Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 96 of 172
Found at i:27753839 original size:188 final size:186
Alignment explanation
Indices: 27753601--27753958 Score: 470
Period size: 188 Copynumber: 1.9 Consensus size: 186
27753591 CATTAGAGGT
* * **
27753601 GCTTAATTAAAAACGCCACTAAATCCCCGAAAGCTCCGAAAATGGTGTCGTTGGGCTTAGGTATT
1 GCTTAACTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACAGTGTCGTTGGGCTTAGGT-TT
* *
27753666 -TTTGCGGCGCTTT-CTCAAAAACGCCACTAAAGCCCTTGGCATTTGC-AGCGCTTACATAAAAA
65 CTTTGCGGCGCTTTAC-CAAAAACGCCACTAAAGCCCTTAGCATTAGCGA-CGCTTACATAAAAA
*
27753728 CGCCACTAAATCGCCAAAAGCTCAAAAAACGGCGTCGTTAGGCTGAGGTATTTTTGCGGC
128 CGCCACTAAATCGCCAAAAGCTC-AAAAACGACGTCGTTAGGCTGAGGTATTTTTGCGGC
* *
27753788 GCTTAACTAAAAACGCCACTAAATCCGCGAAAAGCTCAGAAAACAGTGTCGTTGGGCTTATGTTT
1 GCTTAACTAAAAACGCCACTAAATCCCCG-AAAGCTCAGAAAACAGTGTCGTTGGGCTTAGGTTT
** * * * * *
27753853 CTTTGCGGCGCTTTACCGTAAATGCCGCTAAAGCCCTTAGCGTTAGCGATGCTTACCTAAAAACG
65 CTTTGCGGCGCTTTACCAAAAACGCCACTAAAGCCCTTAGCATTAGCGACGCTTACATAAAAACG
* * * *
27753918 CCGCTAAATCTCCGAAAGCTCAGAAACGACGTCGTTAGGCT
130 CCACTAAATCGCCAAAAGCTCAAAAACGACGTCGTTAGGCT
27753959 TACGTTTTTT
Statistics
Matches: 147, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
187 47 0.32
188 98 0.67
189 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (186 bp):
GCTTAACTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACAGTGTCGTTGGGCTTAGGTTTC
TTTGCGGCGCTTTACCAAAAACGCCACTAAAGCCCTTAGCATTAGCGACGCTTACATAAAAACGC
CACTAAATCGCCAAAAGCTCAAAAACGACGTCGTTAGGCTGAGGTATTTTTGCGGC
Found at i:27755259 original size:14 final size:14
Alignment explanation
Indices: 27755232--27755270 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
27755222 ACATAATCCT
*
27755232 TAACCCCTAGACCCC
1 TAACCCTTA-ACCCC
27755247 TAACCCTTAACCCC
1 TAACCCTTAACCCC
*
27755261 CAACCCTTAA
1 TAACCCTTAA
27755271 ACCATAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.31, C:0.49, G:0.03, T:0.18
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:27755280 original size:15 final size:14
Alignment explanation
Indices: 27755262--27755321 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
27755252 CTTAACCCCC
27755262 AACCCTTAAACCATA
1 AACCC-TAAACCATA
* *
27755277 AACCATAATCCATA
1 AACCCTAAACCATA
*
27755291 ATCCCTAAACACATA
1 AACCCTAAAC-CATA
* *
27755306 ATCCCTAAACCTTA
1 AACCCTAAACCATA
27755320 AA
1 AA
27755322 ATTTGGATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
14 19 0.51
15 18 0.49
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCCTAAACCATA
Found at i:27755321 original size:22 final size:21
Alignment explanation
Indices: 27755268--27755321 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
27755258 CCCCAACCCT
27755268 TAAACCATAAACCATAATCCA
1 TAAACCATAAACCATAATCCA
* * *
27755289 TAATCCCTAAACACATAATCCC
1 TAAACCATAAAC-CATAATCCA
*
27755311 TAAACCTTAAA
1 TAAACCATAAA
27755322 ATTTGGATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCATAAACCATAATCCA
Found at i:27755765 original size:14 final size:14
Alignment explanation
Indices: 27755743--27755781 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
27755733 CCTAATCCTT
* *
27755743 AAACTCTAAACCAT
1 AAACCCTAAACCAA
*
27755757 ATACCCTAAACCAA
1 AAACCCTAAACCAA
27755771 AAACCCTAAAC
1 AAACCCTAAAC
27755782 ACTAGTGATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCCTAAACCAA
Found at i:27756021 original size:41 final size:41
Alignment explanation
Indices: 27755955--27756211 Score: 286
Period size: 41 Copynumber: 6.3 Consensus size: 41
27755945 TAAATTATTT
* * ** *
27755955 TAAATCCTTGAGCATTAGCGGCGCTTTATCAAAAACGTCAC
1 TAAAGCCTCGAGCATTAGCGGCGCTTTCCCAAAAACGTCGC
*
27755996 TAAAGCCTCGAGCATTAGCGGCGCTTTTCCAAAAAC-TCCGC
1 TAAAGCCTCGAGCATTAGCGGCGCTTTCCCAAAAACGT-CGC
** *
27756037 TAAAGCCAGGAGCATTAGCGGCGCTTTCCCAAAAACGTCGT
1 TAAAGCCTCGAGCATTAGCGGCGCTTTCCCAAAAACGTCGC
* * *
27756078 TAAAAGCCT-GAGCATTAGCGGCACTTTCCCAAAAATGCCGC
1 T-AAAGCCTCGAGCATTAGCGGCGCTTTCCCAAAAACGTCGC
* * *
27756119 TAAAGCCTTGAGCATTAGCGGCGCTTTCACAGAAACGTCGC
1 TAAAGCCTCGAGCATTAGCGGCGCTTTCCCAAAAACGTCGC
* * * * *
27756160 TAAATCC-CTGGGCATTAGTGGCGCTTTCCCAAAAATGCCGC
1 TAAAGCCTC-GAGCATTAGCGGCGCTTTCCCAAAAACGTCGC
27756201 TAAAGCCTCGA
1 TAAAGCCTCGA
27756212 AAGCTCAGAA
Statistics
Matches: 181, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
40 8 0.04
41 165 0.91
42 8 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
TAAAGCCTCGAGCATTAGCGGCGCTTTCCCAAAAACGTCGC
Found at i:27756175 original size:123 final size:123
Alignment explanation
Indices: 27755963--27756194 Score: 317
Period size: 123 Copynumber: 1.9 Consensus size: 123
27755953 TTTAAATCCT
* * *
27755963 TGAGCATTAGCGGCGCTTTATCAAAAACGTCACTAAAGCCTCGAGCATTAGCGGCGCTTTTCCAA
1 TGAGCATTAGCGGCACTTTACCAAAAACGCCACTAAAGCCTCGAGCATTAGCGGCGCTTTTCCAA
*
27756028 AAACTCCGCTAAAGCCAGGAGCATTAGCGGCGCTTTCCCAAAAACGTCGTTAAAAGCC
66 AAACTCCGCTAAACCCAGGAGCATTAGCGGCGCTTTCCCAAAAACGTCGTTAAAAGCC
* * * *
27756086 TGAGCATTAGCGGCACTTTCCCAAAAATGCCGCTAAAGCCTTGAGCATTAGCGGCGC-TTTCACA
1 TGAGCATTAGCGGCACTTTACCAAAAACGCCACTAAAGCCTCGAGCATTAGCGGCGCTTTTC-CA
* * *
27756150 GAAACGT-CGCTAAATCCCTGG-GCATTAGTGGCGCTTTCCCAAAAA
65 AAAAC-TCCGCTAAA-CCCAGGAGCATTAGCGGCGCTTTCCCAAAAA
27756195 TGCCGCTAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
122 4 0.04
123 86 0.91
124 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (123 bp):
TGAGCATTAGCGGCACTTTACCAAAAACGCCACTAAAGCCTCGAGCATTAGCGGCGCTTTTCCAA
AAACTCCGCTAAACCCAGGAGCATTAGCGGCGCTTTCCCAAAAACGTCGTTAAAAGCC
Found at i:27756208 original size:82 final size:81
Alignment explanation
Indices: 27755955--27756208 Score: 341
Period size: 82 Copynumber: 3.1 Consensus size: 81
27755945 TAAATTATTT
* *
27755955 TAAATCCTTGAGCATTAGCGGCGCTTT-ATCAAAAACGTCACTAAAGCCTCGAGCATTAGCGGCG
1 TAAAGCCTTGAGCATTAGCGGCGCTTTCA-CAAAAACGTCGCTAAAGCCT-GAGCATTAGCGGCG
*
27756019 CTTTTCCAAAAACT-CCGC
64 CTTTCCCAAAAA-TGCCGC
** * * *
27756037 TAAAGCCAGGAGCATTAGCGGCGCTTTCCCAAAAACGTCGTTAAAAGCCTGAGCATTAGCGGCAC
1 TAAAGCCTTGAGCATTAGCGGCGCTTTCACAAAAACGTCGCT-AAAGCCTGAGCATTAGCGGCGC
27756102 TTTCCCAAAAATGCCGC
65 TTTCCCAAAAATGCCGC
* * * *
27756119 TAAAGCCTTGAGCATTAGCGGCGCTTTCACAGAAACGTCGCTAAATCCCTGGGCATTAGTGGCGC
1 TAAAGCCTTGAGCATTAGCGGCGCTTTCACAAAAACGTCGCTAAA-GCCTGAGCATTAGCGGCGC
27756184 TTTCCCAAAAATGCCGC
65 TTTCCCAAAAATGCCGC
27756201 TAAAGCCT
1 TAAAGCCT
27756209 CGAAAGCTCA
Statistics
Matches: 151, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
81 4 0.03
82 140 0.93
83 7 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (81 bp):
TAAAGCCTTGAGCATTAGCGGCGCTTTCACAAAAACGTCGCTAAAGCCTGAGCATTAGCGGCGCT
TTCCCAAAAATGCCGC
Found at i:27757419 original size:19 final size:19
Alignment explanation
Indices: 27757395--27757440 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
27757385 TTAAAGAAAA
27757395 AATTAATTAATATTTAT-AT
1 AATTAATTAATA-TTATGAT
**
27757414 AATTAAAAAATATTATGAT
1 AATTAATTAATATTATGAT
27757433 -ATTAATTA
1 AATTAATTA
27757441 TTTTGTATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
AATTAATTAATATTATGAT
