Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 126 of 163
Found at i:34683849 original size:28 final size:28
Alignment explanation
Indices: 34683818--34683888 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
34683808 GAGGCTCGTA
34683818 TATAAGGGTTCGCATAC-AGGAGCTCACC
1 TATAAGGGTTCGCATACAAGG-GCTCACC
* **
34683846 TAT-AGGAGTTTGCATACAAGGGCTTGCC
1 TATAAGG-GTTCGCATACAAGGGCTCACC
*
34683874 TATAGGGGTTCGCAT
1 TATAAGGGTTCGCAT
34683889 GCAAAGAGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
27 3 0.09
28 27 0.77
29 5 0.14
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (28 bp):
TATAAGGGTTCGCATACAAGGGCTCACC
Found at i:34685915 original size:21 final size:21
Alignment explanation
Indices: 34685877--34685917 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34685867 GTTGATCTTT
* * *
34685877 TTCTTCAATTTTTCTTTTTAA
1 TTCTTCAAGTGTTATTTTTAA
34685898 TTCTTCAAGTGTTATTTTTA
1 TTCTTCAAGTGTTATTTTTA
34685918 TTGGATTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.05, T:0.63
Consensus pattern (21 bp):
TTCTTCAAGTGTTATTTTTAA
Found at i:34692515 original size:17 final size:17
Alignment explanation
Indices: 34692493--34692525 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34692483 GCTGCAAGCT
34692493 CTTCACTCTTATTCTTA
1 CTTCACTCTTATTCTTA
34692510 CTTCACTCTTATTCTT
1 CTTCACTCTTATTCTT
34692526 TTGATTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.55
Consensus pattern (17 bp):
CTTCACTCTTATTCTTA
Found at i:34696947 original size:24 final size:21
Alignment explanation
Indices: 34696918--34696960 Score: 59
Period size: 24 Copynumber: 1.9 Consensus size: 21
34696908 CTTTCTTGCT
34696918 TGCTTCTTCTTTTGCCTTTTCTAC
1 TGCTTCTT-TTTT--CTTTTCTAC
34696942 TGCTTCTTTTTTCTTTTCT
1 TGCTTCTTTTTTCTTTTCT
34696961 CCTCTTGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.02, C:0.26, G:0.07, T:0.65
Consensus pattern (21 bp):
TGCTTCTTTTTTCTTTTCTAC
Found at i:34698376 original size:17 final size:17
Alignment explanation
Indices: 34698356--34698388 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34698346 AGAGAATCAA
34698356 AAGAATAAGAGTGAAGC
1 AAGAATAAGAGTGAAGC
34698373 AAGAATAAGAGTGAAG
1 AAGAATAAGAGTGAAG
34698389 AGCTTGCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.30, T:0.12
Consensus pattern (17 bp):
AAGAATAAGAGTGAAGC
Found at i:34727088 original size:217 final size:214
Alignment explanation
Indices: 34726716--34727149 Score: 724
Period size: 217 Copynumber: 2.0 Consensus size: 214
34726706 ACTCTTTGTT
*
34726716 GTACAGGAAATCACAGTTAACTCCAAACAAGTTAAGCATATATATAAATCTAGCATTCAAATATC
1 GTACAGGAAATCACAGTTAACTCCAAACAAGTTAAGCATATATATAAACCTAGCATTCAAATATC
* *
34726781 TCTTATAACAGCATCGGAAATCCTATCACCATCAGACATTTTCTAACATATGATCAAATGCTGTA
66 TCTTATAACAGCATCAGAAATCCTATCACCAACAGACATTTTCTAACATATGATCAAATGCTGTA
* * * * *
34726846 TCTCCTGGGGGTAAAATTGTTGCTTCCAAAGCATTTTCAAGTCTGAGAAACAACATGTTGCACTC
131 TCTCCTAGGGATAAAATTGTTGCTTCCAAAGCATTTTAAAGCCTGAGAAACAACATATTGCACTC
* *
34726911 TTATGATGATAAATTAGCA
196 TTATGATGATAAACTAGAA
*
34726930 GTACAGGAAATCACAGTTAACTCCAAACAACAAGTTGAGCATATATATAAACCTAGCATTCAAAT
1 GTACAGGAAATCACAGTTAACTCC--A-AACAAGTTAAGCATATATATAAACCTAGCATTCAAAT
* *
34726995 ATCTCTTATAACAGTATCAGAAATCCTATCACCAACGGACATTTTCTAACATATGATCAAATGCT
63 ATCTCTTATAACAGCATCAGAAATCCTATCACCAACAGACATTTTCTAACATATGATCAAATGCT
34727060 GTATCTCCTAGGGATAAAATTGTTGCTTCCAAAGCATTTTAAAGCCTGAGAAACAACATATTGCA
128 GTATCTCCTAGGGATAAAATTGTTGCTTCCAAAGCATTTTAAAGCCTGAGAAACAACATATTGCA
34727125 CTCTTATGATGATAAACTAGAA
193 CTCTTATGATGATAAACTAGAA
34727147 GTA
1 GTA
34727150 TGAAGTTCCC
Statistics
Matches: 204, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
214 24 0.12
216 1 0.00
217 179 0.88
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (214 bp):
GTACAGGAAATCACAGTTAACTCCAAACAAGTTAAGCATATATATAAACCTAGCATTCAAATATC
TCTTATAACAGCATCAGAAATCCTATCACCAACAGACATTTTCTAACATATGATCAAATGCTGTA
TCTCCTAGGGATAAAATTGTTGCTTCCAAAGCATTTTAAAGCCTGAGAAACAACATATTGCACTC
TTATGATGATAAACTAGAA
Found at i:34727536 original size:3 final size:3
Alignment explanation
Indices: 34727528--34727569 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
34727518 GTCTTTCCAT
34727528 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
34727570 ATCAATAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:34733684 original size:37 final size:37
Alignment explanation
Indices: 34733643--34733715 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
34733633 TGTCCCCTGC
*
34733643 CCGTGTGTCCCTAATAT-ATAAACAGTGAGTTACACAT
1 CCGTGTGTCCC-AATATAAAAAACAGTGAGTTACACAT
*
34733680 CCGTGTGTCTCAATATAAAAAACAGTGAGTTACACA
1 CCGTGTGTCCCAATATAAAAAACAGTGAGTTACACA
34733716 ATCCACTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 5 0.15
37 28 0.85
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (37 bp):
CCGTGTGTCCCAATATAAAAAACAGTGAGTTACACAT
Found at i:34735959 original size:26 final size:28
Alignment explanation
Indices: 34735919--34735975 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 28
34735909 AAATACCTGA
34735919 CACCCAATGGAGGAACATGAAGTG-CGG
1 CACCCAATGGAGGAACATGAAGTGACGG
* *
34735946 CACCC-ATTGAGGAACATTAAGTGACGG
1 CACCCAATGGAGGAACATGAAGTGACGG
34735973 CAC
1 CAC
34735976 TTAGGGGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.14
Consensus pattern (28 bp):
CACCCAATGGAGGAACATGAAGTGACGG
Found at i:34736095 original size:31 final size:30
Alignment explanation
Indices: 34736060--34736123 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
34736050 GTTTTGGTTT
34736060 TTTACCAAAATAAAATATA-AAAAAATATTTA
1 TTTACCAAAAT--AATATACAAAAAATATTTA
* *
34736091 TTTACTAAAATAATATACAAAAATTATTTA
1 TTTACCAAAATAATATACAAAAAATATTTA
34736121 TTT
1 TTT
34736124 TATTTGACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 6 0.20
30 14 0.47
31 10 0.33
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTACCAAAATAATATACAAAAAATATTTA
Found at i:34736141 original size:36 final size:35
Alignment explanation
Indices: 34736087--34736159 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 35
34736077 TAAAAAAATA
*
34736087 TTTATTTACTAAAATAATA-TACAAAAATTATTTAT
1 TTTATTTACTAAAATAATATTA-AAAAATTATTAAT
*
34736122 TTTATTTGACTAAAGTAATATTAAAAAATTATTAAT
1 TTTATTT-ACTAAAATAATATTAAAAAATTATTAAT
34736158 TT
1 TT
34736160 AATAAAGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 7 0.21
36 25 0.74
37 2 0.06
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (35 bp):
TTTATTTACTAAAATAATATTAAAAAATTATTAAT
Found at i:34736587 original size:19 final size:21
Alignment explanation
Indices: 34736548--34736595 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
34736538 TAGTATGATA
34736548 TATTT-TT-AAATTTGTATTT
1 TATTTATTAAAATTTGTATTT
34736567 TATTTATTAAAATTT-TA-TT
1 TATTTATTAAAATTTGTATTT
*
34736586 TATTTTTTAA
1 TATTTATTAA
34736596 CAGATTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 16 0.62
20 4 0.15
21 6 0.23
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTTATTAAAATTTGTATTT
Found at i:34739474 original size:7 final size:7
Alignment explanation
Indices: 34739459--34739506 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
34739449 GGGTTTTAAA
*
34739459 TTTAAGG
1 TTTATGG
34739466 TTTATGG
1 TTTATGG
*
34739473 TTTATGC
1 TTTATGG
*
34739480 TATATGG
1 TTTATGG
34739487 TTTATGGG
1 TTTAT-GG
*
34739495 TTTAAGG
1 TTTATGG
34739502 TTTAT
1 TTTAT
34739507 AAGTATGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.21, C:0.02, G:0.25, T:0.52
Consensus pattern (7 bp):
TTTATGG
Found at i:34739734 original size:21 final size:21
Alignment explanation
Indices: 34739710--34739755 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
34739700 TAGAGTTCAT
34739710 TTGCCCCGGAGGAGTAAAGTA
1 TTGCCCCGGAGGAGTAAAGTA
*** *
34739731 TTGCTTGGGAGGAGTAGAGTA
1 TTGCCCCGGAGGAGTAAAGTA
34739752 TTGC
1 TTGC
34739756 GGTAGCCCGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.37, T:0.26
Consensus pattern (21 bp):
TTGCCCCGGAGGAGTAAAGTA
Found at i:34742247 original size:12 final size:13
Alignment explanation
Indices: 34742220--34742248 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34742210 TAAATAATAC
34742220 ATTTTAAAATTTA
1 ATTTTAAAATTTA
34742233 ATTTTAAAA-TTA
1 ATTTTAAAATTTA
34742245 ATTT
1 ATTT
34742249 ATATTACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTTAAAATTTA
Found at i:34742621 original size:13 final size:13
Alignment explanation
Indices: 34742603--34742631 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
34742593 ACAAATTAAA
34742603 AAATTTTAAAAAT
1 AAATTTTAAAAAT
34742616 AAA-TTTAAAAAT
1 AAATTTTAAAAAT
34742628 AAAT
1 AAAT
34742632 ACACTACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.80
13 3 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATTTTAAAAAT
Found at i:34742670 original size:4 final size:4
Alignment explanation
Indices: 34742663--34742712 Score: 56
Period size: 4 Copynumber: 13.5 Consensus size: 4
34742653 TCCTTCTTCC
34742663 TTCT TTCT TT-T TT-T TTCT TTCCT TT-T TTCT TTCT TTCT TT-T TTC-
1 TTCT TTCT TTCT TTCT TTCT TT-CT TTCT TTCT TTCT TTCT TTCT TTCT
34742707 TTCT TT
1 TTCT TT
34742713 TGCCCGTTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
3 15 0.37
4 22 0.54
5 4 0.10
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (4 bp):
TTCT
Found at i:34742684 original size:22 final size:23
Alignment explanation
Indices: 34742659--34742712 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
34742649 TTCTTCCTTC
34742659 TTCCTTCTTTCTTT-TTT-TTTCT
1 TTCCTTCTTTCTTTCTTTCTTT-T
*
34742681 TTCCTTTTTTCTTTCTTTCTTTT
1 TTCCTTCTTTCTTTCTTTCTTTT
34742704 TT-CTTCTTT
1 TTCCTTCTTT
34742713 TGCCCGTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 19 0.68
23 6 0.21
24 3 0.11
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (23 bp):
TTCCTTCTTTCTTTCTTTCTTTT
Found at i:34751918 original size:2 final size:2
Alignment explanation
Indices: 34751911--34751935 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34751901 TCTATCTATC
34751911 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
34751936 GTTTGAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34762298 original size:81 final size:81
Alignment explanation
Indices: 34762200--34762386 Score: 234
Period size: 81 Copynumber: 2.3 Consensus size: 81
34762190 AATGTTATTT
* * *
34762200 TTTCATGATTCGCCACAAAGGCTTTCG-TTTCATGGTTCGCCACAAAGGCTTTCATCTT-ATGAT
1 TTTCATGGTTCGCCACAAAGGCTTT-GATTTCATGGTTCACCACAAAGACTTTCAT-TTCATGAT
*
34762263 TCACCGTAAAAGCTTTCA
64 TCACCATAAAAGCTTTCA
* * * *
34762281 TTTCATGGTACGCCACAAAGACTTTGATTTCATGGTTCACCATAAAGACTTTCATTTCATGGTTC
1 TTTCATGGTTCGCCACAAAGGCTTTGATTTCATGGTTCACCACAAAGACTTTCATTTCATGATTC
* *
34762346 ACCATAAAGGTTTTCA
66 ACCATAAAAGCTTTCA
* *
34762362 TTCCATGGTTCGCTACAAAGGCTTT
1 TTTCATGGTTCGCCACAAAGGCTTT
34762387 TATTCATTGA
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.03
81 87 0.97
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (81 bp):
TTTCATGGTTCGCCACAAAGGCTTTGATTTCATGGTTCACCACAAAGACTTTCATTTCATGATTC
ACCATAAAAGCTTTCA
Found at i:34762391 original size:27 final size:27
Alignment explanation
Indices: 34762200--34762386 Score: 196
Period size: 27 Copynumber: 6.9 Consensus size: 27
34762190 AATGTTATTT
* *
34762200 TTTCATGATTCGCCACAAAGGCTTTCG
1 TTTCATGGTTCGCCACAAAGGCTTTCA
34762227 TTTCATGGTTCGCCACAAAGGCTTTCA
1 TTTCATGGTTCGCCACAAAGGCTTTCA
* * ** *
34762254 TCTT-ATGATTCACCGTAAAAGCTTTCA
1 T-TTCATGGTTCGCCACAAAGGCTTTCA
* * *
