAGC
*
11646313 -AAAAGC-AAAAAAGC
1 AAAAAACAAAAAAAGC
11646327 AAAAAA
1 AAAAAA
11646333 GCGCAAAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
13 5 0.13
14 7 0.18
15 16 0.42
16 10 0.26
ACGTcount: A:0.77, C:0.11, G:0.11, T:0.02
Consensus pattern (16 bp):
AAAAAACAAAAAAAGC
Found at i:11646301 original size:22 final size:21
Alignment explanation
Indices: 11646266--11646332 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
11646256 CTTATTCTTT
11646266 AAAAAAA-CAAAAAAAGCAAAA
1 AAAAAAAGC-AAAAAAGCAAAA
*
11646287 AAAAAAAG-AGTAAAAAGCGCAAA
1 AAAAAAAGCA--AAAAAGC-AAAA
*
11646310 AACAAAAGCAAAAAAGCAAAA
1 AAAAAAAGCAAAAAAGCAAAA
11646331 AA
1 AA
11646333 GCGCAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
20 1 0.03
21 12 0.32
22 14 0.37
23 10 0.26
24 1 0.03
ACGTcount: A:0.78, C:0.10, G:0.10, T:0.01
Consensus pattern (21 bp):
AAAAAAAGCAAAAAAGCAAAA
Found at i:11646316 original size:30 final size:30
Alignment explanation
Indices: 11646276--11646346 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
11646266 AAAAAAACAA
11646276 AAAAAGCAAAA-AAAAAAAG-AGTAAAAAGCGC
1 AAAAA-CAAAAGAAAAAAAGCA--AAAAAGCGC
*
11646307 AAAAACAAAAGCAAAAAAGCAAAAAAGCGC
1 AAAAACAAAAGAAAAAAAGCAAAAAAGCGC
11646337 AAAAA-AAAAG
1 AAAAACAAAAG
11646347 TTGCCTACCT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 5 0.14
30 19 0.51
31 12 0.32
32 1 0.03
ACGTcount: A:0.73, C:0.11, G:0.14, T:0.01
Consensus pattern (30 bp):
AAAAACAAAAGAAAAAAAGCAAAAAAGCGC
Found at i:11650977 original size:31 final size:31
Alignment explanation
Indices: 11650941--11651036 Score: 158
Period size: 31 Copynumber: 3.1 Consensus size: 31
11650931 CTTAGATAAT
11650941 TTTAAAGAAG-TTTATTAGGATTCAATTACTC
1 TTTAAAG-AGTTTTATTAGGATTCAATTACTC
11650972 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
11651004 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
11651035 TT
1 TT
11651037 GTAATTTGCC
Statistics
Matches: 62, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
30 2 0.03
31 31 0.50
32 29 0.47
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:11651037 original size:31 final size:32
Alignment explanation
Indices: 11650951--11651037 Score: 158
Period size: 32 Copynumber: 2.8 Consensus size: 32
11650941 TTTAAAGAAG
*
11650951 TTTATTAGGATTCAATTACTCTTTAAAGAGTT
1 TTTATTAGGATTCAATTACTCTTGAAAGAGTT
11650983 TTTATTAGGATTCAATTACTCTTGAAAGAG-T
1 TTTATTAGGATTCAATTACTCTTGAAAGAGTT
11651014 TTTATTAGGATTCAATTACTCTTG
1 TTTATTAGGATTCAATTACTCTTG
11651038 TAATTTGCCT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 25 0.46
32 29 0.54
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (32 bp):
TTTATTAGGATTCAATTACTCTTGAAAGAGTT
Found at i:11651387 original size:29 final size:27
Alignment explanation
Indices: 11651338--11651396 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
11651328 AATCTATCCT
*
11651338 TTTTATTTATTTATTTATTATTTAACTAA
1 TTTTATTTATTTAGTTATTATTT--CTAA
*
11651367 TTTTATTTATTCTCGTT-TTATTTCTAA
1 TTTTATTTATT-TAGTTATTATTTCTAA
11651394 TTT
1 TTT
11651397 GTGTTTCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATTTATTTAGTTATTATTTCTAA
Found at i:11663048 original size:20 final size:20
Alignment explanation
Indices: 11663019--11663056 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
11663009 AAATATTTTA
11663019 TTTTTTTATTT-TTAAAATT
1 TTTTTTTATTTATTAAAATT
11663038 TTTTTTGTATTTATTAAAA
1 TTTTTT-TATTTATTAAAA
11663057 ATCAGGTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTTTTATTTATTAAAATT
Found at i:11670287 original size:113 final size:113
Alignment explanation
Indices: 11670089--11670317 Score: 413
Period size: 113 Copynumber: 2.0 Consensus size: 113
11670079 AGTAAAAGCA
* *
11670089 AAAGAGCAAGAGATGGATGCCAATCAAAATTGGCTTGGAGAAGTTGTATGATAGGGTGCATTGGG
1 AAAGAGCAAGAGATGGATGCCAATCAAAATTGGCTTGGAGAAGGTGTATGATAGAGTGCATTGGG
* *
11670154 AGTTTATTGAAGCTTTCCTACAGGTGACCAATATCTCAGAATTCCTTC
66 AGTTTATTGAAGCTTCCCTACAGGTGACCAATATCCCAGAATTCCTTC
*
11670202 AAAGAGCAAGAGATGGATGGCAATCAAAATTGGCTTGGAGAAGGTGTATGATAGAGTGCATTGGG
1 AAAGAGCAAGAGATGGATGCCAATCAAAATTGGCTTGGAGAAGGTGTATGATAGAGTGCATTGGG
11670267 AGTTTATTGAAGCTTCCCTACAGGTGACCAATATCCCAGAATTCCTTC
66 AGTTTATTGAAGCTTCCCTACAGGTGACCAATATCCCAGAATTCCTTC
11670315 AAA
1 AAA
11670318 ATGTTATTAT
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (113 bp):
AAAGAGCAAGAGATGGATGCCAATCAAAATTGGCTTGGAGAAGGTGTATGATAGAGTGCATTGGG
AGTTTATTGAAGCTTCCCTACAGGTGACCAATATCCCAGAATTCCTTC
Found at i:11674494 original size:31 final size:32
Alignment explanation
Indices: 11674433--11674493 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
11674423 TTCAAAATTT
* * *
11674433 TAATATTATTTAATATTTTTATTTCATTTTTG
1 TAATATTAATTAATATTTTTATATAATTTTTG
11674465 TAAT-TTAATTAATATTTTT-TATAATTTTT
1 TAATATTAATTAATATTTTTATATAATTTTT
11674494 TTATAACAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 8 0.31
31 14 0.54
32 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (32 bp):
TAATATTAATTAATATTTTTATATAATTTTTG
Found at i:11675826 original size:18 final size:18
Alignment explanation
Indices: 11675803--11675837 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11675793 GGGCAAGCCC
11675803 ATCAACAACGCCCACACA
1 ATCAACAACGCCCACACA
* *
11675821 ATCAACGATGCCCACAC
1 ATCAACAACGCCCACAC
11675838 CATAGAGCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.43, G:0.09, T:0.09
Consensus pattern (18 bp):
ATCAACAACGCCCACACA
Found at i:11676392 original size:59 final size:59
Alignment explanation
Indices: 11676300--11676466 Score: 255
Period size: 59 Copynumber: 2.8 Consensus size: 59
11676290 ATTGATTTAT
*
11676300 TTTTGAATATATTTGTACAAATTGTTTTTATATTGTTTCATTTAATAAAACAAAAGTTC
1 TTTTGAATATATTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAACAAAAGTTC
* * *
11676359 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATATTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAACAAAAGTTC
** *
11676418 TTTTGAATATGCTTGTACAAATTATTTTT-TCATTGTTTCATTTTATAAA
1 TTTTGAATATATTTGTACAAATTATTTTTAT-ATTGTTTCATTTAATAAA
11676467 TTAGGAGTTA
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
58 1 0.01
59 99 0.99
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.52
Consensus pattern (59 bp):
TTTTGAATATATTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAACAAAAGTTC
Found at i:11679978 original size:154 final size:156
Alignment explanation
Indices: 11679586--11680038 Score: 651
Period size: 156 Copynumber: 2.9 Consensus size: 156
11679576 GTCCAGCTAG
* *
11679586 GAGCTTTTTAAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAATTATCA
1 GAGCTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAACTATCA
* * *
11679651 GATTTCCTGTGAATCCCAGGATATTTTTTCAGAACTATCTTCTCAAAATTATTTTTTCAGAATCA
66 GATTTCCTGGGAATCCCGGGATATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAATCA
* *
11679716 ACAATACAAAAAGAGCGTCCAGTTGA
131 ACAATACAAAAAAAGCGTCAAGTTGA
* * * * *
11679742 GAGCTTTTTCAATACTTTTGTTGACTGTGCATCCTGCTTAAAGAGTTTTTCAACCCCAACTATCA
1 GAGCTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAACTATCA
** *
11679807 GATTTCCCAGGATTCCCGGGATATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAATCA
66 GATTTCCTGGGAATCCCGGGATATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAATCA
* *
11679872 ACAATACAAAAAAAG-TTCAAG-TGG
131 ACAATACAAAAAAAGCGTCAAGTTGA
* *
11679896 GAGGTTTTTCTGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAACTATCA
1 GAGCTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAACTATCA
* * * * * *
11679961 GATTTCTTGGGAATCCCGAGATATTTTTTCAAAATCATCTTTTAAAAATTA-TTTTTCAGAATCA
66 GATTTCCTGGGAATCCCGGGATATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAATCA
*
11680025 ACAGTACAAAAAAA
131 ACAATACAAAAAAA
11680039 AGTCCAACTG
Statistics
Matches: 263, Mismatches: 34, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
153 26 0.10
154 102 0.39
155 4 0.02
156 131 0.50
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (156 bp):
GAGCTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAACTATCA
GATTTCCTGGGAATCCCGGGATATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAATCA
ACAATACAAAAAAAGCGTCAAGTTGA
Found at i:11680074 original size:154 final size:154
Alignment explanation
Indices: 11679586--11680064 Score: 640
Period size: 154 Copynumber: 3.1 Consensus size: 154
11679576 GTCCAGCTAG
** *
11679586 GAGCTTTTTAAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAATTATCA
1 GAGCTTTTTCTGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAACTATCA
*
11679651 GATTTCCTGTGAATCCC-AGGATATTTTTTCAGAACTATCTTCTCAAAATTATTTTTTCAGAATC
66 GATTTCCTGGGAATCCCGA-GATATTTTTTCAGAAC-ATCTTCTCAAAATTATTTTTTCAGAATC
** **
11679715 AACAATACAAAAAGAGCGTCCAGTTGA
129 AACAATACAAAAA-AAAGTCCAACTGA
** * * * *
11679742 GAGCTTTTTCAATACTTTTGTTGACTGTGCATCCTGCTTAAAGAGTTTTTCAACCCCAACTATCA
1 GAGCTTTTTCTGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAACTATCA
** * *
11679807 GATTTCCCAGGATTCCCGGGATATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAATCA
66 GATTTCCTGGGAATCCCGAGATATTTTTTCAGAA-CATCTTCTCAAAATTATTTTTTCAGAATCA
* * *
11679872 ACAATAC-AAAAAAAGTTCAAGTGG
130 ACAATACAAAAAAAAGTCCAACTGA
*
11679896 GAGGTTTTTCTGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAACTATCA
1 GAGCTTTTTCTGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAACTATCA
* * * *
11679961 GATTTCTTGGGAATCCCGAGATATTTTTTCAAAATCATCTTTTAAAAATTA-TTTTTCAGAATCA
66 GATTTCCTGGGAATCCCGAGATATTTTTTCAGAA-CATCTTCTCAAAATTATTTTTTCAGAATCA
*
11680025 ACAGTACAAAAAAAAGTCCAACTGA
130 ACAATACAAAAAAAAGTCCAACTGA
*
11680050 AAGCTTTTTCTGTAC
1 GAGCTTTTTCTGTAC
11680065 AATTACTGAC
Statistics
Matches: 280, Mismatches: 40, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
153 19 0.07
154 134 0.48
155 4 0.01
156 122 0.44
157 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.35
Consensus pattern (154 bp):
GAGCTTTTTCTGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCAACCCCAACTATCA
GATTTCCTGGGAATCCCGAGATATTTTTTCAGAACATCTTCTCAAAATTATTTTTTCAGAATCAA
CAATACAAAAAAAAGTCCAACTGA
Found at i:11681844 original size:22 final size:22
Alignment explanation
Indices: 11681819--11681869 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
11681809 CTCATATTTC
11681819 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
11681841 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
11681863 CTCTCAA
1 CTCTCAA
11681870 ATCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:11683740 original size:18 final size:18
Alignment explanation
Indices: 11683713--11683752 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11683703 CATGTGCGTT
* *
11683713 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATATA
11683731 TCCTAACCCTTATATATA
1 TCCTAACCCTTATATATA
11683749 TCCT
1 TCCT
11683753 TTTTCGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.05, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATATA
Found at i:11684211 original size:25 final size:25
Alignment explanation
Indices: 11684177--11684296 Score: 128
Period size: 25 Copynumber: 5.0 Consensus size: 25
11684167 TGAGTATTTT
11684177 GAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
11684202 GAAGTTTATTTGATGTAATAAAAATA
1 GAAGTTTATTTGATGTAAT-AAAATA
* * ** *
11684228 GTA-TTTTTTTGA-GT--T-ATTTT
1 GAAGTTTATTTGATGTAATAAAATA
11684248 G-A-TATTATTTGATGTAATAAAATA
1 GAAGT-TTATTTGATGTAATAAAATA
11684272 GAAGTTTATTTGATGTAATAAAATA
1 GAAGTTTATTTGATGTAATAAAATA
11684297 AAATTTTTTG
Statistics
Matches: 78, Mismatches: 9, Indels: 16
0.76 0.09 0.16
Matches are distributed among these distances:
19 2 0.03
20 10 0.13
21 2 0.03
22 1 0.01
23 1 0.01
24 5 0.06
25 48 0.62
26 9 0.12
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (25 bp):
GAAGTTTATTTGATGTAATAAAATA
Found at i:11684256 original size:70 final size:69
Alignment explanation
Indices: 11684164--11684317 Score: 233
Period size: 70 Copynumber: 2.2 Consensus size: 69
11684154 TGTACAAATA
11684164 TTTTGAGTATTTTGAAGTTTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAAATAG
1 TTTTGAGTATTTTGAAG-TTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAAATAG
11684229 TATTT
65 TATTT
11684234 TTTTGAGTTATTTTGATA-TTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAAT-AAAATA
1 TTTTGAG-TATTTTGA-AGTTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAAATA
* *
11684297 -AAATT
64 GTATTT
*
11684302 TTTTGAATATTTTGAA
1 TTTTGAGTATTTTGAA
11684318 TATTTTGATA
Statistics
Matches: 79, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
66 1 0.01
67 8 0.10
68 9 0.11
69 6 0.08
70 46 0.58
71 8 0.10
72 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (69 bp):
TTTTGAGTATTTTGAAGTTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAAATAGT
ATTT
Found at i:11684776 original size:23 final size:23
Alignment explanation
Indices: 11684365--11684979 Score: 780
Period size: 23 Copynumber: 25.6 Consensus size: 23
11684355 AAATTGAAAA
11684365 GAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
11684388 GAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
* **
11684411 AAAAACCCTAACCTAATTAAAAA
1 GAAAACCCTAACCTAATTAAATT
*
11684434 GAAAACTCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
11684457 GAAAAGAAAACCCTAACCTAATTAAATT
1 -----GAAAACCCTAACCTAATTAAATT
11684485 GAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
11684508 GAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
*
11684531 GAAAACTCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
11684554 GAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
11684577 GAAAAGAAAACCCTAACCTAATTAAATT
1 -----GAAAACCCTAACCTAATTAAATT
11684605 GAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
11684628 GAAAAGAAAACCCTAACCTAATTAAATT
1 -----GAAAACCCTAACCTAATTAAATT
11684656 GAAAAACCCTAACCTAATTAAATT
1 G-AAAACCCTAACCTAATTAAATT
*
11684680 AAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
**
11684703 GAAAAGAAAACTATAACCTAATTAAATT
1 -----GAAAACCCTAACCTAATTAAATT
11684731 GAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
11684754 GAAAAGAAAACCCTAACCTAATTAAATT
1 -----GAAAACCCTAACCTAATTAAATT
*
11684782 GAAAAACACTAACCTAATTAAATT
1 G-AAAACCCTAACCTAATTAAATT
* * **
11684806 AAAAACCCCAACCTAATTAAACC
1 GAAAACCCTAACCTAATTAAATT
** *
11684829 CTAAACTCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
*
11684852 GAAAACACTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
11684875 GAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
* **
11684898 AAAAACCCTAACCTAATTAAACC
1 GAAAACCCTAACCTAATTAAATT
**
11684921 CTAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
11684944 GAAAACCCTAACCTAATTAAATT
1 GAAAACCCTAACCTAATTAAATT
*
11684967 GAAAAACCTAACC
1 GAAAACCCTAACC
11684980 CTAAACCCTT
Statistics
Matches: 523, Mismatches: 42, Indels: 54
0.84 0.07 0.09
Matches are distributed among these distances:
23 369 0.71
24 43 0.08
28 111 0.21
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.24