Found at i:27759991 original size:19 final size:20
Alignment explanation
Indices: 27759967--27760007 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
27759957 TCTGTTTTGA
*
27759967 TTTTA-TTTATTCTACTCTG
1 TTTTATTTTATTCTACTATG
*
27759986 TTTTATTTTGTTCTACTATG
1 TTTTATTTTATTCTACTATG
27760006 TT
1 TT
27760008 GTAGTACCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.15, C:0.12, G:0.07, T:0.66
Consensus pattern (20 bp):
TTTTATTTTATTCTACTATG
Found at i:27768786 original size:14 final size:16
Alignment explanation
Indices: 27768756--27768787 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
27768746 TAAAAAGTTA
27768756 TGTACTAGGGAATTTT
1 TGTACTAGGGAATTTT
27768772 TGTA-TAGGG-ATTTT
1 TGTACTAGGGAATTTT
27768786 TG
1 TG
27768788 GCTCTAGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 5 0.31
16 4 0.25
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.47
Consensus pattern (16 bp):
TGTACTAGGGAATTTT
Found at i:27803442 original size:27 final size:27
Alignment explanation
Indices: 27803412--27803638 Score: 312
Period size: 27 Copynumber: 8.4 Consensus size: 27
27803402 GGGTATAATA
27803412 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTG
*
27803439 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTTG
* * * * *
27803466 CTCATTCTAACCTATGGGGGTATTTTA
1 GTCATTTTACCCTATAGGGGTATTTTG
* *
27803493 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTTG
* * *
27803520 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTTG
* *
27803547 GTAATTTTACCCTATTGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTG
*
27803574 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTG
27803601 GTCATTTTACCCTAT-GAGGGTATTTTG
1 GTCATTTTACCCTATAG-GGGTATTTTG
27803628 GTCATTTTACC
1 GTCATTTTACC
27803639 TATTTTAGGG
Statistics
Matches: 176, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.01
27 175 0.99
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTTG
Found at i:27811620 original size:19 final size:19
Alignment explanation
Indices: 27811593--27811647 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
27811583 AAATCCCAGA
27811593 TTTTGATACCCATATCTTT
1 TTTTGATACCCATATCTTT
* *
27811612 TTTTTATACTCATATC--T
1 TTTTGATACCCATATCTTT
*
27811629 TTCTGATACCCATATCTTT
1 TTTTGATACCCATATCTTT
27811648 GACTTTTCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 14 0.48
19 15 0.52
ACGTcount: A:0.22, C:0.22, G:0.04, T:0.53
Consensus pattern (19 bp):
TTTTGATACCCATATCTTT
Found at i:27811642 original size:17 final size:17
Alignment explanation
Indices: 27811596--27811647 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
27811586 TCCCAGATTT
*
27811596 TGATACCCATATCTTTTTT
1 TGATACCCATATC--TTTC
* *
27811615 TTATACTCATATCTTTC
1 TGATACCCATATCTTTC
27811632 TGATACCCATATCTTT
1 TGATACCCATATCTTT
27811648 GACTTTTCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 17 0.61
19 11 0.39
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.50
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:27814052 original size:3 final size:3
Alignment explanation
Indices: 27814044--27814073 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
27814034 ATGTCTACCC
27814044 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27814074 ATTTTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27833717 original size:23 final size:23
Alignment explanation
Indices: 27833687--27833734 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
27833677 TTAAAACATA
* *
27833687 TAAATATTTCATAT-ATTAATAT
1 TAAATATTTAATATAATTAAGAT
27833709 TAAAGTATTTAATATAATTAAGAT
1 TAAA-TATTTAATATAATTAAGAT
27833733 TA
1 TA
27833735 TATAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 9 0.41
24 9 0.41
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (23 bp):
TAAATATTTAATATAATTAAGAT
Found at i:27835167 original size:31 final size:31
Alignment explanation
Indices: 27835132--27835197 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
27835122 CATAGATGAA
*
27835132 AATACTATACTTAGAGCACCAGATCCATCAC
1 AATACTACACTTAGAGCACCAGATCCATCAC
* *
27835163 AATACTACACTTAGGGCACCAGATCCATCAG
1 AATACTACACTTAGAGCACCAGATCCATCAC
27835194 AATA
1 AATA
27835198 TGATGCTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.21
Consensus pattern (31 bp):
AATACTACACTTAGAGCACCAGATCCATCAC
Found at i:27836702 original size:50 final size:50
Alignment explanation
Indices: 27836587--27836835 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
27836577 GATAATAACA
* * ** * *
27836587 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
27836638 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
27836688 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
27836738 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTC---TCATC-T-CGG
* *
27836793 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
27836836 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
50 92 0.54
51 33 0.19
53 4 0.02
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:27836773 original size:100 final size:104
Alignment explanation
Indices: 27836586--27836835 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 104
27836576 TGATAATAAC
** * *
27836586 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
27836651 TCCCAGACATGGTCTTATAGGGGACCTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
* *
27836688 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
27836752 CCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTC-T-TCATCTTAAGG
* *
27836793 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
27836836 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
100 48 0.37
101 36 0.27
103 4 0.03
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
Found at i:27836951 original size:13 final size:13
Alignment explanation
Indices: 27836930--27836960 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
27836920 GCTTAGATCA
*
27836930 TCATCAAATAAAT
1 TCATAAAATAAAT
27836943 TCATAAAATAAAT
1 TCATAAAATAAAT
27836956 TCATA
1 TCATA
27836961 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:27837208 original size:30 final size:30
Alignment explanation
Indices: 27837173--27837230 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27837163 CCTCGACTCT
*
27837173 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
27837203 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
27837231 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:27843165 original size:63 final size:62
Alignment explanation
Indices: 27843035--27843165 Score: 149
Period size: 62 Copynumber: 2.1 Consensus size: 62
27843025 GAGACACAGA
* * ** * *
27843035 CGTGTGTCCAAGTCGTGTGACACATTATTGTTATTAGAGACCACACGAGTCAGAGACATGGG
1 CGTGTGTCCAAGCCGTGTGACACACTATTGCGATTAGAGACCACACGAGGCAGAAACATGGG
* *
27843097 TGTGTGTCCAAGCCGTGTGACTCACTATTTGCGATCTA-AGACCACAC-AGGCAGACAACATGGG
1 CGTGTGTCCAAGCCGTGTGACACACTA-TTGCGAT-TAGAGACCACACGAGGCAGA-AACATGGG
27843160 CGTGTG
1 CGTGTG
27843166 ACAGGCCGTG
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
62 29 0.51
63 26 0.46