34762281 TTTCATGGTACGCCACAAAGACTTTGA
1 TTTCATGGTTCGCCACAAAGGCTTTCA
* * *
34762308 TTTCATGGTTCACCATAAAGACTTTCA
1 TTTCATGGTTCGCCACAAAGGCTTTCA
* * *
34762335 TTTCATGGTTCACCATAAAGGTTTTCA
1 TTTCATGGTTCGCCACAAAGGCTTTCA
* *
34762362 TTCCATGGTTCGCTACAAAGGCTTT
1 TTTCATGGTTCGCCACAAAGGCTTT
34762387 TATTCATTGA
Statistics
Matches: 132, Mismatches: 26, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
26 2 0.02
27 128 0.97
28 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (27 bp):
TTTCATGGTTCGCCACAAAGGCTTTCA
Found at i:34762578 original size:123 final size:122
Alignment explanation
Indices: 34762355--34762598 Score: 398
Period size: 123 Copynumber: 2.0 Consensus size: 122
34762345 CACCATAAAG
* * *
34762355 GTTTTCATTCCATGGTTCGCTACAAAGGCTTTTATTCATTGACATGTTTACAATATGGGCTTGCC
1 GTTTTCATTCCATGGTTCGCTACAAAGGCTTTCATTCACTGACATGTTTACAATATGGACTTGCC
* *
34762420 TAGACTCACATTTTGTGAGGTTTGCTCATCATTGTCCTAGGGCACGCAGGAAACCCT
66 TAGACTCACATTTCGTGAGGTTTGCTCATCATTGTCCTAGGACACGCAGGAAACCCT
* * *
34762477 GTTTGTCATTTCATGTTTCGCTACAAAGGCTTTCATTCACTGACATGTTTACAATATGGATTTGC
1 GTTT-TCATTCCATGGTTCGCTACAAAGGCTTTCATTCACTGACATGTTTACAATATGGACTTGC
*
34762542 CTAGACTCACATTTCGTGAGGTTTGCTCATTATTGTCCTAGGACACGCAGGAAACCC
65 CTAGACTCACATTTCGTGAGGTTTGCTCATCATTGTCCTAGGACACGCAGGAAACCC
34762599 CATTTGGGTA
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
122 4 0.04
123 108 0.96
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (122 bp):
GTTTTCATTCCATGGTTCGCTACAAAGGCTTTCATTCACTGACATGTTTACAATATGGACTTGCC
TAGACTCACATTTCGTGAGGTTTGCTCATCATTGTCCTAGGACACGCAGGAAACCCT
Found at i:34765248 original size:17 final size:17
Alignment explanation
Indices: 34765228--34765282 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
34765218 ATTTGATTCA
*
34765228 AAAAT-ATTTTTAAAAT
1 AAAATAATTTATAAAAT
*
34765244 GAAAATAATTCATAAAAT
1 -AAAATAATTTATAAAAT
*
34765262 AAAATAATTTGTAAAAT
1 AAAATAATTTATAAAAT
34765279 AAAA
1 AAAA
34765283 CCCAAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 24 0.73
18 9 0.27
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATAATTTATAAAAT
Found at i:34765551 original size:13 final size:13
Alignment explanation
Indices: 34765533--34765558 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34765523 TACTCTAATT
34765533 TAAATTATTTGTA
1 TAAATTATTTGTA
34765546 TAAATTATTTGTA
1 TAAATTATTTGTA
34765559 ATCCTAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TAAATTATTTGTA
Found at i:34766445 original size:36 final size:36
Alignment explanation
Indices: 34766403--34766474 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
34766393 ATTTATATTT
* *
34766403 TATATATATAATATTTACACATAATATAA-TTTAGTG
1 TATATATAAAAGATTTACACATAATA-AATTTTAGTG
*
34766439 TATATATAAAAGATTTACCCATAATAAATTTTAGTG
1 TATATATAAAAGATTTACACATAATAAATTTTAGTG
34766475 CATTGCATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (36 bp):
TATATATAAAAGATTTACACATAATAAATTTTAGTG
Found at i:34767426 original size:24 final size:23
Alignment explanation
Indices: 34767384--34767432 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
34767374 TTTTTTCAAA
34767384 AACAAAATATTAAACATTAAGTTT
1 AACAAAATATTAAACATTAA-TTT
*
34767408 AACAATAATATT-AATATTAATTT
1 AACAA-AATATTAAACATTAATTT
34767431 AA
1 AA
34767433 GATTCATGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.22
24 12 0.52
25 6 0.26
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (23 bp):
AACAAAATATTAAACATTAATTT
Found at i:34772450 original size:15 final size:15
Alignment explanation
Indices: 34772430--34772459 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34772420 TGTTTGTTTT
*
34772430 AAAGATATAAAAAAA
1 AAAGATAGAAAAAAA
34772445 AAAGATAGAAAAAAA
1 AAAGATAGAAAAAAA
34772460 TTGACATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (15 bp):
AAAGATAGAAAAAAA
Found at i:34775133 original size:128 final size:129
Alignment explanation
Indices: 34774667--34775123 Score: 595
Period size: 128 Copynumber: 3.6 Consensus size: 129
34774657 TGAGAGAAGG
* * * * * *
34774667 TACAAGATATACACGGGTTGGAGCCACA-GCCGTGTGCTAGACCATGTGTACATACTATTTAGTG
1 TACAGGATATACACGGGCTGGACCCACAGGTCGTGTGCTAGACCGTGTGTACATACTGTTTAGTG
* * ** * * *
34774731 ACACACGAGCTAGGCACATGGGTATGTGTTAGACCGTGTTTGCATATTGTTTTGTAAACTAGCA
66 ACACACGGGCTAGGCACATAGGCGTGTGTTAGACCGTGTGTGCATACTATTTTGTAAACTAGCA
* * *
34774795 TACAGAATATACACGGGCTGGACCCAC-GATCGTGTGCTAGATCGTGTGTACATACTGTTTAGTG
1 TACAGGATATACACGGGCTGGACCCACAGGTCGTGTGCTAGACCGTGTGTACATACTGTTTAGTG
* *
34774859 ACACACGGGCTAGGCACA-AGGCGTGTGTTAGACTGTGTGTGCATACTATTTTGTAAAGTAGCA
66 ACACACGGGCTAGGCACATAGGCGTGTGTTAGACCGTGTGTGCATACTATTTTGTAAACTAGCA
*
34774922 TACAGGATATACACGGGCTGGACCCACA-GTCGTGTGCTAGACTGTGTGTACATACTGTTTAGTG
1 TACAGGATATACACGGGCTGGACCCACAGGTCGTGTGCTAGACCGTGTGTACATACTGTTTAGTG
*
34774986 ACACACGGGCTAGGCACATAGGCGTGTGTTAGACCGTGTGTGCATACTATTTTGTAAACTAGCG
66 ACACACGGGCTAGGCACATAGGCGTGTGTTAGACCGTGTGTGCATACTATTTTGTAAACTAGCA
** * * * ** *
34775050 TACAGGGGATACACGGGTTGGACACACAGGT-GTATG-TCAGACCGTGTGTGTATATTGTCTTAG
1 TACAGGATATACACGGGCTGGACCCACAGGTCGTGTGCT-AGACCGTGTGTACATACTGT-TTAG
34775113 -GACACACGGGC
64 TGACACACGGGC
34775124 GAAACACATA
Statistics
Matches: 289, Mismatches: 34, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
127 115 0.40
128 168 0.58
129 6 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (129 bp):
TACAGGATATACACGGGCTGGACCCACAGGTCGTGTGCTAGACCGTGTGTACATACTGTTTAGTG
ACACACGGGCTAGGCACATAGGCGTGTGTTAGACCGTGTGTGCATACTATTTTGTAAACTAGCA
Found at i:34775557 original size:40 final size:40
Alignment explanation
Indices: 34775471--34775575 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
34775461 TAGGACATTT
* * * * *
34775471 ACTGGACTGGCAGTGACACTATAAACATTGCAATATTATA
1 ACTGAACTGGCAGTGACACTATAAACACTACAACATTAAA
** * *
34775511 GTTGAACTGACAGTGACACTATAAACACTACGACATTAAA
1 ACTGAACTGGCAGTGACACTATAAACACTACAACATTAAA
* *
34775551 ACTGAACTGGCAGTGAAACTGTAAA
1 ACTGAACTGGCAGTGACACTATAAA
34775576 AACTGTGATA
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (40 bp):
ACTGAACTGGCAGTGACACTATAAACACTACAACATTAAA
Found at i:34784947 original size:24 final size:24
Alignment explanation
Indices: 34784914--34784973 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
34784904 ACTTGTGTAA
*
34784914 AAGCTCGTTTATTGGCTCATTTAT
1 AAGCTCGTTTATTGACTCATTTAT
* *
34784938 AAGCTTGTTTATTGACTCTTTTAT
1 AAGCTCGTTTATTGACTCATTTAT
*
34784962 GA-CTCGTTTATT
1 AAGCTCGTTTATT
34784974 TATTAAAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 9 0.29
24 22 0.71
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (24 bp):
AAGCTCGTTTATTGACTCATTTAT
Found at i:34785097 original size:24 final size:24
Alignment explanation
Indices: 34785070--34785133 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
34785060 TTATTAACAT
*
34785070 TATTCGTGAACATGTTTAATTATA
1 TATTCATGAACATGTTTAATTATA
34785094 TATTCATGAACATGTTTAATTATA
1 TATTCATGAACATGTTTAATTATA
*
34785118 TGTTCATGAACATGTT
1 TATTCATGAACATGTT
34785134 CGTGGATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (24 bp):
TATTCATGAACATGTTTAATTATA
Found at i:34786374 original size:20 final size:21
Alignment explanation
Indices: 34786349--34786391 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
34786339 TGCAGAATTA
34786349 TACCGATAAAACT-GAGGTTC
1 TACCGATAAAACTCGAGGTTC
* *
34786369 TACCGATACAACTCTAGGTTC
1 TACCGATAAAACTCGAGGTTC
34786390 TA
1 TA
34786392 TCGGAACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (21 bp):
TACCGATAAAACTCGAGGTTC
Found at i:34787187 original size:40 final size:40
Alignment explanation
Indices: 34787142--34787246 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
34787132 CATTTATACT
*
34787142 AATAGGGGCACTGAAGTGCAAACAG-GGATACCAAAGTGCA
1 AATAGGGGCACTGAAGTGCAAACAGAGG-CACCAAAGTGCA
* * ***
34787182 CATAGGGGCACTGACGTGCATTTAGAGGCACCAAAGTGCA
1 AATAGGGGCACTGAAGTGCAAACAGAGGCACCAAAGTGCA
34787222 AATAGGGGCA-TCGAAGTGCAAACAG
1 AATAGGGGCACT-GAAGTGCAAACAG
34787247 CAAATACACA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.02
40 49 0.94
41 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.14
Consensus pattern (40 bp):
AATAGGGGCACTGAAGTGCAAACAGAGGCACCAAAGTGCA
Found at i:34787231 original size:20 final size:20
Alignment explanation
Indices: 34787142--34787243 Score: 87
Period size: 20 Copynumber: 5.1 Consensus size: 20
34787132 CATTTATACT
*
34787142 AATAGGGGCACTGAAGTGCA
1 AATAGGGGCACCGAAGTGCA
* ** *
34787162 AACAGGGATACCAAAGTGCA
1 AATAGGGGCACCGAAGTGCA
* * *
34787182 CATAGGGGCACTGACGTGCA
1 AATAGGGGCACCGAAGTGCA
** * *
34787202 TTTAGAGGCACCAAAGTGCA
1 AATAGGGGCACCGAAGTGCA
*
34787222 AATAGGGGCATCGAAGTGCA
1 AATAGGGGCACCGAAGTGCA
34787242 AA
1 AA
34787244 CAGCAAATAC
Statistics
Matches: 59, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.15
Consensus pattern (20 bp):
AATAGGGGCACCGAAGTGCA
Found at i:34795333 original size:38 final size:36
Alignment explanation
Indices: 34795237--34795342 Score: 149
Period size: 36 Copynumber: 2.9 Consensus size: 36
34795227 TGGTAACAGG
* *
34795237 AATGACCTTTGGGTCAATAGGGAGAAAAATGAGCAT
1 AATGACCTTTGGGTCAATAGGGAGTAAAACGAGCAT
*
34795273 AATGACCTTTGGGTCAACAGGGAGTAAAACGAGCAT
1 AATGACCTTTGGGTCAATAGGGAGTAAAACGAGCAT
* *
34795309 TATGATCTTTTGGGGTCAATAGGGAGTAAAACGA
1 AATGA-CCTTT-GGGTCAATAGGGAGTAAAACGA
34795343 ATAACGATCA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
36 37 0.60
37 4 0.06
38 21 0.34
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (36 bp):
AATGACCTTTGGGTCAATAGGGAGTAAAACGAGCAT
Found at i:34798879 original size:17 final size:17
Alignment explanation
Indices: 34798847--34798879 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34798837 TATGTTATGA
34798847 AAAGTGAATTGAGAATC
1 AAAGTGAATTGAGAATC
34798864 AAAGTCGAATTG-GAAT
1 AAAGT-GAATTGAGAAT
34798880 ACGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.24
Consensus pattern (17 bp):
AAAGTGAATTGAGAATC
Found at i:34811737 original size:31 final size:29
Alignment explanation
Indices: 34811681--34811739 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
34811671 TACTGAATAA
*
34811681 AATTGCACAAAATCAAAATTTATGTATAC
1 AATTGCACAAAATCAAAATTCATGTATAC
* *
34811710 AATTGCACATACAATCATAGTTCATGTATA
1 AATTGCACA-A-AATCAAAATTCATGTATA
34811740 GTTTTGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.36
30 1 0.04
31 15 0.60
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.32
Consensus pattern (29 bp):
AATTGCACAAAATCAAAATTCATGTATAC
Found at i:34814862 original size:22 final size:23
Alignment explanation
Indices: 34814836--34814880 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
34814826 AAATATAAAA
34814836 ATATAATTTTAT-ATT-AATATTT
1 ATAT-ATTTTATAATTAAATATTT
*
34814858 ATATATTTTGTAATTAAATATTT
1 ATATATTTTATAATTAAATATTT
34814881 TTAAATTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 7 0.35
23 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
ATATATTTTATAATTAAATATTT
Found at i:34815009 original size:57 final size:57
Alignment explanation
Indices: 34814930--34815054 Score: 250
Period size: 57 Copynumber: 2.2 Consensus size: 57
34814920 AATTTGGATC
34814930 AAGTCAATTAGTCTAAGGACAAATAAAAAAAGATTTCAAGCTCAACTCGGATCAGGT
1 AAGTCAATTAGTCTAAGGACAAATAAAAAAAGATTTCAAGCTCAACTCGGATCAGGT
34814987 AAGTCAATTAGTCTAAGGACAAATAAAAAAAGATTTCAAGCTCAACTCGGATCAGGT
1 AAGTCAATTAGTCTAAGGACAAATAAAAAAAGATTTCAAGCTCAACTCGGATCAGGT
34815044 AAGTCAATTAG
1 AAGTCAATTAG
34815055 CTCATGAATA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 68 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (57 bp):