Consensus pattern (23 bp):
GAAAACCCTAACCTAATTAAATT
Found at i:11685004 original size:16 final size:17
Alignment explanation
Indices: 11684976--11685007 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11684966 TGAAAAACCT
11684976 AACCCTAAACCCTTAAA
1 AACCCTAAACCCTTAAA
11684993 AACCCT-AACCCTTAA
1 AACCCTAAACCCTTAA
11685008 TATTCACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (17 bp):
AACCCTAAACCCTTAAA
Found at i:11685188 original size:115 final size:115
Alignment explanation
Indices: 11685009--11685224 Score: 364
Period size: 115 Copynumber: 1.9 Consensus size: 115
11684999 AACCCTTAAT
*
11685009 ATTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAATTAATAATTTTATATA
1 ATTCACATAATGTTAGATTTGGAAAAATG-TTTTTCCTGGTACTAACAAATAATAATTTTATATA
*
11685074 ATTTGATAA-TTTTACTAACAATTAATACAATTTATCGGATAATAATTTTAC
65 AATTGA-AATTTTTACTAACAATTAATACAATTTATCGGATAATAATTTTAC
11685125 ATTCACATAATGTTAGATTTGGAAAAATG-TTTTCACTGGTACTAACAAATAATAATTTTATATA
1 ATTCACATAATGTTAGATTTGGAAAAATGTTTTTC-CTGGTACTAACAAATAATAATTTTATATA
*
11685189 AATTGAAATTTTTACTAACCATTAATACAATTTATC
65 AATTGAAATTTTTACTAACAATTAATACAATTTATC
11685225 AATTCATAAT
Statistics
Matches: 95, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
114 7 0.07
115 59 0.62
116 29 0.31
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (115 bp):
ATTCACATAATGTTAGATTTGGAAAAATGTTTTTCCTGGTACTAACAAATAATAATTTTATATAA
ATTGAAATTTTTACTAACAATTAATACAATTTATCGGATAATAATTTTAC
Found at i:11688492 original size:125 final size:125
Alignment explanation
Indices: 11688269--11688634 Score: 581
Period size: 124 Copynumber: 2.9 Consensus size: 125
11688259 CCCAAACATG
*
11688269 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTTCACAAATTCTTCTCAAATAGCATCTTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTT-ACAAATTCTTCTCAAATAGCATCTTG
* *
11688334 CTAGAAGCAATTTTCTACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCATCCATGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCATCCATGAC
* * * *
11688395 CTACTGTAGCAAAAGCGCGACCACGAGGGCGTGATTTTACAAATTATTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCTTGC
11688460 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCATCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCATCCATGAC
* * *
11688519 CTACTGTAGCAAAAACGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCTTGC
** ***
11688584 TAGAAGCGATTTTATACTATTTGAGCAGAAACGTCAACTCAAAATTATTTC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTC
11688635 TTCCCGGACC
Statistics
Matches: 220, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
124 115 0.52
125 70 0.32
126 35 0.16
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.28
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCTTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCATCCATGAC
Found at i:11689241 original size:22 final size:22
Alignment explanation
Indices: 11689216--11689287 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
11689206 GAACTAAACC
11689216 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
11689238 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
** *
11689260 CTCATGTTTCACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
11689282 CTCATG
1 CTCATG
11689288 TTTTTTTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (22 bp):
CTCATGGCTAACGTACTAAGCT
Found at i:11692243 original size:40 final size:40
Alignment explanation
Indices: 11692188--11692269 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
11692178 GTCATTGAAC
11692188 GAGCACTTAATAAATAGCTTTCATAATGGTATATAATAAG
1 GAGCACTTAATAAATAGCTTTCATAATGGTATATAATAAG
11692228 GAGCACTTAATAAATAGCTTTCATAATGGTATATAATAAG
1 GAGCACTTAATAAATAGCTTTCATAATGGTATATAATAAG
11692268 GA
1 GA
11692270 TTTTATGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.32
Consensus pattern (40 bp):
GAGCACTTAATAAATAGCTTTCATAATGGTATATAATAAG
Found at i:11694616 original size:22 final size:20
Alignment explanation
Indices: 11694588--11694645 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
11694578 TAAAATTTAG
11694588 GATAATTATAATTTAATAAA
1 GATAATTATAATTTAATAAA
*
11694608 GTGATAATTACATATTT-A-AAA
1 --GATAATTATA-ATTTAATAAA
11694629 -ATAATTATAATTTAATA
1 GATAATTATAATTTAATA
11694646 TACAAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 4 0.13
18 9 0.29
19 1 0.03
21 3 0.10
22 10 0.32
23 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (20 bp):
GATAATTATAATTTAATAAA
Found at i:11694690 original size:20 final size:20
Alignment explanation
Indices: 11694665--11694705 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11694655 TAACTAAAAA
*
11694665 TTTTAATATAAAAATATATT
1 TTTTAATATAAAAATAAATT
* *
11694685 TTTTAATTTTAAAATAAATT
1 TTTTAATATAAAAATAAATT
11694705 T
1 T
11694706 ATTACTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAATATAAAAATAAATT
Found at i:11694834 original size:14 final size:15
Alignment explanation
Indices: 11694815--11694852 Score: 62
Period size: 13 Copynumber: 2.7 Consensus size: 15
11694805 GACCTTATTA
11694815 TAAAAAAATTGAT-G
1 TAAAAAAATTGATAG
11694829 T-AAAAAATTGATAG
1 TAAAAAAATTGATAG
11694843 TAAAAAAATT
1 TAAAAAAATT
11694853 CAGCTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (15 bp):
TAAAAAAATTGATAG
Found at i:11697610 original size:9 final size:9
Alignment explanation
Indices: 11697593--11697623 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11697583 TCGAGTTGAT
11697593 TCGAATAAC
1 TCGAATAAC
*
11697602 TCGATTAAC
1 TCGAATAAC
11697611 TCGAATAAC
1 TCGAATAAC
11697620 TCGA
1 TCGA
11697624 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:11697966 original size:21 final size:20
Alignment explanation
Indices: 11697937--11697975 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
11697927 AACTACAATA
11697937 TATTATTATTTTTCACTTAG
1 TATTATTATTTTTCACTTAG
*
11697957 TATTAATTATTTTTTACTT
1 TATT-ATTATTTTTCACTT
11697976 GGCATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (20 bp):
TATTATTATTTTTCACTTAG
Found at i:11699022 original size:43 final size:43
Alignment explanation
Indices: 11698961--11699182 Score: 354
Period size: 43 Copynumber: 5.2 Consensus size: 43
11698951 TGATGTTAAT
*
11698961 GCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCGCAAAC
1 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGCAAAC
* *
11699004 GCCGCTAAAGGCCATGTTCTTTAGCGGCGTTTTTTCCGCAAAC
1 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGCAAAC
* * *
11699047 GCCGCTAAAGGCCAAGTTCTTTAGCGGCGCTTTTCCTGAAAAC
1 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGCAAAC
*
11699090 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGCAAAC
* * *
11699133 GCCGTTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGCAAAC
11699176 GCCGCTA
1 GCCGCTA
11699183 TTGTTTGGTG
Statistics
Matches: 164, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 164 1.00
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGCAAAC
Found at i:11699739 original size:25 final size:26
Alignment explanation
Indices: 11699688--11699749 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
11699678 TTTTACAATG
* *
11699688 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
11699714 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
11699739 ATTAAGTTATG
1 ATTAAGTTATG
11699750 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:11699753 original size:17 final size:17
Alignment explanation
Indices: 11699688--11699759 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