64 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (62 bp):
CGTGTGTCCAAGCCGTGTGACACACTATTGCGATTAGAGACCACACGAGGCAGAAACATGGG
Found at i:27844653 original size:18 final size:19
Alignment explanation
Indices: 27844626--27844661 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
27844616 CAAAAAAACT
27844626 AAAATAATTTTTAAAATTC
1 AAAATAATTTTTAAAATTC
27844645 AAAAT-ATTTTTAAAATT
1 AAAATAATTTTTAAAATT
27844662 TTCAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATAATTTTTAAAATTC
Found at i:27851143 original size:26 final size:25
Alignment explanation
Indices: 27851114--27851169 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
27851104 TTTACATCTC
27851114 AAAAAATTATAAA-A-AAATTATATAT
1 AAAAAATTA-AAACATAAA-TATATAT
27851139 AAAAAATTAAAACTATAAATATATAT
1 AAAAAATTAAAAC-ATAAATATATAT
27851165 AAAAA
1 AAAAA
27851170 TAAATCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 3 0.11
25 9 0.32
26 13 0.46
27 3 0.11
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAAAATTAAAACATAAATATATAT
Found at i:27854918 original size:60 final size:59
Alignment explanation
Indices: 27854802--27854918 Score: 128
Period size: 60 Copynumber: 2.0 Consensus size: 59
27854792 AGTATTTAAG
** * * ** *
27854802 ATTTTTTTTTGTCCAATTAGGTACCTAAAGTTAGTTTTAAGGTTCAATTTGGTACCTCA
1 ATTTTTTTTTGTCCAATTAAATACATAAACTTAGTTTTAAGGTTCAAAATGATACCTCA
* *
27854861 ATTTTTTTTTGGTCCACTTAAATACATAAACTTAGCTTTT-TGGTTCAAAATGATACCT
1 ATTTTTTTTT-GTCCAATTAAATACATAAACTTAG-TTTTAAGGTTCAAAATGATACCT
27854919 GAACTTGGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
59 10 0.21
60 33 0.70
61 4 0.09
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (59 bp):
ATTTTTTTTTGTCCAATTAAATACATAAACTTAGTTTTAAGGTTCAAAATGATACCTCA
Found at i:27860418 original size:24 final size:24
Alignment explanation
Indices: 27860386--27860435 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
27860376 TGGTGGAGGT
*
27860386 GACACGTGTGTTGCAACCAAATCA
1 GACACGTGTGGTGCAACCAAATCA
*
27860410 GACACGTGTGGTGCAACCGAATCA
1 GACACGTGTGGTGCAACCAAATCA
27860434 GA
1 GA
27860436 TCACATGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (24 bp):
GACACGTGTGGTGCAACCAAATCA
Found at i:27865170 original size:16 final size:17
Alignment explanation
Indices: 27865151--27865183 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27865141 AAATTTATAC
*
27865151 ATATATA-ATATGAAAA
1 ATATATAGAAATGAAAA
27865167 ATATATAGAAATGAAAA
1 ATATATAGAAATGAAAA
27865184 TTATTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (17 bp):
ATATATAGAAATGAAAA
Found at i:27866060 original size:20 final size:20
Alignment explanation
Indices: 27866037--27866075 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
27866027 GTGTCGTGAC
*
27866037 TCTGGTCCTGATGTCGCGAT
1 TCTGGTCCTGATGTAGCGAT
27866057 TCTGGTCCTGATGTAGCGA
1 TCTGGTCCTGATGTAGCGA
27866076 CTTTAGCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.31, T:0.33
Consensus pattern (20 bp):
TCTGGTCCTGATGTAGCGAT
Found at i:27870373 original size:31 final size:31
Alignment explanation
Indices: 27870335--27870395 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
27870325 TACATAGACG
27870335 AAAATACTACACTTAGGACACCAGATCCATT
1 AAAATACTACACTTAGGACACCAGATCCATT
* *
27870366 AAAATACTATACTTAGGGCACCAGATCCAT
1 AAAATACTACACTTAGGACACCAGATCCAT
27870396 CGGAATATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (31 bp):
AAAATACTACACTTAGGACACCAGATCCATT
Found at i:27875345 original size:3 final size:3
Alignment explanation
Indices: 27875339--27875371 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
27875329 GTTGCTGTTG
*
27875339 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27875372 CTCTTATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:27877223 original size:3 final size:3
Alignment explanation
Indices: 27877215--27877300 Score: 154
Period size: 3 Copynumber: 28.7 Consensus size: 3
27877205 CGACTTCGTT
*
27877215 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
27877263 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27877301 TCTTTCATTT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27877871 original size:19 final size:19
Alignment explanation
Indices: 27877834--27877872 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
27877824 CTTTGTATTT
*
27877834 ATTTCAATTTGGCTCTCAA
1 ATTTCAATTTGGATCTCAA
* *
27877853 ATTTCAATTTTGATTTCAA
1 ATTTCAATTTGGATCTCAA
27877872 A
1 A
27877873 ATTAGTCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (19 bp):
ATTTCAATTTGGATCTCAA
Found at i:27877915 original size:3 final size:3
Alignment explanation
Indices: 27877909--27877941 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
27877899 GTTGTTGTTG
*
27877909 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27877942 CTCTTATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:27878169 original size:22 final size:21
Alignment explanation
Indices: 27878113--27878169 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
27878103 AAGATGTAGT
27878113 ATGCTATTATTTTTAAATTATC
1 ATGC-ATTATTTTTAAATTATC
* **
27878135 AT-TAACATGTTTTAAATTTATC
1 ATGCATTAT-TTTTAAA-TTATC
27878157 ATGCATTATTTTT
1 ATGCATTATTTTT
27878170 TAGTCTATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
20 3 0.12
21 7 0.27
22 13 0.50
23 3 0.12
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (21 bp):
ATGCATTATTTTTAAATTATC
Found at i:27879668 original size:99 final size:98
Alignment explanation
Indices: 27879479--27879682 Score: 306
Period size: 99 Copynumber: 2.1 Consensus size: 98
27879469 AAAAACTAAA
27879479 AAAAAAAATTTTGGTGGTGGCCTGCAAATGGCCGGCACCACCTTTTTTGGGGGAATTTTTTTTTT
1 AAAAAAAATTTT-GTGGTGGCCTGCAAATGGCCGGCACCACCTTTTTTGGGGGAATTTTTTTTTT
* *
27879544 ACTTTTTTCGTGTCAATAGTAGGTATTAGTATAC
65 ACTTTTTTCGTGTCAATAGCAGGTATCAGTATAC
* *
27879578 GAAAAAAAA-TTT-TGGTGGCCTGCCAATGGCCGGCAGCACC-TTTTTGGGGGAAATTTTGTTTT
1 -AAAAAAAATTTTGTGGTGGCCTGCAAATGGCCGGCACCACCTTTTTTGGGGG-AATTTT-TTTT
27879640 TTCACTTTTTTCGTGTCAATAGCAGGTATCAGTATAC
63 TT-ACTTTTTTCGTGTCAATAGCAGGTATCAGTATAC
27879677 AAAAAA
1 AAAAAA
27879683 GTAAAAAAAA
Statistics
Matches: 97, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
96 10 0.10
97 32 0.33
98 12 0.12
99 35 0.36
100 8 0.08
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (98 bp):
AAAAAAAATTTTGTGGTGGCCTGCAAATGGCCGGCACCACCTTTTTTGGGGGAATTTTTTTTTTA
CTTTTTTCGTGTCAATAGCAGGTATCAGTATAC
Found at i:27879754 original size:143 final size:143
Alignment explanation
Indices: 27879590--27879858 Score: 411
Period size: 141 Copynumber: 1.9 Consensus size: 143
27879580 AAAAAAATTT
* *
27879590 TGGTGGCCTGCCAATGGCCGGCAGCACC-TTTTTGGGGGAAATTTTGTTTTTTCACTTTTTTCGT
1 TGGTGGCCTACCAATGGCCGGCACCACCTTTTTTGGGGG-AATTTT-TTTTTT-ACTTTTTTCGT
* * *
27879654 GTCAATAGCAGGTATCAGTATAC-AAAAAAG-T-AAAAAAAATTTGGTGGTGGTCTGCCAATGGT
63 GTCAATAACAGGTATAAGTATACGAAAAAAGATAAAAAAAAATTT-GTGGTGGCCTGCCAATGGT
27879716 AAAAAATATATTTTTGG
127 AAAAAATATATTTTTGG
*
27879733 TGGTGGCCTACCAATGGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTTACTTTTTTCGTGTC
1 TGGTGGCCTACCAATGGCCGGCACCACCTTTTTTGGGGGAATTTTTTTTTTACTTTTTTCGTGTC
27879798 AATAACAGGTATAAGTATACGAAAAAAGTATAAAAAAAAATTTGTGGTGGCCTGCCAATGG
66 AATAACAGGTATAAGTATACGAAAAAAG-ATAAAAAAAAATTTGTGGTGGCCTGCCAATGG
27879859 CCAGCACCAC
Statistics
Matches: 115, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
141 32 0.28
142 13 0.11
143 32 0.28
144 27 0.23
145 11 0.10
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (143 bp):
TGGTGGCCTACCAATGGCCGGCACCACCTTTTTTGGGGGAATTTTTTTTTTACTTTTTTCGTGTC
AATAACAGGTATAAGTATACGAAAAAAGATAAAAAAAAATTTGTGGTGGCCTGCCAATGGTAAAA
AATATATTTTTGG
Found at i:27879784 original size:240 final size:239
Alignment explanation
Indices: 27879487--27879940 Score: 637
Period size: 240 Copynumber: 1.9 Consensus size: 239
27879477 AAAAAAAAAA
*
27879487 TTTTGGTGGTGGCCTGCAAATGGCCGGCACCACCTTTTTTGGGGGAATTTTTTTTTTACTTTTTT
1 TTTTGGTGGTGGCCTACAAATGGCCGGCACCACCTTTTTTGGGGGAATTTTTTTTTTACTTTTTT
** * * *
27879552 CGTGTCAATAGTAGGTATTAGTATAC-G-AAAAAAAATTT-TGGTGGCCTGCCAATGGCCGGCAG
66 CGTGTCAATAACAGGTATAAGTATACAGAAAAAAAAATTTGTGGTGGCCTGCCAATGGCCAGCAC
** *
27879614 CACCTTTTTGGGGGAAATTTTGTTTTTTCACTTTTTTCGTGTCAATAGCAGGTATCAGTATAC-A
131 CACCTTTTTGGGGGAAA---T-TTTTTT-AAATTTTTCGTGTCAATAACAGGTATCAGTATACAA
27879678 AAAAAGTAAAAAAAATTTGGTGGTGGTCTGCCAATGGTAAAAAATATAT
191 AAAAAGTAAAAAAAATTTGGTGGTGGTCTGCCAATGGTAAAAAATATAT
* *
27879727 TTTTGGTGGTGGCCTACCAATGGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTTACTTTTTT
1 TTTTGGTGGTGGCCTACAAATGGCCGGCACCACCTTTTTTGGGGGAATTTTTTTTTTACTTTTTT
27879792 CGTGTCAATAACAGGTATAAGTATACGAAAAAAGTATAAAAAAAAATTTGTGGTGGCCTGCCAAT
66 CGTGTCAATAACAGGTATAAGTATAC------AG---AAAAAAAAATTTGTGGTGGCCTGCCAAT
* *
27879857 GGCCAGCACCACCTTTTTTGTGGAAATTTTTTTAAATTTTTCGTGTCAATAACAGGTATCAGTAT
122 GGCCAGCACCACCTTTTTGGGGGAAATTTTTTTAAATTTTTCGTGTCAATAACAGGTATCAGTAT
27879922 ACAAAAAAAGTAAAAAAAA
187 ACAAAAAAAGTAAAAAAAA
27879941 ATTCCCCAAA
Statistics
Matches: 188, Mismatches: 13, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
240 85 0.45
247 32 0.17
248 22 0.12
249 1 0.01
251 11 0.06
252 37 0.20
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (239 bp):
TTTTGGTGGTGGCCTACAAATGGCCGGCACCACCTTTTTTGGGGGAATTTTTTTTTTACTTTTTT
CGTGTCAATAACAGGTATAAGTATACAGAAAAAAAAATTTGTGGTGGCCTGCCAATGGCCAGCAC
CACCTTTTTGGGGGAAATTTTTTTAAATTTTTCGTGTCAATAACAGGTATCAGTATACAAAAAAA
GTAAAAAAAATTTGGTGGTGGTCTGCCAATGGTAAAAAATATAT
Found at i:27879932 original size:106 final size:107
Alignment explanation
Indices: 27879732--27879941 Score: 325
Period size: 106 Copynumber: 2.0 Consensus size: 107
27879722 TATATTTTTG
* * **
27879732 GTGGTGGCCTACCAATGGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTTACTTTTTTCGTGT
1 GTGGTGGCCTACCAATGGCCAGCACCACCTTTTTTGTGGGAA-TATTTTTTTAAATTTTTCGTGT
*
27879797 CAATAACAGGTATAAGTATACGAAAAAAGTATAAAAAAAAATTT
65 CAATAACAGGTATAAGTATACAAAAAAAGTA-AAAAAAAAATTT
*
27879841 GTGGTGGCCTGCCAATGGCCAGCACCACCTTTTTTGT-GGAA-ATTTTTTTAAATTTTTCGTGTC
1 GTGGTGGCCTACCAATGGCCAGCACCACCTTTTTTGTGGGAATATTTTTTTAAATTTTTCGTGTC
*
27879904 AATAACAGGTATCAGTATACAAAAAAAGTAAAAAAAAA
66 AATAACAGGTATAAGTATACAAAAAAAGTAAAAAAAAA
27879942 TTCCCCAAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
105 8 0.09
106 47 0.50
108 4 0.04
109 35 0.37
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (107 bp):
GTGGTGGCCTACCAATGGCCAGCACCACCTTTTTTGTGGGAATATTTTTTTAAATTTTTCGTGTC
AATAACAGGTATAAGTATACAAAAAAAGTAAAAAAAAAATTT
Found at i:27881727 original size:42 final size:42
Alignment explanation
Indices: 27881668--27881751 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
27881658 GCAGTTTTCG
*
27881668 TTACCTCTGCAACATCATGTAGTTGTCCGGTAGTGAAATTGA
1 TTACCTCTGCAACATCATATAGTTGTCCGGTAGTGAAATTGA
* *
27881710 TTACCTCTGCAACATCATATAGTTGTTCTGTAGTGAAATTGA
1 TTACCTCTGCAACATCATATAGTTGTCCGGTAGTGAAATTGA
27881752 ACACTGCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (42 bp):
TTACCTCTGCAACATCATATAGTTGTCCGGTAGTGAAATTGA
Found at i:27883622 original size:55 final size:55
Alignment explanation
Indices: 27883538--27883710 Score: 262
Period size: 55 Copynumber: 3.2 Consensus size: 55
27883528 TTTTTTTTCT
* * * *
27883538 TCATTCATTTCAA--TTGTTTTTCTACATCTAACACCCTTTTTTTCCATTTAATC
1 TCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTTTTTTTTCATTCAATC
27883591 TCATTTATTTCAATTTTATTTTTCTACATCTAACA-CCTTTTTTTGTCATTCAATC
1 TCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTTTTTTT-TCATTCAATC
* *
27883646 TCATTTATTTCAATTTTATTTTTCTAGATCTAACACCTTTTTTTTTCATTCAATC
1 TCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTTTTTTTTCATTCAATC
27883701 TCATTTATTT
1 TCATTTATTT
27883711 TAATATTTTG
Statistics
Matches: 110, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
53 12 0.11
54 9 0.08
55 81 0.74
56 8 0.07
ACGTcount: A:0.23, C:0.20, G:0.02, T:0.55
Consensus pattern (55 bp):
TCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTTTTTTTTCATTCAATC
Found at i:27883868 original size:106 final size:108
Alignment explanation
Indices: 27883740--27883952 Score: 279
Period size: 114 Copynumber: 1.9 Consensus size: 108
27883730 TTTTTTTACA
* **
27883740 TAAAGGTGGTGCTGGCCATTGCCAGGCCACCACC-AAAAAAA-TTTTGAATTTTTTCGCATACT-
1 TAAAGGTCGTGCCAGCCATTGCCAGGCCACCACCAAAAAAAATTTTTGAATTTTTTCGCATACTA
* *
27883802 GATACTGGCCAATGACAGCCAAAATGTAGAAAAAAAATTTTAAG
66 G-TACCGGCCAATGACAGCCAAAATGTAAAAAAAAAATTTTAAG
*
27883846 TAAAGGTCGTGCCAGCCATTGCCAGGCCACCACCAAAAAAAATTTTTTTTTTTGAATTTTTTCGT
1 TAAAGGTCGTGCCAGCCATTGCCAGGCCACCACCAAAAAAAA------TTTTTGAATTTTTTCGC
*
27883911 ATACTAGTGCCGGCCAATGACAGCCAAAATGTAAAAAAAAAA
60 ATACTAGTACCGGCCAATGACAGCCAAAATGTAAAAAAAAAA
27883953 AAAGAATTTG
Statistics
Matches: 91, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
106 31 0.34
107 7 0.08
114 52 0.57
115 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (108 bp):
TAAAGGTCGTGCCAGCCATTGCCAGGCCACCACCAAAAAAAATTTTTGAATTTTTTCGCATACTA
GTACCGGCCAATGACAGCCAAAATGTAAAAAAAAAATTTTAAG
Found at i:27885235 original size:55 final size:55
Alignment explanation
Indices: 27885135--27885313 Score: 283
Period size: 55 Copynumber: 3.3 Consensus size: 55
27885125 ACTTTTTTTT
* *
27885135 TCATTCATTTCAATTTT-TTTTTCTACATCTAACA--CTTTTTTTTCATTTAATC
1 TCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTTTTTTTTCATTCAATC
27885187 TCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTTTTTTTTCATTCAATC
1 TCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTTTTTTTTCATTCAATC
* * *
27885242 TCATTTATTTCAATTTAATTTTTCAACATCTAACACCCTGTTTTTTCATTCAATC
1 TCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTTTTTTTTCATTCAATC
*
27885297 TCATTTATTTTAATTTT
1 TCATTTATTTCAATTTT
27885314 TTGAATTTTA
Statistics
Matches: 117, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
52 16 0.14
53 17 0.15
55 84 0.72
ACGTcount: A:0.25, C:0.20, G:0.01, T:0.55
Consensus pattern (55 bp):
TCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTTTTTTTTCATTCAATC
Found at i:27885449 original size:107 final size:108
Alignment explanation
Indices: 27885324--27885537 Score: 385
Period size: 108 Copynumber: 2.0 Consensus size: 108