AAGTCAATTAGTCTAAGGACAAATAAAAAAAGATTTCAAGCTCAACTCGGATCAGGT
Found at i:34821538 original size:39 final size:39
Alignment explanation
Indices: 34821479--34821593 Score: 158
Period size: 39 Copynumber: 2.9 Consensus size: 39
34821469 GTTCATCGCT
*
34821479 AGTTCAGTATAGCATTGCAGTGTTTACAGTGTCACTACC
1 AGTTCAGTATAGCATCGCAGTGTTTACAGTGTCACTACC
* *
34821518 AGTTCAGTATAGCATCGCAGTGTTTACAGTGTCACTGCT
1 AGTTCAGTATAGCATCGCAGTGTTTACAGTGTCACTACC
** * *
34821557 AGTTCAGTATAGGTGTCGCGGTATTTACAGTGTCACT
1 AGTTCAGTATA-GCATCGCAGTGTTTACAGTGTCACT
34821594 GCCAATCAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
39 47 0.69
40 21 0.31
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (39 bp):
AGTTCAGTATAGCATCGCAGTGTTTACAGTGTCACTACC
Found at i:34822033 original size:73 final size:73
Alignment explanation
Indices: 34821877--34822060 Score: 178
Period size: 73 Copynumber: 2.5 Consensus size: 73
34821867 CGACCATACC
* **
34821877 CACAC-CC-GTGTGTCCAGCCCGTGTAAGTCACTATTTCTAATTCCACAAAACAGAATATCTGCA
1 CACACGCCTGTGTGTCCAGCCCGTGTAACTCACTATTTCTAATTCCACAAAACAGAATATCCACA
*
34821940 CGGTCTAA
66 CGATCTAA
* * ** *
34821948 CACACGCCTGTGTGTCCAGCCCCGTGTAACTCACTGTTTCTGATT-CACTGAATAGAAT-TCCCA
1 CACACGCCTGTGTGTCCAG-CCCGTGTAACTCACTATTTCTAATTCCACAAAACAGAATAT-CCA
*
34822011 CACGATCTAG
64 CACGATCTAA
* * * * * *
34822021 CATACGCTTGTGTGCCCAACCCGTGTAACTTATTATTTCT
1 CACACGCCTGTGTGTCCAGCCCGTGTAACTCACTATTTCT
34822061 TATTTATATG
Statistics
Matches: 92, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
71 5 0.05
72 21 0.23
73 44 0.48
74 22 0.24
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (73 bp):
CACACGCCTGTGTGTCCAGCCCGTGTAACTCACTATTTCTAATTCCACAAAACAGAATATCCACA
CGATCTAA
Found at i:34828166 original size:51 final size:51
Alignment explanation
Indices: 34828081--34828317 Score: 357
Period size: 51 Copynumber: 4.6 Consensus size: 51
34828071 GCTATAAACG
* *
34828081 AAAGAGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCTTTTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
*
34828133 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGGTT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
34828184 AAAGGTCCGATGACTAAGTTTCATGGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * * *
34828235 AAAGGTCCAATGACTAAGTGTCATCGTGAGTAAATGAATCCATGATGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
34828286 AAAGGTCCGATGACTCAGTGTTATCGTGAGTA
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTA
34828318 TATAAATTTT
Statistics
Matches: 169, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
51 165 0.98
52 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:34830642 original size:39 final size:39
Alignment explanation
Indices: 34830599--34830721 Score: 110
Period size: 39 Copynumber: 3.2 Consensus size: 39
34830589 ACTATTACAA
*
34830599 TATAGTCTTACGATGTTTACAGTGTCATCGCCAATTTAG
1 TATAGTCTTACGATGTTTACAGTGTCATCGCCAGTTTAG
* * *
34830638 TATAGTATTGC-AGTGTTTACAGTGTCA-CTGCCAGTTCAG
1 TATAGTCTTACGA-TGTTTACAGTGTCATC-GCCAGTTTAG
* * * *
34830677 TATAGTATCATA-G-TTTTTACAGTGTCATTGCTAGTTTAG
1 TATAG--TCTTACGATGTTTACAGTGTCATCGCCAGTTTAG
34830716 TATAGT
1 TATAGT
34830722 ATCGCAGTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
37 1 0.01
38 2 0.03
39 62 0.93
41 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.41
Consensus pattern (39 bp):
TATAGTCTTACGATGTTTACAGTGTCATCGCCAGTTTAG
Found at i:34830681 original size:78 final size:78
Alignment explanation
Indices: 34830571--34830821 Score: 226
Period size: 78 Copynumber: 3.2 Consensus size: 78
34830561 ATGCTTTAGT
** * *
34830571 AGTGTTTACAGTGTCGTTACTA-TTACAATATAGTCTTACGATGTTTACAGTGTCATCGCCAATT
1 AGTGTTTACAGTGTCACTACCAGTT-CAATATAGTCTTACGATGTTTACAGTGTCATTGCCAATT
*
34830635 TAGTATAGTATTGC
65 TAGTATAGTATCGC
* * * * * *
34830649 AGTGTTTACAGTGTCACTGCCAGTTCAGTATAGTATCATA-G-TTTTTACAGTGTCATTGCTAGT
1 AGTGTTTACAGTGTCACTACCAGTTCAATATAG--TCTTACGATGTTTACAGTGTCATTGCCAAT
34830712 TTAGTATAGTATCGC
64 TTAGTATAGTATCGC
* * *
34830727 AGTGTTTATAGTGTCACTACTAGTTTAATATAGT-TGTCAC-AGTGTTTACAGTGTCATTGCCAA
1 AGTGTTTACAGTGTCACTACCAGTTCAATATAGTCT-T-ACGA-TGTTTACAGTGTCATTGCCAA
* ** *
34830790 -TCAGTAGGGGTGTCGC
63 TTTAGTA-TAGTATCGC
*
34830806 AGTGTTTCCAGTGTCA
1 AGTGTTTACAGTGTCA
34830822 TTGTCAGCTC
Statistics
Matches: 138, Mismatches: 26, Indels: 17
0.76 0.14 0.09
Matches are distributed among these distances:
76 2 0.01
77 1 0.01
78 90 0.65
79 41 0.30
80 4 0.03
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (78 bp):
AGTGTTTACAGTGTCACTACCAGTTCAATATAGTCTTACGATGTTTACAGTGTCATTGCCAATTT
AGTATAGTATCGC
Found at i:34830722 original size:39 final size:39
Alignment explanation
Indices: 34830612--34830788 Score: 201
Period size: 39 Copynumber: 4.5 Consensus size: 39
34830602 AGTCTTACGA
* * **
34830612 TGTTTACAGTGTCATCGCCAATTTAGTATAGTATTGCAG
1 TGTTTACAGTGTCATTGCCAGTTTAGTATAGTATCACAG
* * *
34830651 TGTTTACAGTGTCACTGCCAGTTCAGTATAGTATCATAG
1 TGTTTACAGTGTCATTGCCAGTTTAGTATAGTATCACAG
* * *
34830690 TTTTTACAGTGTCATTGCTAGTTTAGTATAGTATCGCAG
1 TGTTTACAGTGTCATTGCCAGTTTAGTATAGTATCACAG
* * * * * *
34830729 TGTTTATAGTGTCACTACTAGTTTAATATAGTTGTCACAG
1 TGTTTACAGTGTCATTGCCAGTTTAGTATAG-TATCACAG
34830769 TGTTTACAGTGTCATTGCCA
1 TGTTTACAGTGTCATTGCCA
34830789 ATCAGTAGGG
Statistics
Matches: 113, Mismatches: 24, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
39 91 0.81
40 22 0.19
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (39 bp):
TGTTTACAGTGTCATTGCCAGTTTAGTATAGTATCACAG
Found at i:34831213 original size:73 final size:73
Alignment explanation
Indices: 34831061--34831231 Score: 173
Period size: 73 Copynumber: 2.3 Consensus size: 73
34831051 ATACTCACGT
* * * *
34831061 CCGTGTGTCCAGTCTGTGTAACTCACTGTTTCTAATTCCATAAAACAGAATATCCACACGGTCTA
1 CCGTGTGTCCAGACCGTGTAACTCACTATTTCTAATTCCACAAAACAGAATATCCACACGGTCTA
* *
34831126 GCATAAGC
66 ACACAAGC
* * * * ** *
34831134 CCGTGTGTCCAGCCCATGTAACTCACTATTTCTTATTTCACCGAACAGAAT-TCCCACATGGTCT
1 CCGTGTGTCCAGACCGTGTAACTCACTATTTCTAATTCCACAAAACAGAATAT-CCACACGGTCT
*
34831198 AACACACGC
65 AACACAAGC
* * *
34831207 CTGTGTGCCCTGACCGTGTAACTCA
1 CCGTGTGTCCAGACCGTGTAACTCA
34831232 TTGTTTATTA
Statistics
Matches: 79, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
72 1 0.01
73 78 0.99
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (73 bp):
CCGTGTGTCCAGACCGTGTAACTCACTATTTCTAATTCCACAAAACAGAATATCCACACGGTCTA
ACACAAGC
Found at i:34832272 original size:24 final size:24
Alignment explanation
Indices: 34832221--34832278 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
34832211 TTCTTAATAT
**
34832221 AATTATTTTATATTAACTTATATTA
1 AATT-TTTTATATTAAAATATATTA
34832246 AATTTTTTATATTAAAATAT-TTCA
1 AATTTTTTATATTAAAATATATT-A
34832270 AATATTTTT
1 AAT-TTTTT
34832279 TTATATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 2 0.07
24 18 0.62
25 9 0.31
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (24 bp):
AATTTTTTATATTAAAATATATTA
Found at i:34833660 original size:41 final size:41
Alignment explanation
Indices: 34833603--34833711 Score: 105
Period size: 40 Copynumber: 2.7 Consensus size: 41
34833593 GTTGGTATTT
* * *
34833603 AATTAATTTTTTAAAATTTAAAAAATTCAAAATAA-ATTATA
1 AATTTATTTTTAAAAATTTAAAAAATTCAAAA-AATATTAAA
** *
34833644 AATTTATTTTTAAAAA-TTAAAATTTTTAAAAAATATTAAA
1 AATTTATTTTTAAAAATTTAAAAAATTCAAAAAATATTAAA
** *
34833684 AAAATATTTTTAAATATTTTAAAAAATT
1 AATTTATTTTTAAA-AATTTAAAAAATT
34833712 AATTAAATGC
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.04
40 29 0.54
41 15 0.28
42 8 0.15
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (41 bp):
AATTTATTTTTAAAAATTTAAAAAATTCAAAAAATATTAAA
Found at i:34833705 original size:23 final size:24
Alignment explanation
Indices: 34833651--34833709 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
34833641 ATAAATTTAT
34833651 TTTTAAAAATTAAAATTTTTAAAAAA
1 TTTTAAAAA--AAAATTTTTAAAAAA
* * *
34833677 TATTAAAAAAATATTTTT-AAATA
1 TTTTAAAAAAAAATTTTTAAAAAA
34833700 TTTTAAAAAA
1 TTTTAAAAAA
34833710 TTAATTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 13 0.45
24 8 0.28
26 8 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTTAAAAAAAAATTTTTAAAAAA
Found at i:34833995 original size:24 final size:24
Alignment explanation
Indices: 34833945--34833996 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
34833935 TTTTTAGAAG
* *
34833945 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGCAAAATAT
*
34833969 ATTTAGTATTTATTAGCAAAATTT
1 ATTTAGTATTTATTAGCAAAATAT
34833993 ATTT
1 ATTT
34833997 GACTTACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCAAAATAT
Found at i:34836060 original size:6 final size:7
Alignment explanation
Indices: 34836033--34836059 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
34836023 TATTTTGAGG
34836033 GTTTTTT
1 GTTTTTT
34836040 GTTTTTT
1 GTTTTTT
34836047 GTTTTTT
1 GTTTTTT
34836054 GTTTTT
1 GTTTTT
34836060 GGGTTTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (7 bp):
GTTTTTT
Found at i:34836482 original size:17 final size:17
Alignment explanation
Indices: 34836447--34836550 Score: 104
Period size: 17 Copynumber: 6.2 Consensus size: 17
34836437 CAATGAGATA
*
34836447 TAAATTTTTTTTAAA-T
1 TAAATTTATTTTAAATT
*
34836463 TAAATTTATTTTGAATT
1 TAAATTTATTTTAAATT
** *
34836480 TAAATTTACATAAAATT
1 TAAATTTATTTTAAATT
*
34836497 TAAATTTATTTTGAATT
1 TAAATTTATTTTAAATT
** *
34836514 TAAATTTACATAAAATT
1 TAAATTTATTTTAAATT
*
34836531 TAAATTTATTAT-AATT
1 TAAATTTATTTTAAATT
34836547 TAAA
1 TAAA
34836551 ATGTCCAAAG
Statistics
Matches: 69, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
16 21 0.30
17 48 0.70
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:34836487 original size:6 final size:6
Alignment explanation
Indices: 34836456--34836538 Score: 59
Period size: 6 Copynumber: 14.7 Consensus size: 6
34836446 ATAAATTTTT
* * * *
34836456 TTTAAA -TTAAA TTT-AT TTTGAA TTTAAA TTTACA -TAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
34836501 TTT-AT TTTGAA TTTAAA TTTACA -TAAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
34836539 TTATAATTTA
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
5 19 0.33
6 39 0.67
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:34836505 original size:34 final size:34
Alignment explanation
Indices: 34836462--34836550 Score: 162
Period size: 34 Copynumber: 2.6 Consensus size: 34
34836452 TTTTTTTAAA
34836462 TTAAATTTATTTTGAATTTAAATTTACATAAAAT
1 TTAAATTTATTTTGAATTTAAATTTACATAAAAT
34836496 TTAAATTTATTTTGAATTTAAATTTACATAAAAT
1 TTAAATTTATTTTGAATTTAAATTTACATAAAAT
*
34836530 TTAAATTTATTAT-AATTTAAA
1 TTAAATTTATTTTGAATTTAAA
34836551 ATGTCCAAAG
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 8 0.15
34 46 0.85
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (34 bp):
TTAAATTTATTTTGAATTTAAATTTACATAAAAT
Found at i:34836807 original size:25 final size:25
Alignment explanation
Indices: 34836779--34836841 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
34836769 AGCAAGTTGC
* * *
34836779 CTCTGCCACCACCGGCTCTAAACCG
1 CTCTGCCACCACCGACTCCAAACCA
* *
34836804 CTCTGCCACTACCGACTCCAAACTA
1 CTCTGCCACCACCGACTCCAAACCA
34836829 CTCTGCCACCACC
1 CTCTGCCACCACC
34836842 ACTGCTACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.22, C:0.49, G:0.11, T:0.17
Consensus pattern (25 bp):
CTCTGCCACCACCGACTCCAAACCA
Found at i:34838633 original size:59 final size:59
Alignment explanation