11699678 TTTTACAATG
* *
11699688 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
11699705 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
11699722 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
11699739 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
11699756 ATTA
1 ATTA
11699760 TGTGAGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.70
18 8 0.19
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:11699874 original size:17 final size:17
Alignment explanation
Indices: 11699852--11699911 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
11699842 ATATATTTTA
11699852 AAATTATTAAGTTATGT
1 AAATTATTAAGTTATGT
** *
11699869 AAATTATGCGAGTTGT-T
1 AAATTAT-TAAGTTATGT
*
11699886 AAGTTATTAAGTTATGT
1 AAATTATTAAGTTATGT
*
11699903 AAGTTATTA
1 AAATTATTA
11699912 TGTGAATTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 5 0.15
17 24 0.71
18 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.45
Consensus pattern (17 bp):
AAATTATTAAGTTATGT
Found at i:11699897 original size:34 final size:36
Alignment explanation
Indices: 11699855--11700037 Score: 115
Period size: 38 Copynumber: 5.3 Consensus size: 36
11699845 TATTTTAAAA
* *
11699855 TTATTAAGTTATGTAA-ATTATGCGAGTTGT-TAAG
1 TTATTAAGTTATGTAATATTATGCGAATTATATAAG
*
11699889 TTATTAAGTTATGTAAGTTATTATGTGAATTATATAAG
1 TTATTAAGTTATGTAA--TATTATGCGAATTATATAAG
**
11699927 TTATTAAGTTA--T-ATGGTAT--GACA-TATAT-A-
1 TTATTAAGTTATGTAATATTATGCGA-ATTATATAAG
* * *
11699956 TATATGT-A-TTATGTAA-ATTATGTGAGTTGT-TAAG
1 T-TAT-TAAGTTATGTAATATTATGCGAATTATATAAG
* *
11699990 TTGTTAAGTTATGTAAGTTATTATGTGAATTATATAAG
1 TTATTAAGTTATGTAA--TATTATGCGAATTATATAAG
11700028 TTATTAAGTT
1 TTATTAAGTT
11700038 GGACATTTTT
Statistics
Matches: 115, Mismatches: 13, Indels: 38
0.69 0.08 0.23
Matches are distributed among these distances:
29 4 0.03
30 5 0.04
31 12 0.10
32 4 0.03
33 12 0.10
34 25 0.22
35 1 0.01
36 1 0.01
37 23 0.20
38 28 0.24
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (36 bp):
TTATTAAGTTATGTAATATTATGCGAATTATATAAG
Found at i:11699934 original size:46 final size:46
Alignment explanation
Indices: 11699879--11700037 Score: 149
Period size: 46 Copynumber: 3.3 Consensus size: 46
11699869 AAATTATGCG
*
11699879 AGTTGTTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
* * * * *
11699925 AGTTATTAAGTTATATGGTATGACATATATATATA-TGTATTATGTAAATTATGTG
1 AGTTATTAAG-T-TAT--TA--A-GT-TATGTA-AGT-TATTATGTGAATTATATA
* *
11699980 AGTTGTTAAGTTGTTAAGTTATGTAAGTTATTATGTGAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
11700026 AGTTATTAAGTT
1 AGTTATTAAGTT
11700038 GGACATTTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
46 36 0.41
47 7 0.08
48 4 0.05
49 1 0.01
50 2 0.02
51 2 0.02
52 1 0.01
53 3 0.03
54 7 0.08
55 25 0.28
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.47
Consensus pattern (46 bp):
AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
Found at i:11699938 original size:8 final size:8
Alignment explanation
Indices: 11699855--11699911 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 8
11699845 TATTTTAAAA
11699855 TTATTAAG
1 TTATTAAG
*
11699863 TTATGTAAA
1 TTAT-TAAG
**
11699872 TTATGCGAG
1 TTAT-TAAG
*
11699881 TTGTTAAG
1 TTATTAAG
11699889 TTATTAAG
1 TTATTAAG
11699897 TTATGTAAG
1 TTAT-TAAG
11699906 TTATTA
1 TTATTA
11699912 TGTGAATTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 19 0.49
9 20 0.51
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (8 bp):
TTATTAAG
Found at i:11699940 original size:17 final size:17
Alignment explanation
Indices: 11699885--11699940 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
11699875 TGCGAGTTGT
*
11699885 TAAGTTATTAAGTTATG
1 TAAGTTATTAAGTTATA
*
11699902 TAAGTTATTATGTGAATTATA
1 TAAGTTATTA----AGTTATA
11699923 TAAGTTATTAAGTTATA
1 TAAGTTATTAAGTTATA
11699940 T
1 T
11699941 GGTATGACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 17 0.53
21 15 0.47
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (17 bp):
TAAGTTATTAAGTTATA
Found at i:11700675 original size:21 final size:21
Alignment explanation
Indices: 11700651--11700697 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
11700641 TTAACTATTT
* *
11700651 AAATTAGTTAATGATATTGTA
1 AAATTAGATAATGAAATTGTA
* *
11700672 AAATTAGATGATTAAATTGTA
1 AAATTAGATAATGAAATTGTA
11700693 AAATT
1 AAATT
11700698 TCAAATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (21 bp):
AAATTAGATAATGAAATTGTA
Found at i:11702435 original size:31 final size:31
Alignment explanation
Indices: 11702392--11702451 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
11702382 ACAGCAGCCC
*
11702392 CAATTTATTGGCTAAGCCTAACAATGCCTAA
1 CAATGTATTGGCTAAGCCTAACAATGCCTAA
11702423 CAATGTATTGGCTAAGCCTAACAATGCCT
1 CAATGTATTGGCTAAGCCTAACAATGCCT
11702452 CCGCATCGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (31 bp):
CAATGTATTGGCTAAGCCTAACAATGCCTAA
Found at i:11703626 original size:14 final size:15
Alignment explanation
Indices: 11703607--11703648 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
11703597 TTTACTCTGC
11703607 TAAATTT-TTTTTTA
1 TAAATTTATTTTTTA
11703621 TAAATTTATTTTTTTTA
1 TAAATTTA--TTTTTTA
*
11703638 TAAATTGATTT
1 TAAATTTATTT
11703649 ATTTTTTGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 7 0.29
15 3 0.12
17 14 0.58
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TAAATTTATTTTTTA
Found at i:11703632 original size:17 final size:17
Alignment explanation
Indices: 11703612--11703654 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
11703602 TCTGCTAAAT
*
11703612 TTTTTTTTATAAATTTA
1 TTTTTTTTATAAATTGA
11703629 TTTTTTTTATAAATTGA
1 TTTTTTTTATAAATTGA
11703646 TTTATTTTT
1 TTT-TTTTT
11703655 TGCGGCGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTTTTTTATAAATTGA
Found at i:11703898 original size:22 final size:23
Alignment explanation
Indices: 11703863--11703918 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
11703853 CCCTAACTCG
* *
11703863 ACCCCTGAATCCCTAA-CGTTTA
1 ACCCCTAAACCCCTAACCGTTTA
* *
11703885 ATCCCTAAACCCCTAACCTTTTA
1 ACCCCTAAACCCCTAACCGTTTA
11703908 ACCCCTAAACC
1 ACCCCTAAACC
11703919 TTAAATCCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.30, C:0.41, G:0.04, T:0.25
Consensus pattern (23 bp):
ACCCCTAAACCCCTAACCGTTTA
Found at i:11703962 original size:15 final size:15
Alignment explanation
Indices: 11703938--11703968 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11703928 AACCCCTAAT
11703938 CCATAATCCCTAAAC
1 CCATAATCCCTAAAC
*
11703953 CCATACTCCCTAAAC
1 CCATAATCCCTAAAC
11703968 C
1 C
11703969 TTAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAATCCCTAAAC
Found at i:11704416 original size:114 final size:114
Alignment explanation
Indices: 11704216--11704545 Score: 529
Period size: 114 Copynumber: 2.9 Consensus size: 114
11704206 TAAAATATTT
* *
11704216 TTAGCGGCGCTTT-TCCAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGC
1 TTAGCGGCGCTTTCTTC-AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
11704280 TTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
65 TTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
*
11704330 TTAGCGGCGCTTTCTTCAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCT
1 TTAGCGGCGCTTTCTTCAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
*
11704395 TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCTTGAGCA
66 TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
* * * * * *
11704444 TTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCGAAAGCTCGGGAAACGACGTCGTTGGGAT
1 TTAGCGGCGCTTTCTTCAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
* *
11704509 TA-GTTTTTTTGCGGCGCTTTCTCAAAAACGCCACTAA
66 TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
11704546 TGCTTATTTT
Statistics
Matches: 202, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
113 33 0.16
114 167 0.83
115 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (114 bp):
TTAGCGGCGCTTTCTTCAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
Found at i:11704839 original size:21 final size:20
Alignment explanation
Indices: 11704811--11704849 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
11704801 TCCAATAATA
11704811 TATTATTATTTTTCACTTAG
1 TATTATTATTTTTCACTTAG
*
11704831 TATTAATTATTTTTTACTT
1 TATT-ATTATTTTTCACTT
11704850 TGCATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (20 bp):
TATTATTATTTTTCACTTAG
Found at i:11705309 original size:37 final size:35
Alignment explanation
Indices: 11705268--11705357 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 35
11705258 ATTTAAATTG
**
11705268 TTAAATATATTAATATATATTAATTATATT-TAATAAT
1 TTAAATATATTAA-AT-TAAAAATTA-ATTATAATAAT
11705305 TTAAATA-A-TAAATTAAAAATTAATTATAATAAT
1 TTAAATATATTAAATTAAAAATTAATTATAATAAT
* *
11705338 TAAAATATATT-ATTTAAAAA
1 TTAAATATATTAAATTAAAAA
11705358 ATAAACATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
32 3 0.07
33 20 0.43
34 11 0.24
35 4 0.09
36 1 0.02
37 7 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (35 bp):
TTAAATATATTAAATTAAAAATTAATTATAATAAT
Found at i:11706214 original size:4 final size:4
Alignment explanation
Indices: 11706205--11706229 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11706195 TATTTAGAAA
11706205 TATC TATC TATC TATC TATC TATC T
1 TATC TATC TATC TATC TATC TATC T
11706230 CTGCACTACT
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:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:11708482 original size:19 final size:19
Alignment explanation
Indices: 11708460--11708511 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
11708450 AAACAAAATA
*
11708460 GAAAATTTTGGGAAAACTT
1 GAAAATTTTGGAAAAACTT
*
11708479 GAAAATTTTGGAAAAATTT
1 GAAAATTTTGGAAAAACTT
11708498 GAAAATTTTGGAAA
1 GAAAATTTTGGAAA
11708512 CAAGGGTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.46, C:0.02, G:0.19, T:0.33
Consensus pattern (19 bp):
GAAAATTTTGGAAAAACTT
Found at i:11708498 original size:10 final size:10
Alignment explanation
Indices: 11708460--11708511 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
11708450 AAACAAAATA
11708460 GAAAATTTTGG
1 GAAAATTTT-G
*
11708471 GAAAA-CTT-
1 GAAAATTTTG
11708479 GAAAATTTTG
1 GAAAATTTTG
*
11708489 GAAAAATTT-
1 GAAAATTTTG
11708498 GAAAATTTTG
1 GAAAATTTTG
11708508 GAAA
1 GAAA
11708512 CAAGGGTCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
8 5 0.15
9 10 0.29
10 14 0.41
11 5 0.15
ACGTcount: A:0.46, C:0.02, G:0.19, T:0.33
Consensus pattern (10 bp):
GAAAATTTTG
Found at i:11714598 original size:15 final size:15
Alignment explanation
Indices: 11714551--11714599 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 15
11714541 TATGATTCTT
*
11714551 TTATTTTAA-TGTTA
1 TTATTTTAATTTTTA
11714565 TTATTTTAACCTTTATTA
1 TTATTTTAA--TTT-TTA
11714583 TTATTTTAATTTTTA
1 TTATTTTAATTTTTA
11714598 TT
1 TT
11714600 TAATATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 9 0.30
15 5 0.17
16 3 0.10
17 1 0.03
18 12 0.40
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (15 bp):
TTATTTTAATTTTTA
Found at i:11718551 original size:25 final size:24
Alignment explanation
Indices: 11718516--11718653 Score: 114
Period size: 25 Copynumber: 5.6 Consensus size: 24
11718506 CACACCATAT
* *
11718516 CTCTTATGAGCATCTCGATATTTGG
1 CTCTCATGAGCTTCTCGATATTT-G
* * *
11718541 CTCTCACGAGCTTCCCGTTATTTAG
1 CTCTCATGAGCTTCTCGATATTT-G
* *
11718566 CTCTCATGAGCTTCCCGATTAATTG
1 CTCTCATGAGCTTCTCGA-TATTTG
** * *
11718591 CTCTTTTGAGCTTCTCGTTATATGG
1 CTCTCATGAGCTTCTCGATAT-TTG
* * *
11718616 CTCTCACGAGCTTCTCGGTATATG
1 CTCTCATGAGCTTCTCGATATTTG
11718640 CTCTCATGAGCTTC
1 CTCTCATGAGCTTC
11718654 CTATTTATGG
Statistics
Matches: 89, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
24 16 0.18
25 69 0.78
26 4 0.04
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.38
Consensus pattern (24 bp):
CTCTCATGAGCTTCTCGATATTTG
Found at i:11718666 original size:24 final size:24
Alignment explanation
Indices: 11718538--11718678 Score: 76
Period size: 25 Copynumber: 5.8 Consensus size: 24
11718528 TCTCGATATT
*
11718538 TGGCTCTCACGAGCTTCCCGTTATTTA
1 TGGCTCTCATGAGCTT-CC--TATTTA
* *
11718565 --GCTCTCATGAGCTTCCCGATTAA
1 TGGCTCTCATGAGCTT-CCTATTTA
* ** *
11718588 TTGCTCTTTTGAGCTTCTCGT-TATA
1 TGGCTCTCATGAGCTTC-C-TATTTA
* ** *
11718613 TGGCTCTCACGAGCTTCTCGGTATA
1 TGGCTCTCATGAGCTTC-CTATTTA
11718638 T-GCTCTCATGAGCTTCCTATTTA
1 TGGCTCTCATGAGCTTCCTATTTA
11718661 TGGCTCGT-ATGAGCTTCC
1 TGGCTC-TCATGAGCTTCC
11718679 CAATAATTGG
Statistics
Matches: 90, Mismatches: 17, Indels: 17
0.73 0.14 0.14
Matches are distributed among these distances:
23 9 0.10
24 29 0.32
25 52 0.58
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.38
Consensus pattern (24 bp):
TGGCTCTCATGAGCTTCCTATTTA
Found at i:11718749 original size:25 final size:25
Alignment explanation
Indices: 11718694--11718753 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
11718684 ATTGGCTAGC
* *
11718694 AAGAGCTTCCTGTTATATAGCTCAT
1 AAGAGCTTCCTGTTACATAGCTCAG
* *
11718719 ATGAGCTTCCTGTTACATAGCTCGG
1 AAGAGCTTCCTGTTACATAGCTCAG
11718744 AAGAGCTTCC
1 AAGAGCTTCC
11718754 CAATTACATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (25 bp):
AAGAGCTTCCTGTTACATAGCTCAG
Found at i:11720963 original size:21 final size:22
Alignment explanation
Indices: 11720938--11720980 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11720928 AAAATGCAAA
*
11720938 CAAATCTA-AAAACAATCTTAT
1 CAAATCAACAAAACAATCTTAT
11720959 CAAATCAACAAAACAATCTTAT
1 CAAATCAACAAAACAATCTTAT
11720981 TAATAGCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (22 bp):
CAAATCAACAAAACAATCTTAT
Found at i:11737889 original size:22 final size:23
Alignment explanation
Indices: 11737849--11737949 Score: 70
Period size: 22 Copynumber: 4.6 Consensus size: 23
11737839 GTGTATTCTA
*
11737849 ATTTGGCATTTAT-GTCATTTTG
1 ATTTGGCCTTTATAGTCATTTTG
*
11737871 ATTTGGCCTTTATAG-CATTCTG
1 ATTTGGCCTTTATAGTCATTTTG
* * *
11737893 -TTATGGCTTTTGT-GGCATTTT-
1 ATT-TGGCCTTTATAGTCATTTTG
* * *
11737914 A-TTAGCCTTTGTAGTCTAATTTG
1 ATTTGGCCTTTATAGTC-ATTTTG
11737937 ATTTGGCCTTTAT
1 ATTTGGCCTTTAT
11737950 GACATATTCT
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
20 8 0.13
21 6 0.10
22 35 0.58
23 2 0.03
24 9 0.15
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.51
Consensus pattern (23 bp):
ATTTGGCCTTTATAGTCATTTTG
Found at i:11740253 original size:64 final size:64
Alignment explanation
Indices: 11740164--11740546 Score: 291
Period size: 64 Copynumber: 5.9 Consensus size: 64
11740154 GATTGTAGCT
* * * *
11740164 GATTTAAGATCACAACTGATATTATTA-AGGTTAGCTAATTTAAGATCGCAAC-CTAAGTTCACT
1 GATTTAAGATCAGAAC-AATTTTATTAGA-GTTAGCTGATTTAAGATCGCAACTCTAAGTTCACT
11740227 C
64 C
* * * *
11740228 AATTTAAGATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTTCGAACAGTT-T