27885314 TTGAATTTTA
* *
27885324 TTTTTTTACATAAAGGTGGTGTCGGCCATTGCCAGGCCACCACC-AAAATTTTTTTTTTTGAATT
1 TTTTTTTACATAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAAAAATTTTTATTTTTGAATT
27885388 TTTTCGTATACTGGTGCCAGACAATGACAACCAAAATGTAAAT
66 TTTTCGTATACTGGTGCCAGACAATGACAACCAAAATGTAAAT
27885431 TTTTTTTACATAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAAAAATTTTTATTTTTGAATT
1 TTTTTTTACATAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAAAAATTTTTATTTTTGAATT
* *
27885496 TTTTCGTATACTGGTGCCGGCCAATGACAACCAAAATGTAAA
66 TTTTCGTATACTGGTGCCAGACAATGACAACCAAAATGTAAA
27885538 AAAAAAAATT
Statistics
Matches: 102, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
107 43 0.42
108 59 0.58
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (108 bp):
TTTTTTTACATAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAAAAATTTTTATTTTTGAATT
TTTTCGTATACTGGTGCCAGACAATGACAACCAAAATGTAAAT
Found at i:27886799 original size:56 final size:55
Alignment explanation
Indices: 27886711--27886874 Score: 224
Period size: 55 Copynumber: 3.0 Consensus size: 55
27886701 ACTTTTTTTT
* *
27886711 TCATTCATTTCAA-TTT-TTTTTCTACGTCTAACACCCTTTTTTTTTCATTCAATC
1 TCATTTATTTCAATTTTATTTTTCTACATCTAACACCC-TTTTTTTTCATTCAATC
*
27886765 TCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTTTTTTTTCTTTCAATC
1 TCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTTTTTTTTCATTCAATC
* * ** *
27886820 TAATTTATTTCAATTTTATTTTTTTACATCTAATTTCCCTTTATTTTCATTCAAT
1 TCATTTATTTCAATTTTATTTTTCTACATCTAA-CACCCTTTTTTTTCATTCAAT
27886875 TTTATTTTTC
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
54 12 0.12
55 50 0.51
56 36 0.37
ACGTcount: A:0.23, C:0.20, G:0.01, T:0.57
Consensus pattern (55 bp):
TCATTTATTTCAATTTTATTTTTCTACATCTAACACCCTTTTTTTTCATTCAATC
Found at i:27887006 original size:14 final size:13
Alignment explanation
Indices: 27886971--27887007 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
27886961 TAATTTCATT
27886971 TTTTGATTTTAATA
1 TTTT-ATTTTAATA
27886985 TTTTATTTTAATA
1 TTTTATTTTAATA
*
27886998 TTTTAATTTA
1 TTTTATTTTA
27887008 TTTATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TTTTATTTTAATA
Found at i:27888141 original size:30 final size:30
Alignment explanation
Indices: 27888095--27888188 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
27888085 ATTTCTTATG
*
27888095 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
27888126 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
27888156 CCATTATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
27888186 CCA
1 CCA
27888189 TAAATATGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 54 0.89
31 7 0.11
ACGTcount: A:0.26, C:0.27, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:27888150 original size:15 final size:15
Alignment explanation
Indices: 27888105--27888181 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
27888095 CCAATATCTC
27888105 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
27888120 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
27888135 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
27888150 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
27888165 GATACCCATATCTTT
1 GATACCCATATCTTT
27888180 GA
1 GA
27888182 CTTTCCATAA
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.20
15 28 0.61
16 9 0.20
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.43
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:27892597 original size:2 final size:2
Alignment explanation
Indices: 27892590--27892620 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27892580 TAATTTACAA
27892590 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
27892621 ATAATGTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27892812 original size:30 final size:30
Alignment explanation
Indices: 27892776--27892858 Score: 148
Period size: 30 Copynumber: 2.8 Consensus size: 30
27892766 CAATATCTCA
27892776 ATACCCATATCTTTGACTTTCCAATATTTG
1 ATACCCATATCTTTGACTTTCCAATATTTG
* *
27892806 ATACCCATATCTTTGACTTTCTATTATTTG
1 ATACCCATATCTTTGACTTTCCAATATTTG
27892836 ATACCCATATCTTTGACTTTCCA
1 ATACCCATATCTTTGACTTTCCA
27892859 TAAATATGGA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.25, C:0.24, G:0.06, T:0.45
Consensus pattern (30 bp):
ATACCCATATCTTTGACTTTCCAATATTTG
Found at i:27892820 original size:15 final size:15
Alignment explanation
Indices: 27892776--27892851 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
27892766 CAATATCTCA
27892776 ATACCCATATCTTTG
1 ATACCCATATCTTTG
** *
27892791 ACTTTCCA-ATATTTG
1 A-TACCCATATCTTTG
27892806 ATACCCATATCTTTG
1 ATACCCATATCTTTG
** * *
27892821 ACTTTCTAT-TATTTG
1 A-TACCCATATCTTTG
27892836 ATACCCATATCTTTG
1 ATACCCATATCTTTG
27892851 A
1 A
27892852 CTTTCCATAA
Statistics
Matches: 43, Mismatches: 14, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
14 8 0.19
15 27 0.63
16 8 0.19
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.45
Consensus pattern (15 bp):
ATACCCATATCTTTG
Found at i:27893937 original size:43 final size:43
Alignment explanation
Indices: 27893885--27894007 Score: 158
Period size: 43 Copynumber: 2.8 Consensus size: 43
27893875 TTTTAAAGGT
* *
27893885 TTCTTTAGCGGCGTTTCTGAAAAAAGTGCCGCTTAAGGTCATG
1 TTCTTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATG
** * *
27893928 TTCTTTAGCGGCGTTTGTGATGAATGCGCCGCTAAAGGTCATG
1 TTCTTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATG
*
27893971 TTCTTTAGCGGTGTTTATGTGAAAAAA-TGCCGCTAAA
1 TTCTTTAGCGGCG-TT-TGTGAAAAAAGTGCCGCTAAA
27894008 ATTAGTAACA
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
43 49 0.73
44 11 0.16
45 7 0.10
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TTCTTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATG
Found at i:27895092 original size:11 final size:11
Alignment explanation
Indices: 27895078--27895153 Score: 77
Period size: 11 Copynumber: 6.9 Consensus size: 11
27895068 TTTAAATAGA
27895078 AATTTGAGAGG
1 AATTTGAGAGG
27895089 AATTTGAGAGG
1 AATTTGAGAGG
*
27895100 AAATTT-AAAGG
1 -AATTTGAGAGG
*
27895111 AATTTGAAAGG
1 AATTTGAGAGG
27895122 AATTTGAGA-G
1 AATTTGAGAGG
27895132 AATATT-AGAGAG
1 AAT-TTGAGAG-G
*
27895144 AAATTGAGAG
1 AATTTGAGAG
27895154 AAAGGATTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
10 12 0.21
11 32 0.57
12 12 0.21
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (11 bp):
AATTTGAGAGG
Found at i:27898881 original size:124 final size:124
Alignment explanation
Indices: 27898661--27899010 Score: 571
Period size: 124 Copynumber: 2.8 Consensus size: 124
27898651 TTATTTCGAG
*
27898661 TTGACGTTTCTG-GTCAAATAGTATAAAATCAG-CTCTACCAGGATGCTATTTGAGAATAAATTG
1 TTGACGTTTCTGAG-CAAATAGTATAAAATC-GCCTCTACCAGGATGCTATTTGAGAAGAAATTG
27898724 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTT
64 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTT
* *
27898785 TTGACATTTCTGAGCAAATAGTATAAAATCGCCTCTACTAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* **