Indices: 34838522--34838680 Score: 196
Period size: 59 Copynumber: 2.7 Consensus size: 59
34838512 CTCTTTAGGT
* * *
34838522 CCCT-AAACTATCCAAAAATTATATTTTGACCCTAAAACTTTTTGAAAATTACATTTTGA
1 CCCTCAAACT-TCCCAAAATTATATTTTGACCCTCAAACTTTTTAAAAATTACATTTTGA
* * * *
34838581 CTCTCGAGCTTCTCCAAAATTATATTTTGACCC-CAAACTTTTTAAAAATTACATTTTTA
1 CCCTCAAACTTC-CCAAAATTATATTTTGACCCTCAAACTTTTTAAAAATTACATTTTGA
* * *
34838640 CCCTCAAACTTCCCAAAATTACATTTTTACCCTCGAACTTT
1 CCCTCAAACTTCCCAAAATTATATTTTGACCCTCAAACTTT
34838681 CCAAAATTCC
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
58 18 0.21
59 44 0.52
60 22 0.26
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (59 bp):
CCCTCAAACTTCCCAAAATTATATTTTGACCCTCAAACTTTTTAAAAATTACATTTTGA
Found at i:34838687 original size:58 final size:59
Alignment explanation
Indices: 34838566--34838910 Score: 282
Period size: 58 Copynumber: 5.9 Consensus size: 59
34838556 AAACTTTTTG
* * * * * **
34838566 AAAATTACA-TTTTGACTCTCGAGCTTCTCCAAAATTA-TATTTTGACCC-CAAACTTTTTA
1 AAAATTCCATTTTTGACCCTC-AACTTCACCAAAATTACCATTTT-ACCCTCAAAC-TTTCC
* *
34838625 AAAATTACATTTTT-ACCCTCAAACTTC-CCAAAATTA-CATTTTTACCCTCGAACTTTCC
1 AAAATTCCATTTTTGACCCTC-AACTTCACCAAAATTACCA-TTTTACCCTCAAACTTTCC
* * *
34838683 AAAATTCCATTTTTGA-CCTCGATTTCACCAATAATTACCATTTTA-CCTCGAACTTTCC
1 AAAATTCCATTTTTGACCCTCAACTTCACCAA-AATTACCATTTTACCCTCAAACTTTCC
** * * * * *
34838741 AAAATTTTATTTTTGA-CCTCGATTTCACCAAAAATTACCATTTTACTC-CGAACTATCC
1 AAAATTCCATTTTTGACCCTCAACTTCACC-AAAATTACCATTTTACCCTCAAACTTTCC
* * * *
34838799 AAAATTCCATTTTTGACCC-CGATTTCATCAAAAATTACCATTTTACCCTCAAACTTTCT
1 AAAATTCCATTTTTGACCCTCAACTTCA-CCAAAATTACCATTTTACCCTCAAACTTTCC
* * * *
34838858 AAAATTCCATTTTTAACCC-CGATTTCACCAAAAATTACCATTTTACCCCCAAA
1 AAAATTCCATTTTTGACCCTCAACTTCACC-AAAATTACCATTTTACCCTCAAA
34838911 AGTCTAAAAT
Statistics
Matches: 249, Mismatches: 24, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
57 4 0.02
58 140 0.56
59 99 0.40
60 6 0.02
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (59 bp):
AAAATTCCATTTTTGACCCTCAACTTCACCAAAATTACCATTTTACCCTCAAACTTTCC
Found at i:34838727 original size:59 final size:59
Alignment explanation
Indices: 34838654--34838905 Score: 375
Period size: 58 Copynumber: 4.3 Consensus size: 59
34838644 CAAACTTCCC
*
34838654 AAAATTA-CATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTCGATTTCACCA
1 AAAATTACCA-TTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCA
* ** *
34838713 ATAATTACCATTTTA-CCTCGAACTTTCCAAAATTTTATTTTTGACCTCGATTTCACCA
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCA
* * *
34838771 AAAATTACCATTTTACTC-CGAACTATCCAAAATTCCATTTTTGACCCCGATTTCATCA
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCA
* * *
34838829 AAAATTACCATTTTACCCTCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCA
34838888 AAAATTACCATTTTACCC
1 AAAATTACCATTTTACCC
34838906 CCAAAAGTCT
Statistics
Matches: 174, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
58 107 0.61
59 65 0.37
60 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (59 bp):
AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCA
Found at i:34838759 original size:29 final size:29
Alignment explanation
Indices: 34838566--34838871 Score: 169
Period size: 29 Copynumber: 10.5 Consensus size: 29
34838556 AAACTTTTTG
*
34838566 AAAATTACA-TTTTGACTCTCGAGCTTCTCC
1 AAAATTACATTTTTGAC-CTCGAACTT-TCC
* * * **
34838596 AAAATTATA-TTTTGACCCCAAACTTTTTA
1 AAAATTACATTTTTGACCTCGAAC-TTTCC
* *
34838625 AAAATTACATTTTT-ACCCTCAAACTTCCC
1 AAAATTACATTTTTGA-CCTCGAACTTTCC
34838654 AAAATTACATTTTT-ACCCTCGAACTTTCC
1 AAAATTACATTTTTGA-CCTCGAACTTTCC
*
34838683 AAAATTCCATTTTTGACCTCG-A-TTTCACC
1 AAAATTACATTTTTGACCTCGAACTTT--CC
34838712 AATAATTACCA-TTTT-ACCTCGAACTTTCC
1 AA-AATTA-CATTTTTGACCTCGAACTTTCC
**
34838741 AAAATTTTATTTTTGACCTCG-A-TTTCACC
1 AAAATTACATTTTTGACCTCGAACTTT--CC
*
34838770 AAAAATTACCA-TTTT-A-CTCCGAACTATCC
1 -AAAATTA-CATTTTTGACCT-CGAACTTTCC
* *
34838799 AAAATTCCATTTTTGACCCCG-A-TTTCATC
1 AAAATTACATTTTTGACCTCGAACTTTC--C
* *
34838828 AAAAATTACCA-TTTT-ACCCTCAAACTTTCT
1 -AAAATTA-CATTTTTGA-CCTCGAACTTTCC
*
34838858 AAAATTCCATTTTT
1 AAAATTACATTTTT
34838872 AACCCCGATT
Statistics
Matches: 218, Mismatches: 28, Indels: 61
0.71 0.09 0.20
Matches are distributed among these distances:
27 12 0.06
28 25 0.11
29 103 0.47
30 63 0.29
31 11 0.05
32 4 0.02
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.38
Consensus pattern (29 bp):
AAAATTACATTTTTGACCTCGAACTTTCC
Found at i:34838872 original size:29 final size:29
Alignment explanation
Indices: 34838522--34838872 Score: 140
Period size: 29 Copynumber: 12.0 Consensus size: 29
34838512 CTCTTTAGGT
* ** *
34838522 CCCT-AAACTATCCAAAAATTATATTTTGA
1 CCCTCAAACTTTCC-AAAATTCCATTTTTA
* ** * *
34838551 CCCTAAAACTTTTTGAAAATTACATTTTGA
1 CCCTCAAAC-TTTCCAAAATTCCATTTTTA
* * * ** *
34838581 CTCTCGAGCTTCTCCAAAATTATATTTTGA
1 CCCTCAAACTT-TCCAAAATTCCATTTTTA
** *
34838611 CCC-CAAACTTTTTAAAAATTACATTTTTA
1 CCCTCAAAC-TTTCCAAAATTCCATTTTTA
* *
34838640 CCCTCAAACTTCCCAAAATTACATTTTTA
1 CCCTCAAACTTTCCAAAATTCCATTTTTA
*
34838669 CCCTCGAACTTTCCAAAATTCCATTTTTGA
1 CCCTCAAACTTTCCAAAATTCCATTTTT-A
*
34838699 -CCTC-GA-TTTCACCAATAATTACCA-TTTTA
1 CCCTCAAACTTT--CCAA-AATT-CCATTTTTA
* **
34838728 -CCTCGAACTTTCCAAAATTTTATTTTTGA
1 CCCTCAAACTTTCCAAAATTCCATTTTT-A
*
34838757 -CCTC-GA-TTTCACCAAAAATTACCA-TTTTA
1 CCCTCAAACTTT--CC-AAAATT-CCATTTTTA
* * *
34838786 CTC-CGAACTATCCAAAATTCCATTTTTGA
1 CCCTCAAACTTTCCAAAATTCCATTTTT-A
*
34838815 CCC-C-GA-TTTCATCAAAAATTACCA-TTTTA
1 CCCTCAAACTTTC--C-AAAATT-CCATTTTTA
*
34838844 CCCTCAAACTTTCTAAAATTCCATTTTTA
1 CCCTCAAACTTTCCAAAATTCCATTTTTA
34838873 ACCCCGATTT
Statistics
Matches: 252, Mismatches: 39, Indels: 62
0.71 0.11 0.18
Matches are distributed among these distances:
27 13 0.05
28 24 0.10
29 116 0.46
30 80 0.32
31 15 0.06
32 4 0.02
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (29 bp):
CCCTCAAACTTTCCAAAATTCCATTTTTA
Found at i:34838890 original size:29 final size:27
Alignment explanation
Indices: 34838625--34838906 Score: 128
Period size: 29 Copynumber: 9.7 Consensus size: 27
34838615 AAACTTTTTA
* * * *
34838625 AAAATTACATTTTTACCCTCAAACTTCCC
1 AAAATTCCATTTTTACCC-C-GATTTACC
*
34838654 AAAATTACATTTTTACCCTCGAACTTT-CC
1 AAAATTCCATTTTTACCC-CG-A-TTTACC
*
34838683 AAAATTCCATTTTTGACCTCGATTTCACC
1 AAAATTCCATTTTT-ACCCCGATTT-ACC
*
34838712 AATAATTACCA-TTTTACCTCGAACTTT-CC
1 AA-AATT-CCATTTTTACCCCG-A-TTTACC
** *
34838741 AAAATTTTATTTTTGACCTCGATTTCACC
1 AAAATTCCATTTTT-ACCCCGATTT-ACC
* **
34838770 AAAAATTACCA-TTTTACTCCGAACTATCC
1 -AAAATT-CCATTTTTACCCCGATTTA-CC
*
34838799 AAAATTCCATTTTTGACCCCGATTTCATCA
1 AAAATTCCATTTTT-ACCCCGATTT-A-CC
* *
34838829 AAAATTACCA-TTTTACCCTCAAACTTT-CT
1 AAAATT-CCATTTTTACCC-C-GA-TTTACC
34838858 AAAATTCCATTTTTAACCCCGATTTCACC
1 AAAATTCCATTTTT-ACCCCGATTT-ACC
34838887 AAAAATTACCA-TTTTACCCC
1 -AAAATT-CCATTTTTACCCC
34838907 CAAAAGTCTA
Statistics
Matches: 204, Mismatches: 20, Indels: 58
0.72 0.07 0.21
Matches are distributed among these distances:
27 13 0.06
28 25 0.12
29 97 0.48
30 52 0.25
31 14 0.07
32 3 0.01
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.37
Consensus pattern (27 bp):
AAAATTCCATTTTTACCCCGATTTACC
Found at i:34838930 original size:117 final size:116
Alignment explanation
Indices: 34838654--34838929 Score: 349
Period size: 117 Copynumber: 2.4 Consensus size: 116
34838644 CAAACTTCCC
* ** * *
34838654 AAAATTA-CATTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTCGATTTCACCAATAAT
1 AAAATTACCA-TTTTACCC-CCAACAATCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAAT
* ** * *
34838718 TACCATTTTACCTCGAACTTTCCAAAATTTTATTTTTGACCTCGATTTCACCA
64 TACCATTTTACCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * * *
34838771 AAAATTACCATTTTACTCCGAACTATCCAAAATTCCATTTTTGACCCCGATTTCATCAAAAATTA
1 AAAATTACCATTTTACCCCCAACAATCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTA
*
34838836 CCATTTTACCCTCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
66 CCATTTTA-CCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
*
34838888 AAAATTACCATTTTACCCCCAA-AAGTCTAAAATTACCATTTT
1 AAAATTACCATTTTACCCCCAACAA-TCCAAAATT-CCATTTT
34838930 GCCCTCGGGT
Statistics
Matches: 140, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
116 52 0.37
117 79 0.56
118 9 0.06
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (116 bp):
AAAATTACCATTTTACCCCCAACAATCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTA
CCATTTTACCTCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:34848930 original size:30 final size:30
Alignment explanation
Indices: 34848816--34848936 Score: 106
Period size: 30 Copynumber: 4.1 Consensus size: 30
34848806 CTGTTTAGGT
* * *
34848816 CCCT-AAACTATCTAAAATTTATATTTTGA
1 CCCTAAAACTTTCTAAAAATTATATTTTAA
* * *
34848845 CCCTAAAACTTTTTGAAAATTACATTTTAA
1 CCCTAAAACTTTCTAAAAATTATATTTTAA
** *
34848875 -CCTCCGAGC-TTCTCAAAAA-TATATTTTAA
1 CCCT-AAAACTTTCT-AAAAATTATATTTTAA
*
34848904 CCCTAAAACTTTCTAAAAATTATATTTTTA
1 CCCTAAAACTTTCTAAAAATTATATTTTAA
34848934 CCC
1 CCC
34848937 CCTAAACTTC
Statistics
Matches: 70, Mismatches: 16, Indels: 11
0.72 0.16 0.11
Matches are distributed among these distances:
29 26 0.37
30 44 0.63
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (30 bp):
CCCTAAAACTTTCTAAAAATTATATTTTAA
Found at i:34848953 original size:59 final size:59
Alignment explanation
Indices: 34848835--34848966 Score: 147
Period size: 59 Copynumber: 2.2 Consensus size: 59
34848825 ATCTAAAATT
* * * * * * *
34848835 TATATTTTGACCCTAAAACTTTTTGAAAATTACATTTTAACCTCCGAGCTTCTCAAAAA
1 TATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTAACCCCCAAACTTCACAAAAA
* * *
34848894 TATATTTTAACCCTAAAACTTTCTAAAAATTATATTTTTACCCCCTAAACTTCACAAAAT
1 TATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTAACCCCC-AAACTTCACAAAAA
* *
34848954 TACATTTTTACCC
1 TATATTTTAACCC
34848967 CCGAACTTTC
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
59 39 0.65
60 21 0.35
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (59 bp):
TATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTAACCCCCAAACTTCACAAAAA
Found at i:34848973 original size:29 final size:29
Alignment explanation
Indices: 34848860--34849057 Score: 104
Period size: 30 Copynumber: 6.8 Consensus size: 29
34848850 AAACTTTTTG
* * * *
34848860 AAAATTACATTTTAACCTCCGAGCTTCTC
1 AAAATTACATTTTTACCCCCGAACTTCAC
* * * ***
34848889 AAAAATATATTTTAACCCTAAAACTTTCTA-
1 AAAATTACATTTTTACCCCCGAAC-TTC-AC
* *
34848919 AAAATTATATTTTTACCCCCTAAACTTCAC
1 AAAATTACATTTTTACCCCC-GAACTTCAC
34848949 AAAATTACATTTTTACCCCCGAACTTTC-C
1 AAAATTACATTTTTACCCCCGAAC-TTCAC
* *
34848978 AAAATTCCATTTTTGA-CCTCG-ACTTCACC
1 AAAATTACATTTTT-ACCCCCGAACTTCA-C
* *
34849007 AAAAATTAGCA-TTTTA-CCCCGAAGTTTC-T
1 -AAAATTA-CATTTTTACCCCCGAA-CTTCAC
* *
34849036 AAAATTCCATTTTTAACCCCGA
1 AAAATTACATTTTTACCCCCGA
34849058 TTTTACCAAA
Statistics
Matches: 134, Mismatches: 21, Indels: 28
0.73 0.11 0.15
Matches are distributed among these distances:
27 5 0.04
28 13 0.10
29 51 0.38
30 56 0.42
31 9 0.07
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTTACCCCCGAACTTCAC
Found at i:34849041 original size:58 final size:57
Alignment explanation
Indices: 34848949--34849256 Score: 375
Period size: 58 Copynumber: 5.2 Consensus size: 57
34848939 TAAACTTCAC
*
34848949 AAAATTA-CATTTTTACCCCCGAACTTTCCAAAATTCCATTTTTGACCTCGACTTCACCA
1 AAAATTACCA-TTTTA-CCCCGAACTTTCCAAAATTCCATTTTTGACC-CGATTTCACCA
* * * * *