1 GATTTAAGATCA-GAACAATTTTATTAGAGTTAGCTGATTTAAGATCGCAAC-TC-TA-AGTTCA
* *
11740292 GTT
62 CTC
* * * *
11740295 GATTTAAGATCAAAACTAATATTATTA-AGGTTAGTTGATTTAAGATCGCAAC-CTAAGTTCATT
1 GATTTAAGATCAGAAC-AATTTTATTAGA-GTTAGCTGATTTAAGATCGCAACTCTAAGTTCACT
11740358 C
64 C
* * * * **
11740359 GATTTAAGATCATGAACAATTTTGTTTGAGTTAGC-GAATTTAAAATTGCAACTCTGAACAACTC
1 GATTTAAGATCA-GAACAATTTTATTAGAGTTAGCTG-ATTTAAGATCGCAACTCT--A-AGTTC
11740423 ACT-
61 ACTC
* * * * *
11740426 AATTTAAGACCACAACCAATATTT-TTA-AGTTTAGTTGATTTAAGATCGCAAC-CTAAGTTCAT
1 GATTTAAGATCAGAA-CAAT-TTTATTAGAG-TTAGCTGATTTAAGATCGCAACTCTAAGTTCAC
11740488 TC
63 TC
* * *
11740490 GATTTAAGATCAGGAACAATTTTATTTGAGTTAGATGATTTAAGATCACAACTCTAA
1 GATTTAAGATCA-GAACAATTTTATTAGAGTTAGCTGATTTAAGATCGCAACTCTAA
11740547 ACAACTTCTG
Statistics
Matches: 249, Mismatches: 45, Indels: 49
0.73 0.13 0.14
Matches are distributed among these distances:
63 13 0.05
64 116 0.47
65 19 0.08
66 11 0.04
67 77 0.31
68 13 0.05
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (64 bp):
GATTTAAGATCAGAACAATTTTATTAGAGTTAGCTGATTTAAGATCGCAACTCTAAGTTCACTC
Found at i:11740328 original size:67 final size:64
Alignment explanation
Indices: 11740163--11740631 Score: 246
Period size: 64 Copynumber: 7.2 Consensus size: 64
11740153 AGATTGTAGC
* * * *
11740163 TGATTTAAGATCACAACTGATATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGTTCACT
1 TGATTTAAGATCAAAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCAAAGTTCACT
** * * *
11740227 CAATTTAAGATCATGAAC-AATTTTATT-TGAGTTAGCTGATTTAAGATCGCAACTTCGAACAGT
1 TGATTTAAGATCA-AAACTAATATTATTAAG-GTTAGCTGATTTAAGATCGCAAC--C-AA-AGT
**
11740290 T-TGT
60 TCACT
* *
11740294 TGATTTAAGATCAAAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCA-T
1 TGATTTAAGATCAAAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCAAAGTTCACT
* * * * * *
11740357 TCGATTTAAGATCATGAAC-AATTTTGTT-TGAGTTAGC-GAATTTAAAATTGCAACTCTGAACA
1 T-GATTTAAGATCA-AAACTAATATTATTAAG-GTTAGCTG-ATTTAAGATCGCAAC-C--AA-A
**
11740419 ACTCAC-
58 GTTCACT
* * * * * * * *
11740425 TAATTTAAGACCACAACCAATATTTTTAAGTTTAGTTGATTTAAGATCGCAACCTAAGTTCA-T
1 TGATTTAAGATCAAAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCAAAGTTCACT
* * * * *
11740488 TCGATTTAAGATCAGGAAC-AATTTTATT-TGAGTTAGATGATTTAAGATCACAACTCTAAA---
1 T-GATTTAAGATCA-AAACTAATATTATTAAG-GTTAGCTGATTTAAGATCGCAAC-C-AAAGTT
11740548 CAACTT
61 C-AC-T
** ** * * * ** *
11740554 CTGATTTAAGATCGCAGTTGATATTATTAAGGTTAGTTGATTCAAGATCATAACCGAAGTTCACT
1 -TGATTTAAGATCAAAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCAAAGTTCACT
11740619 TGATTTAAGATCA
1 TGATTTAAGATCA
11740632 TGAACAATCT
Statistics
Matches: 306, Mismatches: 63, Indels: 72
0.69 0.14 0.16
Matches are distributed among these distances:
63 16 0.05
64 131 0.43
65 15 0.05
66 51 0.17
67 81 0.26
68 12 0.04
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (64 bp):
TGATTTAAGATCAAAACTAATATTATTAAGGTTAGCTGATTTAAGATCGCAACCAAAGTTCACT
Found at i:11740340 original size:131 final size:130
Alignment explanation
Indices: 11740162--11740639 Score: 618
Period size: 131 Copynumber: 3.7 Consensus size: 130
11740152 AAGATTGTAG
* * *
11740162 CTGATTTAAGATCACAACTGATATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGTTCACT
1 CTGATTTAAGATCACAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCACT
* **
11740227 CAATTTAAGATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACT-TCGAACAGTT
66 CGATTTAAGATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCT-GAACAACT
11740291 T
130 T
* * *
11740292 GTTGATTTAAGATCAAAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCAT
1 -CTGATTTAAGATCACAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCAC
* * *
11740357 TCGATTTAAGATCATGAACAATTTTGTTTGAGTTAGC-GAATTTAAAATTGCAACTCTGAACAAC
65 TCGATTTAAGATCATGAACAATTTTATTTGAGTTAGCTG-ATTTAAGATCGCAACTCTGAACAAC
*
11740421 TCA
129 T-T
* * * * * *
11740424 CTAATTTAAGACCACAACCAATATTTTTAAGTTTAGTTGATTTAAGATCGCAACCTAAGTTCATT
1 CTGATTTAAGATCACAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCACT
* * * *
11740489 CGATTTAAGATCAGGAACAATTTTATTTGAGTTAGATGATTTAAGATCACAACTCTAAACAACTT
66 CGATTTAAGATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCTGAACAACTT
* ** * * ** *
11740554 CTGATTTAAGATCGCAGTTGATATTATTAAGGTTAGTTGATTCAAGATCATAACCGAAGTTCACT
1 CTGATTTAAGATCACAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCACT
*
11740619 TGATTTAAGATCATGAACAAT
66 CGATTTAAGATCATGAACAAT
11740640 CTCACTTGTG
Statistics
Matches: 299, Mismatches: 44, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
130 71 0.24
131 226 0.76
132 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (130 bp):
CTGATTTAAGATCACAACTAATATTATTAAGGTTAGTTGATTTAAGATCGCAACCTAAGTTCACT
CGATTTAAGATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCTGAACAACTT
Found at i:11749420 original size:17 final size:18
Alignment explanation
Indices: 11749400--11749433 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11749390 CAAATTACAT
11749400 AATTAACCGAA-TTAATC
1 AATTAACCGAAGTTAATC
*
11749417 AATTAACTGAAGTTAAT
1 AATTAACCGAAGTTAAT
11749434 AATATATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (18 bp):
AATTAACCGAAGTTAATC
Found at i:11760915 original size:19 final size:20
Alignment explanation
Indices: 11760869--11760917 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
11760859 ATTAAGTGTA
11760869 AATTCTTTTAAATCAACAACT
1 AATT-TTTTAAATCAACAACT
*
11760890 AATTTTTTAAATCCACAACT
1 AATTTTTTAAATCAACAACT
11760910 AATTTTTT
1 AATTTTTT
11760918 CTAGTTTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTTTTAAATCAACAACT
Found at i:11762787 original size:59 final size:59
Alignment explanation
Indices: 11762713--11762825 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 59
11762703 TAAAATGAAA
*
11762713 CTTAAAATACTAAAAACTAAAAATGTAATAAAAACATATAAAAGAGTTAGAAAAAAAAG
1 CTTAAAATACTAAAAACTAAAAACGTAATAAAAACATATAAAAGAGTTAGAAAAAAAAG
* *
11762772 CTTAAACTACTAAAAACTGAAAACGTAATAAAAACATATAAAAGAGTTAGAAAA
1 CTTAAAATACTAAAAACTAAAAACGTAATAAAAACATATAAAAGAGTTAGAAAA
11762826 CAAGCTCGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.20
Consensus pattern (59 bp):
CTTAAAATACTAAAAACTAAAAACGTAATAAAAACATATAAAAGAGTTAGAAAAAAAAG
Found at i:11764445 original size:66 final size:66
Alignment explanation
Indices: 11764357--11764488 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
11764347 GATAACTTGC
* *
11764357 ATAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACA-TTTTAAGAAAATTT
1 ATAGCAACCACAAACTCATTTAGGCATACATCACATTACACATATATA-AGCTTTAAGAAAATTT
11764421 GG
65 GG
* *
11764423 ATAGCAACCACAAACTCCTTTAGGCATACATCACATTACACATATATAAGCTTTAAGATAATTTG
1 ATAGCAACCACAAACTCATTTAGGCATACATCACATTACACATATATAAGCTTTAAGAAAATTTG
11764488 G
66 G
11764489 CACTTGAGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 1 0.02
66 60 0.98
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (66 bp):
ATAGCAACCACAAACTCATTTAGGCATACATCACATTACACATATATAAGCTTTAAGAAAATTTG
G
Found at i:11766021 original size:13 final size:13
Alignment explanation
Indices: 11766003--11766027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11765993 TTTTGCACAA
11766003 AAAAATAAAATAG
1 AAAAATAAAATAG
11766016 AAAAATAAAATA
1 AAAAATAAAATA
11766028 AAATAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATAAAATAG
Found at i:11766538 original size:6 final size:6
Alignment explanation
Indices: 11766527--11766568 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