27898850 AAATCGCACCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATATTTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTT
*
27898909 TTGACGTTTCTGAGGAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTG-GTAAGAAATTGT
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAG-AAGAAATTGT
* *
27898973 GAAATCGTGCCCTCGTGGACACGATTTTGCTACAGTAG
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
27899011 TAAGTTTGGG
Statistics
Matches: 211, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
123 2 0.01
124 208 0.99
125 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTT
Found at i:27902136 original size:10 final size:10
Alignment explanation
Indices: 27902121--27902145 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27902111 CAAATCTAAC
27902121 ATTATGTAAA
1 ATTATGTAAA
27902131 ATTATGTAAA
1 ATTATGTAAA
27902141 ATTAT
1 ATTAT
27902146 TAAGTCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:27902188 original size:55 final size:54
Alignment explanation
Indices: 27902129--27902432 Score: 326
Period size: 55 Copynumber: 5.3 Consensus size: 54
27902119 ACATTATGTA
*
27902129 AAATTATGTAAAATTATTAAGTCCCAAAATTTTGTCAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTTTGT-AATGGTTAGTAAAATTATC
* **
27902184 AAATTATGTAAAATTATGTAAAATTATTAAGCCAAAAAATTTT-TAATTAAATTAGGTAAAATTA
1 AAATTATGTAAAATTAT-T---A--AGT---CC-AAAAATTTTGTAA-T-GGTTA-GTAAAATTA
27902248 TC
53 TC
*
27902250 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTTTG-TAATGGTTAGTAAAATTATC
* **
27902305 AAATTATGTAAAATTATTAAG-CCAAAAAAATTT-TAATTAAATTAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCC-AAAAATTTTGTAA-T-GGTTA-GTAAAATTATC
*
27902361 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTTTG-TAATGGTTAGTAAAATTATC
27902416 AAATTATGTAAAATTAT
1 AAATTATGTAAAATTAT
27902433 GTAAAATTAT
Statistics
Matches: 211, Mismatches: 16, Indels: 44
0.78 0.06 0.16
Matches are distributed among these distances:
53 3 0.01
54 3 0.01
55 87 0.41
56 54 0.26
57 6 0.03
58 6 0.03
59 1 0.00
60 2 0.01
61 2 0.01
62 1 0.00
63 2 0.01
64 4 0.02
65 12 0.06
66 28 0.13
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.38
Consensus pattern (54 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTTTGTAATGGTTAGTAAAATTATC
Found at i:27902199 original size:10 final size:10
Alignment explanation
Indices: 27902184--27902210 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
27902174 TAAAATTATC
27902184 AAATTATGTA
1 AAATTATGTA
27902194 AAATTATGTA
1 AAATTATGTA
27902204 AAATTAT
1 AAATTAT
27902211 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:27902255 original size:18 final size:18
Alignment explanation
Indices: 27902232--27902266 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27902222 ATTTTTAATT
27902232 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
*
27902250 AAATTATGTAAAATTAT
1 AAATTAGGTAAAATTAT
27902267 TAAGTCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:27902270 original size:121 final size:121
Alignment explanation
Indices: 27902129--27902553 Score: 726
Period size: 121 Copynumber: 3.6 Consensus size: 121
27902119 ACATTATGTA
* * *
27902129 AAATTATGTAAAATTATTAAGTCCCAAAATTTTGTCAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
*
27902194 AAATTATGTAAAATTATTAAGCCAAAAAATTTTTAATTAAATTAGGTAAAATTATC
66 AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATC
27902250 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC----------
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
27902305 AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATC
66 AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATC
27902361 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
*
27902426 AAATTATGTAAAATTATTAAGCGAAAAAAATTTTAATTAAATTAGGTAAAATTATC
66 AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATC
*
27902482 AAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
27902547 AAATTAT
66 AAATTAT
27902554 TAAGTCCAAC
Statistics
Matches: 288, Mismatches: 6, Indels: 20
0.92 0.02 0.06
Matches are distributed among these distances:
111 110 0.38
121 178 0.62
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.37
Consensus pattern (121 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATC
Found at i:27902314 original size:111 final size:111
Alignment explanation
Indices: 27902194--27902607 Score: 620
Period size: 111 Copynumber: 3.6 Consensus size: 111
27902184 AAATTATGTA
*
27902194 AAATTATGTAAAATTATTAAGCCAAAAAATTTTTAATTAAATTAGGTAAAATTATCAAATTATGT
1 AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATCAAATTATGT
27902259 AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
66 AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
27902305 AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATCAAATTATGT
1 AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATCAAATTATGT
27902370 AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
66 AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
27902416 AAATTATGTAAAATTATGTAAAATTATTAAGCGAAAAAAATTTTAATTAAATTAGGTAAAATTAT
1 ----------AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTAT
*
27902481 CAAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
56 CAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
* * **
27902537 AAATTATGTAAAATTATTAAGTCC-AACAATTGTGTTAA-T-GGTTA-GTAAAATTATCAAATTA
1 AAATTATGTAAAATTATTAAG-CCAAAAAAAT-T-TTAATTAAATTAGGTAAAATTATCAAATTA
27902598 TGTAAAATTA
63 TGTAAAATTA
27902608 GGTTAGGGTT
Statistics
Matches: 281, Mismatches: 9, Indels: 27
0.89 0.03 0.09
Matches are distributed among these distances:
110 26 0.09
111 139 0.49
112 3 0.01
113 4 0.01
121 109 0.39
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (111 bp):
AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATCAAATTATGT
AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:27902317 original size:18 final size:18
Alignment explanation
Indices: 27902294--27902377 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
27902284 TTAATGGTTA
27902294 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
* ***
27902312 GTAAAATTATTAAGCCA-
1 GTAAAATTATCAAATTAT
** * *
27902329 AAAAAATTTTAATTAAATTAG
1 GTAAAA--TT-ATCAAATTAT
27902350 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
27902368 GTAAAATTAT
1 GTAAAATTAT
27902378 TAAGTCCAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
17 4 0.08
18 31 0.63
19 4 0.08
20 6 0.12
21 4 0.08
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (18 bp):
GTAAAATTATCAAATTAT
Found at i:27902424 original size:232 final size:231
Alignment explanation
Indices: 27902129--27902607 Score: 811
Period size: 232 Copynumber: 2.1 Consensus size: 231
27902119 ACATTATGTA
* *
27902129 AAATTATGTAAAATTATTAAGTCCCAAAATTTTGTCAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTCAATGGTTAGTAAAATTATCAAATTATGTA
* *
27902194 AAATTATGTAAAATTATTAAGCCAAAAAATTTTTAATTAAATTAGGTAAAATTATCAAATTATGT
66 AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATCAAATTAGGT
27902259 AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTA
131 AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTA
27902324 AG-CCAAAAAAAT-T-TTAATTAAATTAGGTAAAATTATC
196 AGTCC-AAAAAATGTGTTAA-T-AATTA-GTAAAATTATC
*
27902361 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTCAATGGTTAGTAAAATTATCAAATTATGTA
*
27902426 AAATTATGTAAAATTATTAAGCGAAAAAAATTTTAATTAAATTAGGTAAAATTATCAAATTAGGT
66 AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATCAAATTAGGT
27902491 AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTA
131 AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTA
* * **
27902556 AGTCCAACAATTGTGTTAATGGTTAGTAAAATTATC
196 AGTCCAAAAAATGTGTTAATAATTAGTAAAATTATC
27902592 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
27902608 GGTTAGGGTT
Statistics
Matches: 234, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
231 27 0.12
232 199 0.85
233 4 0.02
234 4 0.02
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (231 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTCAATGGTTAGTAAAATTATCAAATTATGTA
AAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTATCAAATTAGGT
AAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTA
AGTCCAAAAAATGTGTTAATAATTAGTAAAATTATC
Found at i:27902431 original size:10 final size:10
Alignment explanation
Indices: 27902416--27902442 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
27902406 TAAAATTATC
27902416 AAATTATGTA
1 AAATTATGTA
27902426 AAATTATGTA
1 AAATTATGTA
27902436 AAATTAT
1 AAATTAT
27902443 TAAGCGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:27902487 original size:18 final size:18
Alignment explanation
Indices: 27902464--27902498 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
27902454 AATTTTAATT
27902464 AAATTAGGTAAAATTATC
1 AAATTAGGTAAAATTATC
27902482 AAATTAGGTAAAATTAT
1 AAATTAGGTAAAATTAT
27902499 TAAGTCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:27902535 original size:55 final size:55
Alignment explanation
Indices: 27902471--27902607 Score: 256
Period size: 55 Copynumber: 2.5 Consensus size: 55
27902461 ATTAAATTAG
*
27902471 GTAAAATTATCAAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
1 GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
*
27902526 GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTTA
1 GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
27902581 GTAAAATTATCAAATTATGTAAAATTA
1 GTAAAATTATCAAATTATGTAAAATTA
27902608 GGTTAGGGTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 80 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (55 bp):
GTAAAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
Found at i:27902638 original size:18 final size:18
Alignment explanation
Indices: 27902615--27902656 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
27902605 TTAGGTTAGG
27902615 GTTAGGATTTTTAATTAA
1 GTTAGGATTTTTAATTAA
*
27902633 GTTAGGGTTTTTAATTAA
1 GTTAGGATTTTTAATTAA
27902651 GTTAGG
1 GTTAGG
27902657 TTAGGGTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.48
Consensus pattern (18 bp):
GTTAGGATTTTTAATTAA
Found at i:27902665 original size:29 final size:26
Alignment explanation
Indices: 27902633--27902760 Score: 115
Period size: 29 Copynumber: 4.9 Consensus size: 26
27902623 TTTTAATTAA
27902633 GTTAGGGTTTTTAATTAAGTTAGGTT
1 GTTAGGGTTTTTAATTAAGTTAGGTT
27902659 AGGGTTAGGGTTTTTAATTAAGTTAGGTT
1 ---GTTAGGGTTTTTAATTAAGTTAGGTT
* * * *
27902688 TTTA----ATTAAATTAGGTTAGG--
1 GTTAGGGTTTTTAATTAAGTTAGGTT
*
27902708 GTTAGGGTTTTTAATTAAATTAGGTT
1 GTTAGGGTTTTTAATTAAGTTAGGTT
27902734 AGAGTTAGGGTTTTTAATTAAGTTAGG
1 ---GTTAGGGTTTTTAATTAAGTTAGG
27902761 GTTTTTAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
20 3 0.04
22 13 0.16
24 12 0.15
26 3 0.04
29 49 0.61
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (26 bp):
GTTAGGGTTTTTAATTAAGTTAGGTT
Found at i:27902674 original size:47 final size:46
Alignment explanation
Indices: 27902605--27902795 Score: 235
Period size: 47 Copynumber: 4.1 Consensus size: 46
27902595 TTATGTAAAA
*
27902605 TTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATTAAG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTA-GGTTTTTAATTAAG
*
27902652 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTTTTAATTAAA
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTTTTAATTAAG
* ** * *
27902698 TTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG-TTAGAGTTAGGG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTTTTAATTA-AG
* *
27902744 TTTTTA-ATTA-AGTTAGGGTTTTTAATTAAGTTAGGTTTTTAATTAAG
1 ---TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTTTTAATTAAG
27902791 TTAGG
1 TTAGG
27902796 GTTTTTAATT
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
44 3 0.02
45 6 0.05
46 46 0.38
47 55 0.45
48 9 0.07
49 3 0.02
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (46 bp):
TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTTTTAATTAAG
Found at i:27902685 original size:18 final size:18
Alignment explanation
Indices: 27902662--27902702 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
27902652 TTAGGTTAGG
27902662 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
27902680 GTTA-GGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
27902697 ATTAGG
1 GTTAGG
27902703 TTAGGGTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:27902701 original size:93 final size:91
Alignment explanation
Indices: 27902602--27902795 Score: 239
Period size: 93 Copynumber: 2.1 Consensus size: 91
27902592 AAATTATGTA
* ** * *
27902602 AAATTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATTA-AG-TTAGGTTAGGGTT
1 AAATTAGGTTAGGGTTAGGATTTTTAATTAAATTA-GG-TTAGAATTAGAGTTTA-ATTA-AGTT
27902665 AGGGTTTTTAATTAAGTTAGGTTTTTAATT
62 AGGGTTTTTAATTAAGTTAGGTTTTTAATT
* * *
27902695 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAGTTAG
1 AAATTAGGTTAGGGTTAGGATTTTTAATTAAATTAGGTTAGAATTAGAG--TTTAATTAAGTTAG
27902760 GGTTTTTAATTAAGTTAGGTTTTTAATT
64 GGTTTTTAATTAAGTTAGGTTTTTAATT
*
27902788 AAGTTAGG
1 AAATTAGG
27902796 GTTTTTAATT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
91 6 0.07
92 3 0.03
93 73 0.83
94 3 0.03
95 3 0.03
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (91 bp):
AAATTAGGTTAGGGTTAGGATTTTTAATTAAATTAGGTTAGAATTAGAGTTTAATTAAGTTAGGG
TTTTTAATTAAGTTAGGTTTTTAATT
Found at i:27902705 original size:46 final size:46
Alignment explanation
Indices: 27902602--27902733 Score: 228
Period size: 46 Copynumber: 2.8 Consensus size: 46
27902592 AAATTATGTA
*
27902602 AAATTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTA-GGTTTTTAATT
*
27902649 AAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTTTTAATT
*
27902695 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTT
27902734 AGAGTTAGGG
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 48 0.59
47 33 0.41
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (46 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTTTTAATT
Found at i:27902721 original size:75 final size:76
Alignment explanation
Indices: 27902633--27902780 Score: 262
Period size: 75 Copynumber: 2.0 Consensus size: 76
27902623 TTTTAATTAA
* *