34849008 AAAATTAGCATTTTACCCCGAAGTTTCTAAAATTCCATTTTTAACCCCGATTTTACCA
1 AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTGA-CCCGATTTCACCA
* * * * *
34849066 AAAAATATCATTTTACCCCAAACTTTCCAAAATTCCATTTTTGACCCTAATTTTACCA
1 AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTGACCC-GATTTCACCA
*
34849124 AAATTTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTGACACCGATTTCACCAA
1 AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTGAC-CCGATTTCACC-A
* * * *
34849183 AAAATTACCATTTTTACCCCTAAACTTTCCAAAATTCCAATTTTGACCTTGATTTTACCA
1 AAAATTACCA-TTTTACCCC-GAACTTTCCAAAATTCCATTTTTGACC-CGATTTCACCA
34849243 AAAATTACCATTTT
1 AAAATTACCATTTT
34849257 GCCCTTGAAA
Statistics
Matches: 218, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
57 3 0.01
58 130 0.60
59 30 0.14
60 23 0.11
61 32 0.15
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.36
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTGACCCGATTTCACCA
Found at i:34849068 original size:29 final size:27
Alignment explanation
Indices: 34848948--34849226 Score: 163
Period size: 29 Copynumber: 9.6 Consensus size: 27
34848938 CTAAACTTCA
*
34848948 CAAAATTACATTTTTACCCCCGAACTTTC
1 CAAAATTCCATTTTTA-CCCCG-ACTTTC
* *
34848977 CAAAATTCCATTTTTGACCTCGACTTCAC
1 CAAAATTCCATTTTT-ACCCCGACTT-TC
* *
34849006 CAAAAATTAGCA-TTTTACCCCGAAGTTTC
1 C-AAAATT-CCATTTTTACCCCG-ACTTTC
* *
34849035 TAAAATTCCATTTTTAACCCCGATTTTAC
1 CAAAATTCCATTTTT-ACCCCGACTTT-C
*
34849064 CAAAAAATAT-CA-TTTTACCCCAAACTTTC
1 C--AAAAT-TCCATTTTTACCCC-GACTTTC
** *
34849093 CAAAATTCCATTTTTGACCCTAATTTTAC
1 CAAAATTCCATTTTT-ACCCCGACTTT-C
34849122 CAAAATTTACCA-TTTTACCCCGAACTTTC
1 CAAAA-TT-CCATTTTTACCCCG-ACTTTC
*
34849151 CAAAATTCCATTTTTGACACCGA-TTTCAC
1 CAAAATTCCATTTTT-ACCCCGACTTT--C
*
34849180 CAAAAAATTACCATTTTTACCCCTAAACTTTC
1 C--AAAATT-CCATTTTTACCCC--GACTTTC
*
34849212 CAAAATTCCAATTTT
1 CAAAATTCCATTTTT
34849227 GACCTTGATT
Statistics
Matches: 199, Mismatches: 22, Indels: 58
0.71 0.08 0.21
Matches are distributed among these distances:
26 1 0.01
27 15 0.08
28 34 0.17
29 74 0.37
30 38 0.19
31 22 0.11
32 11 0.06
33 1 0.01
34 3 0.02
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.35
Consensus pattern (27 bp):
CAAAATTCCATTTTTACCCCGACTTTC
Found at i:34849124 original size:116 final size:118
Alignment explanation
Indices: 34848949--34849256 Score: 435
Period size: 116 Copynumber: 2.6 Consensus size: 118
34848939 TAAACTTCAC
* * *
34848949 AAAATTA-CATTTTTACCCCCGAACTTTCCAAAATTCCATTTTTGA-CCTCGACTTCACCAAAAA
1 AAAATTACCATTTTTA-CCCCAAACTTTCCAAAATTCCATTTTTGACCCT-GATTTTACCAAAAA
* * * * *
34849012 TTAGCATTTTACCCCGAAGTTTCTAAAATTCCATTTTTAACCCCGATTTTACCAA
64 TTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACACCGATTTCACCAA
* * *
34849067 AAAA-TATCA-TTTTACCCCAAACTTTCCAAAATTCCATTTTTGACCCTAATTTTACCAAAATTT
1 AAAATTACCATTTTTACCCCAAACTTTCCAAAATTCCATTTTTGACCCTGATTTTACCAAAAATT
*
34849130 ACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTGACACCGATTTCACCAA
66 ACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACACCGATTTCACCAA
* *
34849183 AAAATTACCATTTTTACCCCTAAACTTTCCAAAATTCCAATTTTGACCTTGATTTTACCAAAAAT
1 AAAATTACCATTTTTACCCC-AAACTTTCCAAAATTCCATTTTTGACCCTGATTTTACCAAAAAT
34849248 TACCATTTT
65 TACCATTTT
34849257 GCCCTTGAAA
Statistics
Matches: 169, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
116 91 0.54
117 14 0.08
118 15 0.09
119 49 0.29
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.36
Consensus pattern (118 bp):
AAAATTACCATTTTTACCCCAAACTTTCCAAAATTCCATTTTTGACCCTGATTTTACCAAAAATT
ACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACACCGATTTCACCAA
Found at i:34855438 original size:29 final size:27
Alignment explanation
Indices: 34855406--34855520 Score: 113
Period size: 29 Copynumber: 4.0 Consensus size: 27
34855396 GCTCTAGGGT
*
34855406 AAAATGGTGATTTTTGGAAGTTCGAGGC
1 AAAAT-GTAATTTTTGGAAGTTCGAGGC
*
34855434 AAAAATGTAATTTTTGGAAAGTTCGGGGGTC
1 -AAAATGTAATTTTTGG-AAGTTC-GAGG-C
* * *
34855465 AAAATGTAATTTTTGGAAGTTTAGGGGTG
1 AAAATGTAATTTTTGGAAG-TTCGAGG-C
34855494 AAAATGTAATTTTTGAGAAGTTCGAGG
1 AAAATGTAATTTTTG-GAAGTTCGAGG
34855521 GTAAAAAGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.13
29 39 0.52
30 25 0.33
31 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (27 bp):
AAAATGTAATTTTTGGAAGTTCGAGGC
Found at i:34855471 original size:30 final size:30
Alignment explanation
Indices: 34855435--34855750 Score: 297
Period size: 30 Copynumber: 10.6 Consensus size: 30
34855425 GTTCGAGGCA
**
34855435 AAAATGTAATTTTTGGAAAGTTCGGGGGTC
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTC
*
34855465 AAAATGTAATTTTTGG-AAGTTTAGGGGTG
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTC
*
34855494 AAAATGTAATTTTT-GAGAAG-TTCGAGGGT-
1 AAAATGTAATTTTTGGA-AAGTTTAG-GGGTC
* * ** *
34855523 AAAAAGTAA-TATAAGAAACTTTTAGGGGTC
1 AAAATGTAATTTTTGGAAA-GTTTAGGGGTC
*
34855553 AAAATGTAATTTTT-GAGAAGTTTAAGGGT-
1 AAAATGTAATTTTTGGA-AAGTTTAGGGGTC
* * *
34855582 TAAATGTAATTTTTGGAAAGTTTAAGGGTT
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTC
*
34855612 AAAATGTAATTTTTGGAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTC
* *
34855642 AAAAAGTAACTTTT-GAGAAGTTTAGGGGTC
1 AAAATGTAATTTTTGGA-AAGTTTAGGGGTC
*
34855672 AAAATGTAATTTTTGGAAAGTTTAGGGATC
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTC
* * ** * *
34855702 AAAGTGCAATTTTTAAAAAGTTCAAGGGTC
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTC
** *
34855732 AAAACATGATTTTTGGAAA
1 AAAATGTAATTTTTGGAAA
34855751 TTCAAGGACC
Statistics
Matches: 236, Mismatches: 37, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
28 5 0.02
29 68 0.29
30 157 0.67
31 6 0.03
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAAGTTTAGGGGTC
Found at i:34855500 original size:59 final size:58
Alignment explanation
Indices: 34855401--34855693 Score: 279
Period size: 59 Copynumber: 5.0 Consensus size: 58
34855391 TGGATGCTCT
* * * * *
34855401 AGGGTAAAATGGTGATTTTTGGAAG-TTCGAGG-CAAAAATGTAATTTTTGGAAAGTTCG
1 AGGGTAAAA-AGTAATTTTTGGAAGTTTAGGGGTC-AAAATGTAATTTTTGGAAAGTTCA
* * * *
34855459 GGGGTCAAAATGTAATTTTTGGAAGTTTAGGGGTGAAAATGTAATTTTT-GAGAAGTTCG
1 AGGGT-AAAAAGTAATTTTTGGAAGTTTAGGGGTCAAAATGTAATTTTTGGA-AAGTTCA
* ** * * *
34855518 AGGGTAAAAAGTAATATAAGAAACTTTTAGGGGTCAAAATGTAATTTTT-GAGAAGTTTA
1 AGGGTAAAAAGTAATTTTTGGAA-GTTTAGGGGTCAAAATGTAATTTTTGGA-AAGTTCA
* * * * *
34855577 AGGGTTAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAATGTAATTTTTGGAAAGTTTA
1 AGGGTAAAAAGTAATTTTTGG-AAGTTTAGGGGTCAAAATGTAATTTTTGGAAAGTTCA
* *
34855636 GGGGTTAAAAAGTAACTTTTGAGAAGTTTAGGGGTCAAAATGTAATTTTTGGAAAGTT
1 AGGG-TAAAAAGTAATTTTTG-GAAGTTTAGGGGTCAAAATGTAATTTTTGGAAAGTT
34855694 TAGGGATCAA
Statistics
Matches: 195, Mismatches: 31, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
58 32 0.16
59 112 0.57
60 50 0.26
61 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (58 bp):
AGGGTAAAAAGTAATTTTTGGAAGTTTAGGGGTCAAAATGTAATTTTTGGAAAGTTCA
Found at i:34855526 original size:29 final size:28
Alignment explanation
Indices: 34855372--34855698 Score: 243
Period size: 30 Copynumber: 11.1 Consensus size: 28
34855362 AAAAAAATTG
* * *
34855372 AGGGTAAAATGGTAAGTTTTGGATGCTCT
1 AGGGTAAAAT-GTAATTTTTGGAAGTTCT
* *
34855401 AGGGTAAAATGGTGATTTTTGGAAGTTCG
1 AGGGTAAAAT-GTAATTTTTGGAAGTTCT
** *
34855430 AGGCAAAAATGTAATTTTTGGAAAGTTCG
1 AGGGTAAAATGTAATTTTTGG-AAGTTCT
*
34855459 GGGGTCAAAATGTAATTTTTGGAAGTT-T
1 AGGGT-AAAATGTAATTTTTGGAAGTTCT
*
34855487 AGGGGTGAAAATGTAATTTTTGAGAAGTTCG
1 A-GGGT-AAAATGTAATTTTTG-GAAGTTCT
* * ** * * *
34855518 AGGGTAAAAAGTAATATAAGAAACTTTT
1 AGGGTAAAATGTAATTTTTGGAAGTTCT
34855546 AGGGGTCAAAATGTAATTTTTGAGAAGTT-T
1 A-GGGT-AAAATGTAATTTTTG-GAAGTTCT
*
34855576 AAGGGTTAAATGTAATTTTTGGAAAGTT-T
1 -AGGGTAAAATGTAATTTTTGG-AAGTTCT
34855605 AAGGGTTAAAATGTAATTTTTGGAAAGTT-T
1 -AGGG-TAAAATGTAATTTTTGG-AAGTTCT
* *
34855635 AGGGGTTAAAAAGTAACTTTTGAGAAGTT-T
1 A-GGG-TAAAATGTAATTTTTG-GAAGTTCT
34855665 AGGGGTCAAAATGTAATTTTTGGAAAGTT-T
1 A-GGGT-AAAATGTAATTTTTGG-AAGTTCT
34855695 AGGG
1 AGGG
34855699 ATCAAAGTGC
Statistics
Matches: 248, Mismatches: 35, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
28 16 0.06
29 111 0.45
30 114 0.46
31 7 0.03
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (28 bp):
AGGGTAAAATGTAATTTTTGGAAGTTCT
Found at i:34855723 original size:60 final size:59
Alignment explanation
Indices: 34855435--34855750 Score: 268
Period size: 59 Copynumber: 5.3 Consensus size: 59
34855425 GTTCGAGGCA
** ** *
34855435 AAAATGTAATTTTTGGAAAGTTCGGGGGTCAAAATGTAATTTTT-GGAAGTTTAGGGGTG
1 AAAATGTAATTTTTGGAAAGTT-TAGGGTCAAAATGTAATTTTTAAAAAGTTTAGGGGTC
* * * *
34855494 AAAATGTAATTTTT-GAGAAGTTCGAGGGT-AAAAAGTAA--TATAAGAAACTTTTAGGGGTC
1 AAAATGTAATTTTTGGA-AAGTT-TAGGGTCAAAATGTAATTTTTAA-AAA-GTTTAGGGGTC
* ** * *
34855553 AAAATGTAATTTTT-GAGAAGTTTAAGGGT-TAAATGTAATTTTTGGAAAGTTTAAGGGTT
1 AAAATGTAATTTTTGGA-AAGTTT-AGGGTCAAAATGTAATTTTTAAAAAGTTTAGGGGTC
* * * * *
34855612 AAAATGTAATTTTTGGAAAGTTTAGGGGTTAAAAAGTAACTTTTGAGAAGTTTAGGGGTC
1 AAAATGTAATTTTTGGAAAGTTTA-GGGTCAAAATGTAATTTTTAAAAAGTTTAGGGGTC
* * * *
34855672 AAAATGTAATTTTTGGAAAGTTTAGGGATCAAAGTGCAATTTTTAAAAAGTTCAAGGGTC
1 AAAATGTAATTTTTGGAAAGTTTAGGG-TCAAAATGTAATTTTTAAAAAGTTTAGGGGTC
** *
34855732 AAAACATGATTTTTGGAAA
1 AAAATGTAATTTTTGGAAA
34855751 TTCAAGGACC
Statistics
Matches: 211, Mismatches: 35, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
56 2 0.01
58 13 0.06
59 103 0.49
60 91 0.43
61 2 0.01
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.35
Consensus pattern (59 bp):
AAAATGTAATTTTTGGAAAGTTTAGGGTCAAAATGTAATTTTTAAAAAGTTTAGGGGTC
Found at i:34857346 original size:17 final size:17
Alignment explanation
Indices: 34857324--34857400 Score: 91
Period size: 17 Copynumber: 4.5 Consensus size: 17
34857314 GGACATTATT
* *
34857324 AATTTAAATTTAGAATA
1 AATTTAAACTTAAAATA
*
34857341 AATTTAAACTTAAATTA
1 AATTTAAACTTAAAATA
* *
34857358 AATTTAAATTTAAAAACA
1 AATTTAAACTT-AAAATA
34857376 AATTTAAACTTAAAATA
1 AATTTAAACTTAAAATA
*
34857393 AATCTAAA
1 AATTTAAA
34857401 AAAATAAGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
17 36 0.72
18 14 0.28
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.36
Consensus pattern (17 bp):
AATTTAAACTTAAAATA
Found at i:34857386 original size:35 final size:34
Alignment explanation
Indices: 34857324--34857400 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 34
34857314 GGACATTATT
* * *
34857324 AATTTAAATTTAGAATAAATTTAAACTTAAATTA
1 AATTTAAATTTAAAACAAATTTAAACTTAAAATA
34857358 AATTTAAATTTAAAAACAAATTTAAACTTAAAATA
1 AATTTAAATTT-AAAACAAATTTAAACTTAAAATA
*
34857393 AATCTAAA
1 AATTTAAA
34857401 AAAATAAGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
34 11 0.29
35 27 0.71
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.36
Consensus pattern (34 bp):
AATTTAAATTTAAAACAAATTTAAACTTAAAATA
Found at i:34857389 original size:6 final size:6
Alignment explanation
Indices: 34857324--34857371 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
34857314 GGACATTATT
*
34857324 AATTTA AATTTA GAA--TA AATTTA AACTTA AA-TTA AATTTA AATTTA
1 AATTTA AATTTA -AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
34857370 AA
1 AA
34857372 AACAAATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
4 2 0.05
5 7 0.19
6 26 0.70
7 2 0.05
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:34857850 original size:39 final size:39
Alignment explanation
Indices: 34857795--34858405 Score: 289