11766517 CACCATTTAG
* * *
11766527 TTGTTT TTGTTT TTGTTT TCGTAT TT-TTT GTGTTT TTGTTT T
1 TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT T
11766569 ATTTCTTGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
5 3 0.10
6 26 0.90
ACGTcount: A:0.02, C:0.02, G:0.17, T:0.79
Consensus pattern (6 bp):
TTGTTT
Found at i:11772142 original size:23 final size:23
Alignment explanation
Indices: 11772116--11772162 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
11772106 GTAATTATAA
11772116 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
11772139 ATACATTTGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
11772162 A
1 A
11772163 CATACTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:11773248 original size:22 final size:22
Alignment explanation
Indices: 11773187--11773278 Score: 121
Period size: 22 Copynumber: 4.0 Consensus size: 22
11773177 TCTCTAATTA
11773187 TTAGCACATCAGTGCTCTCTGAT
1 TTAGCACATCAGTGCTCTCTG-T
*
11773210 TACTAGCACGTCAGTGCTCTCTGT
1 T--TAGCACATCAGTGCTCTCTGT
*
11773234 TTAGCACATCTGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
* *
11773256 ATAGCACTTCAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
11773278 T
1 T
11773279 CATTAGTGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
22 38 0.63
23 1 0.02
24 2 0.03
25 19 0.32
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.37
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:11773276 original size:44 final size:46
Alignment explanation
Indices: 11773187--11773278 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 46
11773177 TCTCTAATTA
11773187 TTAGCACATCAGTGCTCTCTGATTACTAGCACGTCAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGA-TACTAGCACGTCAGTGCTCTCTGT
* *
11773234 TTAGCACATCTGTGCTCTCTG-TA-TAGCACTTCAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGATACTAGCACGTCAGTGCTCTCTGT
11773278 T
1 T
11773279 CATTAGTGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
44 21 0.49
45 2 0.05
47 20 0.47
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.37
Consensus pattern (46 bp):
TTAGCACATCAGTGCTCTCTGATACTAGCACGTCAGTGCTCTCTGT
Found at i:11778735 original size:26 final size:26
Alignment explanation
Indices: 11778699--11778753 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
11778689 TATCAGGTCA
11778699 GTTCTAATCAGGAAATGTTATTATGG
1 GTTCTAATCAGGAAATGTTATTATGG
11778725 GTTCTAATCAGGAAATGTTATTATGG
1 GTTCTAATCAGGAAATGTTATTATGG
11778751 GTT
1 GTT
11778754 AAAGTCATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (26 bp):
GTTCTAATCAGGAAATGTTATTATGG
Found at i:11779561 original size:23 final size:23
Alignment explanation
Indices: 11779535--11779581 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
11779525 GTAATTATAA
11779535 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
11779558 ATACATTTGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
11779581 A
1 A
11779582 CATACTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:11779724 original size:17 final size:16
Alignment explanation
Indices: 11779698--11779731 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11779688 AACAGGGGAG
11779698 AAAGGAAAGGAAAAGAA
1 AAAGGAAAGG-AAAGAA
*
11779715 AAAGGGAAGGAAAGAA
1 AAAGGAAAGGAAAGAA
11779731 A
1 A
11779732 GAAAATTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
AAAGGAAAGGAAAGAA
Found at i:11781017 original size:16 final size:18
Alignment explanation
Indices: 11780966--11781017 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 18
11780956 TGACTTAAGC
*
11780966 ATTTTTTTTAACC-TTT-
1 ATTTTATTTAACCATTTA
11780982 -TTTTATTTAACCATTTA
1 ATTTTATTTAACCATTTA
*
11780999 ATTTT-TTTAATCA-TTA
1 ATTTTATTTAACCATTTA
11781015 ATT
1 ATT
11781018 ATTCTTTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 11 0.35
16 9 0.29
17 7 0.23
18 4 0.13
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTATTTAACCATTTA
Found at i:11782309 original size:16 final size:16
Alignment explanation
Indices: 11782284--11782318 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11782274 TTGTGTTTTG
*
11782284 TTTTGGCTGCATGACA
1 TTTTGACTGCATGACA
*
11782300 TTTTGACTGCATGGCA
1 TTTTGACTGCATGACA
11782316 TTT
1 TTT
11782319 CATCATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (16 bp):
TTTTGACTGCATGACA
Found at i:11784946 original size:12 final size:12
Alignment explanation
Indices: 11784929--11784964 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
11784919 ATGGAAAAAG
11784929 AAAAGAAAATGA
1 AAAAGAAAATGA
*
11784941 AAAAGAAAAAGA
1 AAAAGAAAATGA
*
11784953 AAAGGAAAATGA
1 AAAAGAAAATGA
11784965 GAGGCCAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (12 bp):
AAAAGAAAATGA
Found at i:11784950 original size:18 final size:17
Alignment explanation
Indices: 11784921--11784961 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
11784911 TGAAACTGAT
11784921 GGAAAAAGAAAAGAAAA
1 GGAAAAAGAAAAGAAAA
*
11784938 TGAAAAAGAAAAAGAAAA
1 GGAAAAAG-AAAAGAAAA
11784956 GGAAAA
1 GGAAAA
11784962 TGAGAGGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (17 bp):
GGAAAAAGAAAAGAAAA
Found at i:11788020 original size:45 final size:45
Alignment explanation
Indices: 11787190--11788002 Score: 1054
Period size: 45 Copynumber: 18.1 Consensus size: 45
11787180 GGAGTAGGTT
* * * *
11787190 GAAGAGAGCAGATTTTGTCTTCCTATATTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
11787235 GAAGTTAGCAGATCTTGTCTTCCTGTATTGGCAGGGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
11787280 GAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
11787325 GAAGTTAGCAGATCTTGTCTTCCGGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
11787370 GAAGATAGCATATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
11787415 GAAGATAGCAGATCTTGTTTTCCTGTACTGACAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
11787460 GAAGATAGCAGATCTTATCTTCCTATATTAGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
11787505 GAAGATAGCAGATCTTATCTTCCTGTACTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
11787550 GAAGATAGCAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *** * * * *
11787595 GAAGATACCAG-CCTTATCTCCCTG-AGCAGCAGTGGAGTAGGTT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *
11787638 GAAAATAGTAGATCTTGTCTTCATGCACTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
**
11787683 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAATGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
11787728 GAATATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
11787773 GAAGATAGTAGATCTTGTCTTCCTGTATTGGTAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
11787818 GAAGATAGCAAATCTTGTCTTCCTGTATTGGTAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
11787863 CAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGTGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
11787908 GAAGATAGCATATCTTGTCTTCCTATATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
11787953 GAAGATAACAGATCTTGTCTTCCTATACTGGTAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
11787998 GAAGA
1 GAAGA
11788003 CGGCGAGTCT
Statistics
Matches: 672, Mismatches: 94, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
43 22 0.03
44 20 0.03
45 630 0.94
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:11788134 original size:44 final size:44
Alignment explanation
Indices: 11788053--11788265 Score: 126
Period size: 44 Copynumber: 4.8 Consensus size: 44
11788043 TAAGCCACCA