Period size: 39 Copynumber: 15.7 Consensus size: 39
34857785 GAGAGGTTGT
* * *
34857795 AATCTGCCTCAAGCTCGGGGTAAGAGATCGAATGGCTAC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGC
*
34857834 AATCTGCCCTAGGCTCGGGGTAAGAGATCGAATGGCTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGC
* * ** * *
34857873 AATATACCTTAGGCTCGGGGTAAGAGATTGGCTAAT-GATG-
1 AATCTGCCCCAGGCTCGGGGTAAGAGA-T--CGAATGGCTGC
* * * * *
34857913 -ATCTGCCCCAGACTCGGGGCAAAAGATCAAATGGATGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGC
* *** * ** *
34857951 AATCTGCCCCAAGCTTAAGGTAAGAGATTGGCT-GATGGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCT-GC
* * ** ** * *
34857990 GATCTGCCCTACACTCGAAGTAAAAGATCAAATGGCTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGC
*
34858029 AATCTGCCCCAGGCTCTGGGTAAGAGATTGGCTG-ATGG-TG-
1 AATCTGCCCCAGGCTCGGGGTAAGAGA-T--C-GAATGGCTGC
* * * * *
34858069 -ATCTGCCCCAAGCTCGGGAT-A-AGATCAAATGGTTAC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGC
* * **
34858105 AATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGG-TGGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCT-GC
* * * * ** * * **
34858144 GATCTGCCTCAAGCACTAGGTAAAAGATCAAATACCTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGC
* * * *
34858183 AATCTAG-CCCAGGCTCGGGGTAAGAGATTG-GTTGATGGC
1 AATCT-GCCCCAGGCTCGGGGTAAGAGATCGAATGGCT-GC
* * * * * *
34858222 GATCTGCCCCAAGCTTGGAGTAAAAGATCGAATGGTTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGC
* * * ** *
34858261 AATCTGCCCTAGGCTCGGGGTAAAAGATTGGCT-GATG-
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGC
* * * * ** *
34858298 ATGATCTGCCTCAAGCTCGGAGTAAAAGATTAAATGGCTAC
1 A--ATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGC
* * *
34858339 AATCTGCCTCAGGCTTGGAGTAAGAGATCGAATGGCTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGC
**
34858378 AATCTGCCCCAGGCTCAAGGTAAGAGAT
1 AATCTGCCCCAGGCTCGGGGTAAGAGAT
34858406 TGGCTAATGG
Statistics
Matches: 416, Mismatches: 128, Indels: 56
0.69 0.21 0.09
Matches are distributed among these distances:
34 5 0.01
35 1 0.00
36 5 0.01
37 25 0.06
38 13 0.03
39 341 0.82
40 11 0.03
41 6 0.01
42 9 0.02
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (39 bp):
AATCTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGC
Found at i:34857940 original size:78 final size:77
Alignment explanation
Indices: 34857847--34858366 Score: 533
Period size: 78 Copynumber: 6.7 Consensus size: 77
34857837 CTGCCCTAGG
* * * * ** * **
34857847 CTCGGGGTAAGAGATCGAATGGCTGCAATATACCTTAGGCTCGGGGTAAGAGATTGGCTAATGAT
1 CTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGC
34857912 GATCTGCCCCAGA
66 GATCTGCCCCA-A
* * * ***
34857925 CTCGGGGCAAAAGATCAAATGGATGCAATCTGCCCCAAGCTTAAGGTAAGAGATTGGCTGATGGC
1 CTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGC
*
34857990 GATCTGCCCTACA
66 GATCTGCCCCA-A
** * *
34858003 CTCGAAGTAAAAGATCAAATGGCTGCAATCTGCCCCAGGCTCTGGGTAAGAGATTGGCTGATGGT
1 CTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGC
34858068 GATCTGCCCCAA
66 GATCTGCCCCAA
* * * * *
34858080 GCTC-GGG-ATAAGATCAAATGGTTACAATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGGTGG
1 -CTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGG
*
34858143 CGATCTGCCTCAA
65 CGATCTGCCCCAA
* ** ** *
34858156 GCACTAGGTAAAAGATCAAATACCTGCAATCTAG-CCCAGGCTCGGGGTAAGAGATTGGTTGATG
1 -CTCGGGGTAAAAGATCAAATGGCTGCAATCT-GCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
34858220 GCGATCTGCCCCAA
64 GCGATCTGCCCCAA
* * * * * * *
34858234 GCTTGGAGTAAAAGATCGAATGGTTGCAATCTGCCCTAGGCTCGGGGTAAAAGATTGGCTGATGA
1 -CTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGG
* *
34858299 TGATCTGCCTCAA
65 CGATCTGCCCCAA
* * * * * *
34858312 GCTCGGAGTAAAAGATTAAATGGCTACAATCTGCCTCAGGCTTGGAGTAAGAGAT
1 -CTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGAT
34858367 CGAATGGCTG
Statistics
Matches: 364, Mismatches: 73, Indels: 10
0.81 0.16 0.02
Matches are distributed among these distances:
76 64 0.18
77 5 0.01
78 295 0.81
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (77 bp):
CTCGGGGTAAAAGATCAAATGGCTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGC
GATCTGCCCCAA
Found at i:34858383 original size:78 final size:75
Alignment explanation
Indices: 34857795--34858393 Score: 372
Period size: 78 Copynumber: 7.7 Consensus size: 75
34857785 GAGAGGTTGT
* * * * * * *
34857795 AATCTGCCTCAAGCTCGGGGTAAGAGATCGAATGGCTACAATCTGCCCTAGGCTCGGGGTAAGAG
1 AATCTGCC-CAGGCTCGGGGTAAGAGATTG-ATGG-TGCAATCTGCCCCAAGCTCGGAGTAAAAG
*
34857860 ATCGAATGGCTGC
63 ATCAAATGGCTGC
* * * * * *
34857873 AATATACCTTAGGCTCGGGGTAAGAGATTGGCTAATGATG--ATCTGCCCC-AGACTCGGGGCAA
1 AATCTGCC-CAGGCTCGGGGTAAGAGATT-G---ATGGTGCAATCTGCCCCAAG-CTCGGAGTAA
*
34857935 AAGATCAAATGGATGC
60 AAGATCAAATGGCTGC
* *** * * * * *
34857951 AATCTGCCCCAAGCTTAAGGTAAGAGATTGGCTGATGGCGATCTGCCCTACA-CTCGAAGTAAAA
1 AATCTG-CCCAGGCTCGGGGTAAGAGATT-GATGGT-GCAATCTGCCCCA-AGCTCGGAGTAAAA
34858015 GATCAAATGGCTGC
62 GATCAAATGGCTGC
* *
34858029 AATCTGCCCCAGGCTCTGGGTAAGAGATTGGCTGATGGTG--ATCTGCCCCAAGCTCGG-G-ATA
1 AATCTG-CCCAGGCTCGGGGTAAGAGA-T---TGATGGTGCAATCTGCCCCAAGCTCGGAGTAAA
* *
34858090 AGATCAAATGGTTAC
61 AGATCAAATGGCTGC
* * * * * *
34858105 AATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGGTGGCGATCTGCCTCAAGCAC-TAGGTAAAA
1 AATCT-GCCCAGGCTCGGGGTAAGAGATT-GATGGT-GCAATCTGCCCCAAGCTCGGA-GTAAAA
**
34858169 GATCAAATACCTGC
62 GATCAAATGGCTGC
* * * *
34858183 AATCTAGCCCAGGCTCGGGGTAAGAGATTGGTTGATGGCGATCTGCCCCAAGCTTGGAGTAAAAG
1 AATCT-GCCCAGGCTCGGGGTAAGAGATT-GATGGT-GCAATCTGCCCCAAGCTCGGAGTAAAAG
* *
34858248 ATCGAATGGTTGC
63 ATCAAATGGCTGC
* * * *
34858261 AATCTGCCCTAGGCTCGGGGTAAAAGATTGGCTGATG-ATGATCTGCCTCAAGCTCGGAGTAAAA
1 AATCTGCCC-AGGCTCGGGGTAAGAGATT-GATGGTGCA--ATCTGCCCCAAGCTCGGAGTAAAA
* *
34858325 GATTAAATGGCTAC
62 GATCAAATGGCTGC
* * * *
34858339 AATCTGCCTCAGGCTTGGAGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTC
1 AATCTGCC-CAGGCTCGGGGTAAGAGATTG-ATGG-TGCAATCTGCCCCAAGCTC
34858394 AAGGTAAGAG
Statistics
Matches: 414, Mismatches: 76, Indels: 62
0.75 0.14 0.11
Matches are distributed among these distances:
72 1 0.00
73 5 0.01
74 1 0.00
75 5 0.01
76 53 0.13
77 10 0.02
78 318 0.77
79 8 0.02
80 4 0.01
81 8 0.02
82 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (75 bp):
AATCTGCCCAGGCTCGGGGTAAGAGATTGATGGTGCAATCTGCCCCAAGCTCGGAGTAAAAGATC
AAATGGCTGC
Found at i:34858421 original size:117 final size:116
Alignment explanation
Indices: 34858008--34858439 Score: 334
Period size: 117 Copynumber: 3.7 Consensus size: 116
34857998 CTACACTCGA
* * * * *
34858008 AGTAAAAGATCAAATGGCTGCAATCTGCCCCAGGCTCTGGGTAAGAGATTGGCTGATGGTGATCT
1 AGTAAAAGATCGAATGGCTGCAATCTGCCCCAGGCTCTAGGTAAAAGATTGGCTAATGGCGATCT
* * * * *
34858073 GCCCCAAGCTCGG-G-ATAAGATCAAATGGTTACAATCTACCCCAGGCTCGG
66 G-CCCAAGCTCGGAGTAAAAGATTAAATGGATACAATCTGCCCCAGGCTTGG
* * * ** * * * * **** * *
34858123 GGTAAGAGATTGGCTGG-TGGCGATCTGCCTCAAGCACTAGGTAAAAGATCAAATACCT-GCAAT
1 AGTAAAAGATCGAATGGCT-GCAATCTGCCCCAGGCTCTAGGTAAAAGATTGGCTA-ATGGCGAT
* * * ** * * * *
34858186 CTAGCCCAGGCTCGGGGTAAGAGATT-GGTTGATGGCGATCTGCCCCAAGCTTGG
64 CT-GCCCAAGCTCGGAGTAAAAGATTAAATGGAT-ACAATCTGCCCCAGGCTTGG
* * ** * **
34858240 AGTAAAAGATCGAATGGTTGCAATCTGCCCTAGGCTCGGGGTAAAAGATTGGCTGATGATGATCT
1 AGTAAAAGATCGAATGGCTGCAATCTGCCCCAGGCTCTAGGTAAAAGATTGGCTAATGGCGATCT
* *
34858305 GCCTCAAGCTCGGAGTAAAAGATTAAATGGCTACAATCTGCCTCAGGCTTGG
66 GCC-CAAGCTCGGAGTAAAAGATTAAATGGATACAATCTGCCCCAGGCTTGG
* * *
34858357 AGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCAAGGTAAGAGATTGGCTAATGGCGATCT
1 AGTAAAAGATCGAATGGCTGCAATCTGCCCCAGGCTCTAGGTAAAAGATTGGCTAATGGCGATCT
* *
34858422 ACCCTAGGCTCGGAGTAA
66 GCCC-AAGCTCGGAGTAA
34858440 TCTGCCTCAA
Statistics
Matches: 230, Mismatches: 76, Indels: 20
0.71 0.23 0.06
Matches are distributed among these distances:
114 1 0.00
115 51 0.22
116 11 0.05
117 163 0.71
118 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (116 bp):
AGTAAAAGATCGAATGGCTGCAATCTGCCCCAGGCTCTAGGTAAAAGATTGGCTAATGGCGATCT
GCCCAAGCTCGGAGTAAAAGATTAAATGGATACAATCTGCCCCAGGCTTGG
Found at i:34858476 original size:60 final size:60
Alignment explanation
Indices: 34858378--34858499 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 60
34858368 GAATGGCTGC
* * *
34858378 AATCTGCCCCAGGCTCAAGGTAAGAGATTGGCTAATGGCGATCTACCCTAGGCTCGGAGT
1 AATCTGCCCCAAGCTCAAGGTAAGAGATTGACTAATGGCGATCTACCCTAGGCTCAGAGT
* ** * * *
34858438 AATCTGCCTCAAGCTCGGGGTAAGAGATTGACTGATGGCGATCTGCCGTAGGCTCAGAGT
1 AATCTGCCCCAAGCTCAAGGTAAGAGATTGACTAATGGCGATCTACCCTAGGCTCAGAGT
34858498 AA
1 AA
34858500 AAGATTAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.22
Consensus pattern (60 bp):
AATCTGCCCCAAGCTCAAGGTAAGAGATTGACTAATGGCGATCTACCCTAGGCTCAGAGT
Found at i:34858578 original size:78 final size:78
Alignment explanation
Indices: 34858438--34858778 Score: 385
Period size: 78 Copynumber: 4.4 Consensus size: 78
34858428 GGCTCGGAGT
* * * ** * *
34858438 AATCTGCCTCAAGCTCGGGGTAAGAGATTGACTGATGGCGATCTGCCGTAGGCTCAGAGTAAAAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGCGATCTGCCCCAGGCTCGGGGTAAAAG
*
34858503 ATTAAATGGCTGC
66 ATTAAATGGCTAC
* * *
34858516 AATCTGCCCCAGGCTCAGGGTAAGAGATTGGTTGATGGCGATCTGCCCCAAGCTCGGGGTAAAAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGCGATCTGCCCCAGGCTCGGGGTAAAAG
*
34858581 ATCAAATGGCTAC
66 ATTAAATGGCTAC
* ** * *
34858594 AATCTGCCCTAGGCTTAGGGTAAGAGATTGGCTTATGGCGATCTGCCCTAGGCTCGGGGTAAAAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGCGATCTGCCCCAGGCTCGGGGTAAAAG
**
34858659 ATTAAATGGCTGT
66 ATTAAATGGCTAC
* * * ** * * * *
34858672 AATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGGTGATGATCTGCCTCATGCTCGAGGTAAGAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGCGATCTGCCCCAGGCTCGGGGTAAAAG
* *
34858737 ATTAAACGGCTAT
66 ATTAAATGGCTAC
* * *
34858750 AATCTGCCTCAAGCTCGGGGTAAAAGATT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATT
34858779 AAATAGCTGT
Statistics
Matches: 223, Mismatches: 40, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
78 223 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (78 bp):
AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGCGATCTGCCCCAGGCTCGGGGTAAAAG
ATTAAATGGCTAC
Found at i:34858606 original size:177 final size:176
Alignment explanation
Indices: 34858273--34858608 Score: 385
Period size: 177 Copynumber: 1.9 Consensus size: 176
34858263 TCTGCCCTAG
* * *
34858273 GCTCGGGGTAAAAGATTGGCTGATGATGATCTGCCTCAAGCTCGGAGTAAAAGATTAAATGGCTA
1 GCTCGGGGTAAAAGATTGACTGATGACGATCTGCCTCAAGCTCAGAGTAAAAGATTAAATGGCTA
* * * * *
34858338 CAATCTGCCTCAGGCTTGGAGTAAGAGATCGAATGGCTGCAATCTGCCCCAGGCTCAAGGTAAGA
66 CAATCTGCCCCAGGCTAGGAGTAAGAGATCGAATGGATGCAATCTGCCCCAAGCTCAAGGTAAAA
* *
34858403 GATTGGCTAATGGCGATCTACCCTAGGCTCGGAGTAATCTGCCTCAA
131 GATT-GCAAATGGCAATCTACCCTAGGCTCGGAGTAATCTGCCTCAA
* * *
34858450 GCTCGGGGTAAGAGATTGACTGATGGCGATCTGCCGT-AGGCTCAGAGTAAAAGATTAAATGGCT
1 GCTCGGGGTAAAAGATTGACTGATGACGATCTGCC-TCAAGCTCAGAGTAAAAGATTAAATGGCT
* * * * * **
34858514 GCAATCTGCCCCAGGCTCAGG-GTAAGAGATTG-GTTGATGGCGATCTGCCCCAAGCTCGGGGTA
65 ACAATCTGCCCCAGGCT-AGGAGTAAGAGATCGAATGGAT-GCAATCTGCCCCAAGCTCAAGGTA
*
34858577 AAAGA-T-CAAATGGCTACAATCTGCCCTAGGCT
128 AAAGATTGCAAATGG---CAATCTACCCTAGGCT
34858609 TAGGGTAAGA
Statistics
Matches: 132, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
174 6 0.05
176 4 0.03
177 119 0.90
178 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (176 bp):
GCTCGGGGTAAAAGATTGACTGATGACGATCTGCCTCAAGCTCAGAGTAAAAGATTAAATGGCTA
CAATCTGCCCCAGGCTAGGAGTAAGAGATCGAATGGATGCAATCTGCCCCAAGCTCAAGGTAAAA
GATTGCAAATGGCAATCTACCCTAGGCTCGGAGTAATCTGCCTCAA
Found at i:34858716 original size:117 final size:113
Alignment explanation
Indices: 34858645--34858857 Score: 279
Period size: 117 Copynumber: 1.8 Consensus size: 113
34858635 TCTGCCCTAG
* * * *
34858645 GCTCGGGGTAAAAGATTAAATGGCTGTAATCTACC-CTAGGCTCGGGGTAAGAGATTG-GCTGGT
1 GCTCGGGGTAAAAGATTAAATAGCTGTAATCTACCTC-AGGATCGGGGTAAGAGATTGATC-GAT
*
34858708 GATGATCTG-CCTCATGCTCGAGGTAAGAGATTAAACGGCTATAATCTGCCTCAA
64 GATGATCTGCCCT-AAGCTCGAGGTAAGAGATT----GGCTATAATCTGCCTCAA
* *
34858762 GCTCGGGGTAAAAGATTAAATAGCTGTAATCTACCTCATGATCGGGGTAAGAGATTTATCGATGA
1 GCTCGGGGTAAAAGATTAAATAGCTGTAATCTACCTCAGGATCGGGGTAAGAGATTGATCGATGA
34858827 TGATCTGCCCTAAGCTCGAGGTAAGAGATTG
66 TGATCTGCCCTAAGCTCGAGGTAAGAGATTG
34858858 AATAGCTGTA
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
113 1 0.01
117 80 0.93
118 5 0.06
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (113 bp):
GCTCGGGGTAAAAGATTAAATAGCTGTAATCTACCTCAGGATCGGGGTAAGAGATTGATCGATGA
TGATCTGCCCTAAGCTCGAGGTAAGAGATTGGCTATAATCTGCCTCAA
Found at i:34858875 original size:39 final size:40
Alignment explanation
Indices: 34858436--34858876 Score: 180
Period size: 39 Copynumber: 11.3 Consensus size: 40
34858426 TAGGCTCGGA
* * *
34858436 GTAATCTG-CCTCAAGCTCGGGGTAAGAGATTGACT-GAT
1 GTAATCTGCCCTCAAGCTCGGGGTAAGAGATTAAATAGCT
** * * * * * *
34858474 GGCGATCTGCCGT-AGGCTCAGAGTAAAAGATTAAATGGCT
1 -GTAATCTGCCCTCAAGCTCGGGGTAAGAGATTAAATAGCT
* * * ** * *
34858514 GCAATCTGCCC-CAGGCTCAGGGTAAGAGATT-GGTTGAT
1 GTAATCTGCCCTCAAGCTCGGGGTAAGAGATTAAATAGCT
** * * *
34858552 GGCGATCTGCCC-CAAGCTCGGGGTAAAAGATCAAATGGCT
1 -GTAATCTGCCCTCAAGCTCGGGGTAAGAGATTAAATAGCT
** * ** ** *
34858592 ACAATCTGCCCT-AGGCTTAGGGTAAGAGATTGGCTTATGGC-
1 GTAATCTGCCCTCAAGCTCGGGGTAAGAGATT---AAATAGCT
* * *
34858633 G--ATCTGCCCT-AGGCTCGGGGTAAAAGATTAAATGGCT
1 GTAATCTGCCCTCAAGCTCGGGGTAAGAGATTAAATAGCT
* * *** *
34858670 GTAATCTACCCT-AGGCTCGGGGTAAGAGATTGGCT-GGT
1 GTAATCTGCCCTCAAGCTCGGGGTAAGAGATTAAATAGCT
* * * **
34858708 GATGATCTG-CCTCATGCTCGAGGTAAGAGATTAAACGGCT
1 G-TAATCTGCCCTCAAGCTCGGGGTAAGAGATTAAATAGCT
* *
34858748 ATAATCTG-CCTCAAGCTCGGGGTAAAAGATTAAATAGCT
1 GTAATCTGCCCTCAAGCTCGGGGTAAGAGATTAAATAGCT
* * * * * *
34858787 GTAATCT-ACCTCATGATCGGGGTAAGAGATT-TATCGAT
1 GTAATCTGCCCTCAAGCTCGGGGTAAGAGATTAAATAGCT
* * *
34858825 GATGATCTGCCCT-AAGCTCGAGGTAAGAGATTGAATAGCT
1 G-TAATCTGCCCTCAAGCTCGGGGTAAGAGATTAAATAGCT
*
34858865 GTAATTTGCCCT
1 GTAATCTGCCCT
34858877 TCTTGATTAA
Statistics
Matches: 302, Mismatches: 81, Indels: 38
0.72 0.19 0.09
Matches are distributed among these distances:
36 5 0.02
37 1 0.00
38 14 0.05
39 260 0.86
40 17 0.06
42 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (40 bp):
GTAATCTGCCCTCAAGCTCGGGGTAAGAGATTAAATAGCT
Found at i:34861127 original size:3 final size:3
Alignment explanation
Indices: 34861114--34861157 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
34861104 TGGGCTGTCA
34861114 TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
34861158 GATGTCATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:34866802 original size:14 final size:14
Alignment explanation
Indices: 34866783--34866814 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
34866773 CCAGAAATGA
34866783 CTTTGAAACCAAAC
1 CTTTGAAACCAAAC
34866797 CTTTGAAACCAAAC
1 CTTTGAAACCAAAC
34866811 CTTT
1 CTTT
34866815 AAAAGTGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (14 bp):
CTTTGAAACCAAAC
Found at i:34869477 original size:30 final size:29
Alignment explanation
Indices: 34869438--34869756 Score: 295
Period size: 30 Copynumber: 10.8 Consensus size: 29
34869428 TGAAGTTCAG
34869438 GTAATTTTTGGAAAGTTTAGGGCTTAAAAT
1 GTAATTTTTGGAAAGTTTAGGG-TTAAAAT
* ** *
34869468 GTATTTTTTGG-AAGCTCAAGGGTAAAAAT
1 GTAATTTTTGGAAAG-TTTAGGGTTAAAAT
* * *
34869497 GT-ATTTTTTGAGAAGTTTGGGGTAAAAAAT
1 GTAATTTTTGGA-AAGTTTAGGGT-TAAAAT
*
34869527 GTAATTTTTGAAAAGTTTAGGGGTTAAAAT
1 GTAATTTTTGGAAAGTTTA-GGGTTAAAAT
* **
34869557 GTTATTTTTTAAAAGTTTAGGTGTTAAAAT
1 GTAATTTTTGGAAAGTTTAGG-GTTAAAAT
*
34869587 GTAATTTTTCGAAAGTTTAAGGGTT-AAAT
1 GTAATTTTTGGAAAGTTT-AGGGTTAAAAT
* *
34869616 GTAATTTTTGGAAAGTTTGGGGTCAAAAT
1 GTAATTTTTGGAAAGTTTAGGGTTAAAAT
* *
34869645 GTAATTTTT-GAGAAGTTTAAAGGTCAAAAT
1 GTAATTTTTGGA-AAGTTT-AGGGTTAAAAT
* * *
34869675 GTAATTTTTTGAAAGTTTAGAGATTAAATT
1 GTAATTTTTGGAAAGTTTAG-GGTTAAAAT
** * *
34869705 GTAATTTTTAAAAAGTTTGAGGGTCAAAAC
1 GTAATTTTTGGAAAGTTT-AGGGTTAAAAT
*
34869735 GTAATTTTTGGAAAATTTAGGG
1 GTAATTTTTGGAAAGTTTAGGG
34869757 ACCATTTGGG
Statistics
Matches: 239, Mismatches: 36, Indels: 29
0.79 0.12 0.10
Matches are distributed among these distances:
28 12 0.05
29 63 0.26
30 146 0.61
31 18 0.08
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.40
Consensus pattern (29 bp):
GTAATTTTTGGAAAGTTTAGGGTTAAAAT
Found at i:34871364 original size:6 final size:6
Alignment explanation
Indices: 34871355--34871421 Score: 70
Period size: 6 Copynumber: 11.7 Consensus size: 6
34871345 TTGGATATTA
*
34871355 TAAATT TAAATT TAGAA-- TAAATT TAAACT TAAA-T TAAATT TAAATT
1 TAAATT TAAATT TA-AATT TAAATT TAAATT TAAATT TAAATT TAAATT
* *
34871401 TAAA-A TAAATT TAAACT TAAA
1 TAAATT TAAATT TAAATT TAAA
34871422 ATAAATCTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
4 2 0.04
5 11 0.21
6 37 0.71
7 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (6 bp):
TAAATT
Found at i:34871376 original size:17 final size:17
Alignment explanation
Indices: 34871354--34871427 Score: 112
Period size: 17 Copynumber: 4.4 Consensus size: 17
34871344 TTTGGATATT
* *
34871354 ATAAATTTAAATTTAGA
1 ATAAATTTAAACTTAAA
34871371 ATAAATTTAAACTTAAA
1 ATAAATTTAAACTTAAA
* *
34871388 TTAAATTTAAATTTAAA
1 ATAAATTTAAACTTAAA
34871405 ATAAATTTAAACTTAAA
1 ATAAATTTAAACTTAAA
34871422 ATAAAT
1 ATAAAT
34871428 CTTAGAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 51 1.00
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (17 bp):
ATAAATTTAAACTTAAA
Found at i:34871377 original size:11 final size:11
Alignment explanation
Indices: 34871355--34871421 Score: 66
Period size: 11 Copynumber: 5.8 Consensus size: 11
34871345 TTGGATATTA
34871355 TAAATTTAAATT
1 TAAA-TTAAATT
34871367 TAGAA-TAAATT
1 TA-AATTAAATT
34871378 TAAACTTAAA-T
1 TAAA-TTAAATT
34871389 TAAATTTAAATT
1 TAAA-TTAAATT
*
34871401 TAAAATAAATT
1 TAAATTAAATT
34871412 TAAACTTAAA
1 TAAA-TTAAA
34871422 ATAAATCTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
10 2 0.04
11 28 0.60
12 15 0.32
13 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (11 bp):
TAAATTAAATT
Found at i:34871393 original size:34 final size:34
Alignment explanation
Indices: 34871354--34871427 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
34871344 TTTGGATATT
*
34871354 ATAAATTTAAATTTAGAATAAATTTAAACTTAAA
1 ATAAATTTAAATTTAAAATAAATTTAAACTTAAA
*
34871388 TTAAATTTAAATTTAAAATAAATTTAAACTTAAA
1 ATAAATTTAAATTTAAAATAAATTTAAACTTAAA
34871422 ATAAAT
1 ATAAAT
34871428 CTTAGAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (34 bp):
ATAAATTTAAATTTAAAATAAATTTAAACTTAAA
Found at i:34878780 original size:24 final size:23
Alignment explanation
Indices: 34878753--34878797 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
34878743 TTAAATTTTC
*
34878753 AATTAAATTAAATTAATTAATGGT
1 AATTAAATTAAAGT-ATTAATGGT
*
34878777 AATTGAATTAAAGTATTAATG
1 AATTAAATTAAAGTATTAATG
34878798 TATCTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (23 bp):
AATTAAATTAAAGTATTAATGGT
Found at i:34882870 original size:14 final size:14
Alignment explanation
Indices: 34882851--34882877 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34882841 AGTTGAGTGA
34882851 CTTTTTTTTTCGTC
1 CTTTTTTTTTCGTC
34882865 CTTTTTTTTTCGT
1 CTTTTTTTTTCGT
34882878 TTTTTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.19, G:0.07, T:0.74
Consensus pattern (14 bp):
CTTTTTTTTTCGTC
Found at i:34893145 original size:188 final size:191
Alignment explanation
Indices: 34892825--34893211 Score: 591
Period size: 188 Copynumber: 2.0 Consensus size: 191
34892815 TATTCATACA
* * * * * *
34892825 TGTGGTCTAAAACCCAATGGGTAAGGGTACAATGTGAGTATATTTGATTGTTTGTAATCGTATGC
1 TGTGGTCTAAAACCCAATGAGTAAGGATACAATGTGAGTATATTTGATTATTTCTAACCCTATGC
*
34892890 TTTTTATTTTGTTTGCAGGTTCAGTTGACGGTTCATTTTCTGGAGTAATCTATTGTTGAATCATC
66 TTTTTATTTTGTTTGCAGGTTCAGTTGACGGTTCATTTTCTGGAGTAATCTATTGTTAAATCATC
* * * *
34892955 AAAGGTTAGTCATCAGTTCATTTGTATTTCTTGAAAATATTGGAATATGTTGATATTATAT
131 AAAAGTAAGTCATCAGTTCATTTGTATTTCCTGAAAATATTGGAATATGTTAATATTATAT
* *
34893016 TGTGGTCTAAAACCCAGTGAGTAAGGATAGAATGTGAGTATATTTGATTATTTCTAACCCTATGC
1 TGTGGTCTAAAACCCAATGAGTAAGGATACAATGTGAGTATATTTGATTATTTCTAACCCTATGC
** * *
34893081 -TTTT-TTTT-TTTGCAGGTTGGGTTTATGGTTCATTTTCTGGAGTAATCTATTGTTAAATCATC
66 TTTTTATTTTGTTTGCAGGTTCAGTTGACGGTTCATTTTCTGGAGTAATCTATTGTTAAATCATC
*
34893143 AAAAGTAAGTCATCAGTTCATTTGTATTTCCTGAAAATGTTGGAATATGTTAATATTATAT
131 AAAAGTAAGTCATCAGTTCATTTGTATTTCCTGAAAATATTGGAATATGTTAATATTATAT
34893204 TGTGGTCT
1 TGTGGTCT
34893212 GACTGTCTGG
Statistics
Matches: 178, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
188 113 0.63
189 4 0.02
190 4 0.02
191 57 0.32
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (191 bp):
TGTGGTCTAAAACCCAATGAGTAAGGATACAATGTGAGTATATTTGATTATTTCTAACCCTATGC
TTTTTATTTTGTTTGCAGGTTCAGTTGACGGTTCATTTTCTGGAGTAATCTATTGTTAAATCATC
AAAAGTAAGTCATCAGTTCATTTGTATTTCCTGAAAATATTGGAATATGTTAATATTATAT
Found at i:34894998 original size:24 final size:25
Alignment explanation
Indices: 34894971--34895122 Score: 112
Period size: 27 Copynumber: 5.8 Consensus size: 25
34894961 ATGTAGTGGT
*
34894971 GAAGCTTTTCAAGAGGGAG-GGGAG
1 GAAGCTGTTCAAGAGGGAGAGGGAG
*
34894995 GAAGCTGTTCTAGAGGGAGATAGGGAG
1 GAAGCTGTTCAAGAGGGAG--AGGGAG
* * *
34895022 GAAGCTGTTCCAGAAAGAGATAGGGAG
1 GAAGCTGTT-CA-AGAGGGAGAGGGAG
* **
34895049 GAAACTGTTTTAGAGGGAGATAGGGAG
1 GAAGCTGTTCAAGAGGGAG--AGGGAG
34895076 GAAGCTGTTTC-AGAGGGAGATAGGGAG
1 GAAGCTG-TTCAAGAGGGAG--AGGGAG
*
34895103 GAAGTTGTTTC-AGAGGGAGA
1 GAAGCTG-TTCAAGAGGGAGA
34895123 TAGTGATAGT
Statistics
Matches: 105, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
24 17 0.16
25 6 0.06
27 74 0.70
28 3 0.03
29 5 0.05
ACGTcount: A:0.32, C:0.07, G:0.42, T:0.19
Consensus pattern (25 bp):
GAAGCTGTTCAAGAGGGAGAGGGAG
Found at i:34895024 original size:27 final size:26
Alignment explanation
Indices: 34894990--34895125 Score: 182
Period size: 27 Copynumber: 5.0 Consensus size: 26
34894980 CAAGAGGGAG
34894990 GGGAGGAAGCTGTTCTAGAGGGAGATA
1 GGGAGGAAGCTGTT-TAGAGGGAGATA
* **
34895017 GGGAGGAAGCTGTTCCAGAAAGAGATA
1 GGGAGGAAGCTGTT-TAGAGGGAGATA
*
34895044 GGGAGGAAACTGTTTTAGAGGGAGATA
1 GGGAGGAAGCTG-TTTAGAGGGAGATA
34895071 GGGAGGAAGCTGTTTCAGAGGGAGATA
1 GGGAGGAAGCTGTTT-AGAGGGAGATA
*
34895098 GGGAGGAAGTTGTTTCAGAGGGAGATA
1 GGGAGGAAGCTGTTT-AGAGGGAGATA
34895125 G
1 G
34895126 TGATAGTGAC
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.03
27 93 0.95
28 2 0.02
ACGTcount: A:0.32, C:0.07, G:0.43, T:0.19
Consensus pattern (26 bp):
GGGAGGAAGCTGTTTAGAGGGAGATA
Found at i:34898679 original size:41 final size:42
Alignment explanation
Indices: 34898599--34898681 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 42
34898589 AATAGCAGAA
* * ** **
34898599 AAATAACACATTCTAAGATAAACAAAATAATTCTTAACAATT
1 AAATAACACATACTAAGATAAACAAAACAAAACAAAACAATT
34898641 AAATAAC-CATACTAAGATAAACAAAACAAAACAAAACAATT