* * * * * *
11788053 ATCCTATATCACTGAGCAGTAGTAGAATAGGTTGAAGATTGTAG
1 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAG
* * * * *
11788097 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTAA
1 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAG
* * * * *****
11788141 ATCTTATCTTCCC-AAGGTAGTAG-GGAAGCAGATTTAAGCCACCAG
1 ATCCTATC-TCCCTAA-GCAGTAGTGG-AGTAGATTGAAGATTGTAG
* * *
11788186 -TCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTGTAG
1 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAG
* * * * *
11788229 ATCCTGTCTCCCTAAGTAGTAATGGAGCAGATCGAAG
1 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAG
11788266 GCAGCAAATC
Statistics
Matches: 121, Mismatches: 42, Indels: 12
0.69 0.24 0.07
Matches are distributed among these distances:
43 20 0.17
44 81 0.67
45 20 0.17
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (44 bp):
ATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAG
Found at i:11788438 original size:132 final size:132
Alignment explanation
Indices: 11788010--11788413 Score: 587
Period size: 132 Copynumber: 3.1 Consensus size: 132
11788000 AGACGGCGAG
* *
11788010 TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATATCACTGAGCAGTAG
1 TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGTAG
* * * * * * * *
11788075 TAGAATAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTA
66 TGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGTAGCA
11788140 AA
131 AA
*
11788142 TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGCAGTAG
1 TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGTAG
* * *
11788207 TGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGTAGTAATGGAGCAGATCGAAGGCAGCA
66 TGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGTAGCA
11788272 AA
131 AA
* * *
11788274 TCCTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACCAATCCCT-TCTCCCTGAG-ATGC
1 TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAAT-CCTATCTCCCTGAGCA-GT
* * *
11788337 AGTGGAGTAGGTTGAAAATTGTATATCCTGTATCCCTAAGCAGTAGTGGAGCAGATCAAAGGTAG
64 AGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGTAG
*
11788402 CGAA
129 CAAA
11788406 TCTTATCT
1 TCTTATCT
11788414 CCTTGGCATT
Statistics
Matches: 244, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
131 1 0.00
132 240 0.98
133 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
TCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGTAG
TGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGTAGCA
AA
Found at i:11788567 original size:44 final size:44
Alignment explanation
Indices: 11788510--11788622 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
11788500 ATAACCAACC
* *
11788510 TTATCT-CTCTGAAGTTACAGTGGAGCCGGTTGAAGATATCAA-TA
1 TTATCTCCT-TGAAGTTACAGTGGAGCAGATTGAAGATA-CAAGTA
* * * *
11788554 TTATCTCCTTGAAGTTGCAGTGGGGCAGATTGAAGTTACAAGTC
1 TTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGATACAAGTA
* *
11788598 TTATCTCCCTGCAGTTACAGTGGAG
1 TTATCTCCTTGAAGTTACAGTGGAG
11788623 TAGACTGAGG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
43 3 0.05
44 52 0.91
45 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
TTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGATACAAGTA
Found at i:11790337 original size:25 final size:24
Alignment explanation
Indices: 11790308--11790442 Score: 143
Period size: 25 Copynumber: 5.6 Consensus size: 24
11790298 ACTTTAGTGC
11790308 GCTCTCTGATTATTAGCACATCAGT
1 GCTCTCTG-TTATTAGCACATCAGT
* *
11790333 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTG-TTATTAGCACATCAGT
* * *
11790358 GCTTTCTGATTACTAGCACGTCAGT
1 GCTCTCTG-TTATTAGCACATCAGT
*
11790383 GCTCTCTG-T-TTAGCACATCTGT
1 GCTCTCTGTTATTAGCACATCAGT
*
11790405 GCTCTCTG-TA-TAGCACTTCAGT
1 GCTCTCTGTTATTAGCACATCAGT
11790427 GCTCTCTGTTCATTAG
1 GCTCTCTGTT-ATTAG
11790443 TGCATAACAA
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
22 37 0.39
23 2 0.02
24 1 0.01
25 55 0.58
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (24 bp):
GCTCTCTGTTATTAGCACATCAGT
Found at i:11790406 original size:22 final size:22
Alignment explanation
Indices: 11790320--11790436 Score: 117
Period size: 22 Copynumber: 5.0 Consensus size: 22
11790310 TCTCTGATTA
11790320 TTAGCACATCAGTGCTCTCTGATT
1 TTAGCACATCAGTGCTCTCTG--T
* * *
11790344 ATTAGCACGTTAGTGCTTTCTGAT
1 -TTAGCACATCAGTGCTCTCTG-T
*
11790368 TACTAGCACGTCAGTGCTCTCTGT
1 T--TAGCACATCAGTGCTCTCTGT
*
11790392 TTAGCACATCTGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
* *
11790414 ATAGCACTTCAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
11790436 T
1 T
11790437 CATTAGTGCA
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
22 38 0.49
23 1 0.01
24 3 0.04
25 36 0.46
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:11791419 original size:26 final size:26
Alignment explanation
Indices: 11791383--11791470 Score: 88
Period size: 26 Copynumber: 3.4 Consensus size: 26
11791373 ACTCACCTAC
*
11791383 AATAGTCCTTGCGGACTTATACTTGA
1 AATAGTCCTTGCGGACTCATACTTGA
* * *
11791409 AATAGTCCTTGTGGACTCCTACTTGCT
1 AATAGTCCTTGCGGACTCATACTTG-A
* * * *
11791436 AACAATTCTTGCAGACTCATACTTGA
1 AATAGTCCTTGCGGACTCATACTTGA
11791462 AATAG-CCTT
1 AATAGTCCTT
11791471 TGCAGAATCT
Statistics
Matches: 47, Mismatches: 14, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
25 3 0.06
26 25 0.53
27 19 0.40
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (26 bp):
AATAGTCCTTGCGGACTCATACTTGA
Found at i:11791542 original size:28 final size:28
Alignment explanation
Indices: 11791445--11791681 Score: 155
Period size: 28 Copynumber: 8.5 Consensus size: 28
11791435 TAACAATTCT
* *
11791445 TGCAGACTCATACTTG-AA-ATAG-CCTT
1 TGCAGACTCTTACTTGAAAGATAGTCC-A
* ** *
11791471 TGCAGAATCTTGTTTGAAAGATACTCCA
1 TGCAGACTCTTACTTGAAAGATAGTCCA
* * * *
11791499 TG-TGAAATCCTACTTGAAAGATAATCCA
1 TGCAG-ACTCTTACTTGAAAGATAGTCCA
* * * **
11791527 TGCAGACTATTGCTTGAAAGGTAGTTTA
1 TGCAGACTCTTACTTGAAAGATAGTCCA
* *
11791555 TGCAGACTCTTAATTGAAGGATAGTCCA
1 TGCAGACTCTTACTTGAAAGATAGTCCA
* * * * *
11791583 TGCGGTCTCTTGCTTGAAAGGTAATCCA
1 TGCAGACTCTTACTTGAAAGATAGTCCA
*
11791611 TGC-GAAATCTTACTTGAAAGATAGTCCA
1 TGCAG-ACTCTTACTTGAAAGATAGTCCA
*
11791639 TGC-GAACTCTTCCTTGAAA-AGTAGTCCA
1 TGCAG-ACTCTTACTTGAAAGA-TAGTCCA
*
11791667 TGCAGACTTTTACTT
1 TGCAGACTCTTACTT
11791682 CTTGCGTATG
Statistics
Matches: 160, Mismatches: 43, Indels: 14
0.74 0.20 0.06
Matches are distributed among these distances:
26 12 0.08
27 5 0.03
28 139 0.87
29 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (28 bp):
TGCAGACTCTTACTTGAAAGATAGTCCA
Found at i:11791656 original size:84 final size:84
Alignment explanation
Indices: 11791511--11791669 Score: 180
Period size: 84 Copynumber: 1.9 Consensus size: 84
11791501 TGAAATCCTA
* * * ** *
11791511 CTTGAAAGATAATCCATGCAGACTATTGCTTGAAAGGTAGTTTATGCAGACTCTTAATTG-AAGG
1 CTTGAAAGATAATCCATGCAGAATATTACTTGAAAGATAGTCCATGCAGACTCTTAATTGAAAAG
11791575 ATAGTCCATGCGGTCTCTTG
66 -TAGTCCATGCGGTCTCTTG
* * **
11791595 CTTGAAAGGTAATCCATGC-GAAATCTTACTTGAAAGATAGTCCATGC-GAACTCTTCCTTGAAA
1 CTTGAAAGATAATCCATGCAG-AATATTACTTGAAAGATAGTCCATGCAG-ACTCTTAATTGAAA
11791658 AGTAGTCCATGC
64 AGTAGTCCATGC
11791670 AGACTTTTAC
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
83 2 0.03
84 57 0.92
85 3 0.05
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (84 bp):
CTTGAAAGATAATCCATGCAGAATATTACTTGAAAGATAGTCCATGCAGACTCTTAATTGAAAAG
TAGTCCATGCGGTCTCTTG
Done.