1 AAATAACACATACTAAGATAAACAAAACAAAACAAAACAATT
34898682 CTTGTACTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
41 28 0.80
42 7 0.20
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (42 bp):
AAATAACACATACTAAGATAAACAAAACAAAACAAAACAATT
Found at i:34899341 original size:14 final size:14
Alignment explanation
Indices: 34899322--34899348 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34899312 GAAAAAGAGG
34899322 AAAAATTATCAAAA
1 AAAAATTATCAAAA
34899336 AAAAATTATCAAA
1 AAAAATTATCAAA
34899349 CCTCATGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATTATCAAAA
Found at i:34900304 original size:26 final size:26
Alignment explanation
Indices: 34900275--34900325 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
34900265 AATAAACAGT
*
34900275 TAATAGAATC-AGTTGTTCAAATCAAA
1 TAATAGAATCGA-TTGATCAAATCAAA
*
34900301 TAATTGAATCGATTGATCAAATCAA
1 TAATAGAATCGATTGATCAAATCAA
34900326 CTACTGCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (26 bp):
TAATAGAATCGATTGATCAAATCAAA
Found at i:34901377 original size:28 final size:30
Alignment explanation
Indices: 34901320--34901377 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 30
34901310 AAACTTAATT
* *
34901320 TTTTTTTTATCAATTTTTAAGAGACTTAAA
1 TTTTTTTTATCAACTTTTAAGAGACCTAAA
34901350 TTTTTTTT-T-AACTTTTAAG-GAACCTAAA
1 TTTTTTTTATCAACTTTTAAGAG-ACCTAAA
34901378 ACCCTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 1 0.04
28 15 0.60
29 1 0.04
30 8 0.32
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.52
Consensus pattern (30 bp):
TTTTTTTTATCAACTTTTAAGAGACCTAAA
Found at i:34901997 original size:60 final size:60
Alignment explanation
Indices: 34901903--34902023 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
34901893 ATAAAGAATT
34901903 TGAAAATACATCAAATGGATGTAAAGACAATTTTCTTAAATGGTGACTTTGATGAAGAGG
1 TGAAAATACATCAAATGGATGTAAAGACAATTTTCTTAAATGGTGACTTTGATGAAGAGG
*
34901963 TGAAAATACATCAAATGGATGTAAAGACAGTTTTCTTAAATGGTGACTTTGATGAAGAGG
1 TGAAAATACATCAAATGGATGTAAAGACAATTTTCTTAAATGGTGACTTTGATGAAGAGG
34902023 T
1 T
34902024 TTATCTTCGT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (60 bp):
TGAAAATACATCAAATGGATGTAAAGACAATTTTCTTAAATGGTGACTTTGATGAAGAGG
Found at i:34902746 original size:38 final size:36
Alignment explanation
Indices: 34902672--34902753 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 36
34902662 TCACCTCAAC
*
34902672 AAAAAAAATAAAAATTATAAAAATATTCAAACATTA
1 AAAAAAAATAAAAATTATAAAAATATTCAAAAATTA
*
34902708 ATAAAAAATATAAAATTATAAAAAGT-TGGT-AAAAATTA
1 AAAAAAAATA-AAAATTATAAAAA-TAT--TCAAAAATTA
34902746 AAAAAAAA
1 AAAAAAAA
34902754 AAGTACATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
36 9 0.23
37 14 0.36
38 15 0.38
39 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (36 bp):
AAAAAAAATAAAAATTATAAAAATATTCAAAAATTA
Found at i:34902751 original size:37 final size:35
Alignment explanation
Indices: 34902672--34902752 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 35
34902662 TCACCTCAAC
*
34902672 AAAAAAAATAAAAATTATAAAAATATTCAAACATT
1 AAAAAAAATAAAAATTATAAAAATATTCAAAAATT
34902707 AATAAAAAATATAAAATTATAAAAAGT-TGGT-AAAAATT
1 AA-AAAAAATA-AAAATTATAAAAA-TAT--TCAAAAATT
34902745 AAAAAAAA
1 AAAAAAAA
34902753 AAAGTACATA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
35 2 0.05
36 8 0.20
37 20 0.50
38 9 0.22
39 1 0.03
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (35 bp):
AAAAAAAATAAAAATTATAAAAATATTCAAAAATT
Found at i:34904457 original size:25 final size:26
Alignment explanation
Indices: 34904422--34904473 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
34904412 TGTGGTTAAC
34904422 ATTAAAAATTCAACA-TATATAAAAA
1 ATTAAAAATTCAACATTATATAAAAA
* **
34904447 ATTAAATATTCATTATTATATAAAAA
1 ATTAAAAATTCAACATTATATAAAAA
34904473 A
1 A
34904474 AACACTAGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
ATTAAAAATTCAACATTATATAAAAA
Found at i:34904694 original size:23 final size:24
Alignment explanation
Indices: 34904668--34904714 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
34904658 AAAATATTAT
* * *
34904668 TTTAATTTTTTATT-TTTTTAATC
1 TTTAAATTTATATTATTTATAATC
34904691 TTTAAATTTATATTATTTATAATC
1 TTTAAATTTATATTATTTATAATC
34904715 GCTTTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTAAATTTATATTATTTATAATC
Found at i:34911174 original size:20 final size:20
Alignment explanation
Indices: 34911137--34911175 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34911127 TTTTTTCTAT
* *
34911137 ATTAACTTATCAATATTTTA
1 ATTAACTAATCAAAATTTTA
*
34911157 ATTAACTAATTAAAATTTT
1 ATTAACTAATCAAAATTTT
34911176 TTTTACCTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAACTAATCAAAATTTTA
Found at i:34916532 original size:78 final size:79
Alignment explanation
Indices: 34916403--34916564 Score: 254
Period size: 78 Copynumber: 2.1 Consensus size: 79
34916393 ATTCTAGAGT
* * * * *
34916403 TAAAATTGATATTGTATTTATATCATATCTCATGTCATAATCGAGTTTAACA-TAAAATATATTC
1 TAAAATTGATATCGTATTTAAATCACATATCATATCATAATCGAGTTTAACAGTAAAATATATTC
34916467 ATGTTTTTATTAGA
66 ATGTTTTTATTAGA
34916481 TAAAATTGATATCGTATTTAAATCACATATCATATCATAATCGAGTTTAACATGTAAAATATATT
1 TAAAATTGATATCGTATTTAAATCACATATCATATCATAATCGAGTTTAACA-GTAAAATATATT
*
34916546 CATGTTTTTATTATA
65 CATGTTTTTATTAGA
34916561 TAAA
1 TAAA
34916565 TTTTGATACA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
78 47 0.62
80 29 0.38
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (79 bp):
TAAAATTGATATCGTATTTAAATCACATATCATATCATAATCGAGTTTAACAGTAAAATATATTC
ATGTTTTTATTAGA
Found at i:34919321 original size:23 final size:24
Alignment explanation
Indices: 34919294--34919338 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
34919284 CATATTATTC
*
34919294 TATATTATTAATATAT-TTTAATT
1 TATATAATTAATATATATTTAATT
*
34919317 TATATAATTTATATATATTTAA
1 TATATAATTAATATATATTTAA
34919339 ATGATAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATAATTAATATATATTTAATT
Found at i:34919681 original size:23 final size:22
Alignment explanation
Indices: 34919655--34919744 Score: 67
Period size: 23 Copynumber: 3.9 Consensus size: 22
34919645 TAAATAACGC
*
34919655 ATATTTTCTTTATATATTTATTT
1 ATATTTTATTTATATATTTA-TT
* *
34919678 ATATATTATTAATATTATTTA-T
1 ATATTTTATTTATA-TATTTATT
*
34919700 ATATTTTAATTTATATAACTTATAT
1 ATATTTT-ATTTATAT-ATTTAT-T
*
34919725 ATATTTAAATTT-TATATTTA
1 ATATTT-TATTTATATATTTA
34919745 AATTATATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
22 8 0.15
23 25 0.47
24 9 0.17
25 11 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
ATATTTTATTTATATATTTATT
Found at i:34919697 original size:20 final size:18
Alignment explanation
Indices: 34919670--34919713 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 18
34919660 TTCTTTATAT
34919670 ATTTATTTATATATTATTA
1 ATTTATTTATATATT-TTA
34919689 ATATTATTTATATATTTTA
1 AT-TTATTTATATATTTTA
34919708 ATTTAT
1 ATTTAT
34919714 ATAACTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.17
19 7 0.29
20 13 0.54
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTATTTATATATTTTA
Found at i:34919740 original size:13 final size:13
Alignment explanation
Indices: 34919722--34919760 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
34919712 ATATAACTTA
34919722 TATATATTTAAAT
1 TATATATTTAAAT
*
34919735 TTTATATTTAAAT
1 TATATATTTAAAT
34919748 TATATATTTAAAT
1 TATATATTTAAAT
34919761 GATAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATATTTAAAT
Found at i:34919938 original size:21 final size:21
Alignment explanation
Indices: 34919898--34919936 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34919888 AAATCATGAA
*
34919898 TAAATTCAAGCGACTCTTTCT
1 TAAATTCAAGCAACTCTTTCT
34919919 TAAATTCAAGCAA-TCTTT
1 TAAATTCAAGCAACTCTTT
34919937 TCATAAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (21 bp):
TAAATTCAAGCAACTCTTTCT
Found at i:34921944 original size:2 final size:2
Alignment explanation
Indices: 34921873--34921926 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
34921863 TGTTTTTCTA
34921873 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34921915 AT AT AT AT AT AT
1 AT AT AT AT AT AT
34921927 TTGAATTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34929324 original size:18 final size:19
Alignment explanation
Indices: 34929303--34929338 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34929293 AAATTTTAGA
*
34929303 ATTTTTATAAA-TATTTTT
1 ATTTTTAAAAATTATTTTT
34929321 ATTTTTAAAAATTATTTT
1 ATTTTTAAAAATTATTTT
34929339 GAAATTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTAAAAATTATTTTT
Found at i:34941350 original size:82 final size:83
Alignment explanation
Indices: 34941264--34941453 Score: 192
Period size: 82 Copynumber: 2.3 Consensus size: 83
34941254 ATTTCTGAAT
* * * * * *
34941264 GGATTAAATAG-AATTTTTT-ATTTTAGGGGGGCTAAAGTGA-AATTTTATTATATATTATTTTG
1 GGATTAAATAGAAATTTTTTCATTTT-GAGGGGC-AAAAT-ACAATTTCACTATATATTAATTTA
34941326 TAA-TTTCTTTATTTAAAAGA
63 TAATTTTCTTTATTTAAAAGA
* * *
34941346 GGATTGAATTGAAATTTTTTCATTTTGAGGGTCAAAATACAATTTCACTATATATTAATTTATAA
1 GGATTAAATAGAAATTTTTTCATTTTGAGGGGCAAAATACAATTTCACTATATATTAATTTATAA
* *
34941411 TTTTTTTTATTTATAAGA
66 TTTTCTTTATTTAAAAGA
* * *
34941429 GGACTAAATTGAAA-ATTTTCATTTT
1 GGATTAAATAGAAATTTTTTCATTTT
34941454 TGGGGCCAAG
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
81 1 0.01
82 44 0.49
83 40 0.44
84 5 0.06
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (83 bp):
GGATTAAATAGAAATTTTTTCATTTTGAGGGGCAAAATACAATTTCACTATATATTAATTTATAA
TTTTCTTTATTTAAAAGA
Found at i:34941843 original size:16 final size:16
Alignment explanation
Indices: 34941818--34941860 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
34941808 TGGTTCGCTG
34941818 TAATGGAATAGAGCTA
1 TAATGGAATAGAGCTA
* *
34941834 TAATGTAATAGAGCTG
1 TAATGGAATAGAGCTA
34941850 TAATGGAATAG
1 TAATGGAATAG
34941861 GATTGTAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.28
Consensus pattern (16 bp):
TAATGGAATAGAGCTA
Found at i:34947448 original size:16 final size:17
Alignment explanation
Indices: 34947413--34947451 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
34947403 AAATTAAGAG
*
34947413 TTATTTTTTAATTTAAT
1 TTATTATTTAATTTAAT
*
34947430 TTATTATTT-ATTTATT
1 TTATTATTTAATTTAAT
34947446 TTATTA
1 TTATTA
34947452 ATTTTCACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTATTTAATTTAAT
Found at i:34957643 original size:31 final size:29
Alignment explanation
Indices: 34957593--34957650 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
34957583 TAAAATAGAG
* *
34957593 TTTTTTTCTAATTTGGTCACTTTAATTTT
1 TTTTTTTCTAATTTAGTCACTCTAATTTT
34957622 TTTTTCTTCTCAATTTAGTCACTCTAATT
1 TTTTT-TTCT-AATTTAGTCACTCTAATT
34957651 AAGATAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 4 0.16
31 16 0.64
ACGTcount: A:0.19, C:0.16, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTTTTTCTAATTTAGTCACTCTAATTTT
Found at i:34959200 original size:28 final size:27
Alignment explanation
Indices: 34959122--34959202 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 27
34959112 AATTTTCTTG
* * *
34959122 TTCTCAATTTTTTATTCTTAAATGCCAA
1 TTCTCGATTTTTTAATC-TAAATTCCAA
34959150 TTCTCGATTTTTTAATCTAAATTCTCAA
1 TTCTCGATTTTTTAATCTAAATTC-CAA
34959178 TTCTCGATTTTTTAATCTAAATTCC
1 TTCTCGATTTTTTAATCTAAATTCC
34959203 CAAATTTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
27 7 0.14
28 42 0.86
ACGTcount: A:0.27, C:0.19, G:0.04, T:0.51
Consensus pattern (27 bp):
TTCTCGATTTTTTAATCTAAATTCCAA
Done.