27902633 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTA-GGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAA
27902697 ATTAGGTTAGG
66 ATTAGGTTAGG
27902708 GTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAA
*
27902773 GTTAGGTT
66 ATTAGGTT
27902781 TTTAATTAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 49 0.71
76 20 0.29
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (76 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAA
ATTAGGTTAGG
Found at i:27902759 original size:18 final size:18
Alignment explanation
Indices: 27902736--27902837 Score: 172
Period size: 18 Copynumber: 5.8 Consensus size: 18
27902726 ATTAGGTTAG
27902736 AGTTAGGGTTTTTAATTA
1 AGTTAGGGTTTTTAATTA
27902754 AGTTAGGGTTTTTAATTA
1 AGTTAGGGTTTTTAATTA
27902772 AGTTA-GGTTTTTAATTA
1 AGTTAGGGTTTTTAATTA
27902789 AGTTAGGGTTTTTAATTA
1 AGTTAGGGTTTTTAATTA
*
27902807 AGTTAGGGTTTTTAAATA
1 AGTTAGGGTTTTTAATTA
*
27902825 AATTA-GGTTTTTA
1 AGTTAGGGTTTTTA
27902838 TTACATCAAA
Statistics
Matches: 81, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
17 25 0.31
18 56 0.69
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (18 bp):
AGTTAGGGTTTTTAATTA
Found at i:27902788 original size:35 final size:36
Alignment explanation
Indices: 27902736--27902837 Score: 172
Period size: 35 Copynumber: 2.9 Consensus size: 36
27902726 ATTAGGTTAG
27902736 AGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTA
1 AGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTA
27902772 AGTTA-GGTTTTTAATTAAGTTAGGGTTTTTAATTA
1 AGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTA
* *
27902807 AGTTAGGGTTTTTAAATAAATTA-GGTTTTTA
1 AGTTAGGGTTTTTAATTAAGTTAGGGTTTTTA
27902838 TTACATCAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 43 0.68
36 20 0.32
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (36 bp):
AGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTA
Found at i:27902814 original size:53 final size:53
Alignment explanation
Indices: 27902736--27902837 Score: 186
Period size: 53 Copynumber: 1.9 Consensus size: 53
27902726 ATTAGGTTAG
* *
27902736 AGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTTTTAATTA
1 AGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAAATAAATTAGGTTTTTAATTA
27902789 AGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAAATAAATTAGGTTTTTA
1 AGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAAATAAATTAGGTTTTTA
27902838 TTACATCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (53 bp):
AGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAAATAAATTAGGTTTTTAATTA
Found at i:27902885 original size:25 final size:26
Alignment explanation
Indices: 27902833--27902896 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
27902823 TAAATTAGGT
27902833 TTTTATTACATCAAATAGAACTTCTA
1 TTTTATTACATCAAATAGAACTTCTA
* *
27902859 TTTTATTATATTAAATA-AACTTCTA
1 TTTTATTACATCAAATAGAACTTCTA
27902884 TTTTATTACATCA
1 TTTTATTACATCA
27902897 GATAATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTTATTACATCAAATAGAACTTCTA
Found at i:27903332 original size:18 final size:18
Alignment explanation
Indices: 27903305--27903339 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27903295 CGGAAAAGGA
* *
27903305 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
27903323 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
27903340 AAACACACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:27904001 original size:7 final size:7
Alignment explanation
Indices: 27903991--27904015 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27903981 TTATATACAT
27903991 AATACTA
1 AATACTA
27903998 AATACTA
1 AATACTA
27904005 AATACTA
1 AATACTA
27904012 AATA
1 AATA
27904016 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:27905162 original size:32 final size:30
Alignment explanation
Indices: 27905096--27905161 Score: 105
Period size: 33 Copynumber: 2.1 Consensus size: 30
27905086 GCCATTGATG
27905096 AAAATATAAAAAAATTAAAATTATTTTAAA
1 AAAATATAAAAAAATTAAAATTATTTTAAA
27905126 AAAATATAAAAAAAAATTTAAAATTATTTTAAA
1 AAAATAT--AAAAAAA-TTAAAATTATTTTAAA
27905159 AAA
1 AAA
27905162 TGAAATTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 7 0.21
32 7 0.21
33 19 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAATATAAAAAAATTAAAATTATTTTAAA
Found at i:27905218 original size:29 final size:29
Alignment explanation
Indices: 27905186--27905269 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
27905176 AATTGAAATT
27905186 AAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
* * **
27905215 AAAT-T-GA---GAG-GAA-ATTGAAATT
1 AAATATGGATTTGAGAGAATTTTGGAAGG
*
27905237 AAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
27905266 AAAT
1 AAAT
27905270 TGAGAGAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
22 9 0.23
23 4 0.10
24 4 0.10
27 5 0.13
28 4 0.10
29 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.30
Consensus pattern (29 bp):
AAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:27905218 original size:51 final size:51
Alignment explanation
Indices: 27905163--27905275 Score: 208
Period size: 51 Copynumber: 2.2 Consensus size: 51
27905153 TTTAAAAAAT
*
27905163 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
27905214 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
27905265 GAAATTGAGAG
1 GAAATTGAGAG
27905276 AATTTAGGAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:27905272 original size:22 final size:22
Alignment explanation
Indices: 27905247--27905311 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
27905237 AAATATGGGT
*
27905247 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTAGGAAGGAAA
27905269 TTGAGAGAATTTAGGAAGGAAA
1 TTGAGAGAATTTAGGAAGGAAA
* *
27905291 TTGAGAGGA-TTAGAAAGGAAA
1 TTGAGAGAATTTAGGAAGGAAA
27905312 AATTAGATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 11 0.28
22 29 0.73
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (22 bp):
TTGAGAGAATTTAGGAAGGAAA
Found at i:27906420 original size:154 final size:153
Alignment explanation
Indices: 27906235--27906706 Score: 516
Period size: 158 Copynumber: 3.1 Consensus size: 153
27906225 TAACCTTACA
* *
27906235 AATATATTATATTTTAAAAACTTAAGTATATTTTTTTAATTTGGTTATATATTTTAAATATTTTT
1 AATATATTATATTTCAAAAACTTAAGTATA-TTTTTTAATTT-GTTATATATTTTAAATATTATT
* * ** * ** *
27906300 TTATTAATAA-TTTATTTAATATATCGTTATTTAAATAAAAAAATTATAAAACATATGAGTAACC
64 TTATCAATAATTTTATTTAATATATCGTTATTTAAATAATAATTTTATAAAACACACAAGCAACC
** * * * *
27906364 TGTGCATTACACGGGATAAAAAATT
129 CATGAATCACACGAGATAAAAAACT
* * *
27906389 AGTATATTATATTTCAAAAATTTAAGTATATTTTTT-A------ATATCTTTTAAATATTATTTT
1 AATATATTATATTTCAAAAACTTAAGTATATTTTTTAATTTGTTATATATTTTAAATATTATTTT
27906447 ATCAATAATTTTATTTAATATATCGTTATTTAAATAATAATTTTATAAAACACACAAGCAACCCA
66 ATCAATAATTTTATTTAATATATCGTTATTTAAATAATAATTTTATAAAACACACAAGCAACCCA
*
27906512 TGAATCACACGAGATAGAAAACT
131 TGAATCACACGAGATAAAAAACT
* *
27906535 AATATATTATATTTCAAAAACTTGAGTATA-TTTTAAATTTTGATTATATCTTAATTTTAAATAT
1 AATATATTATATTTCAAAAACTTAAGTATATTTTTTAA-TTTG-TTATA---T-ATTTTAAATAT
* * * * *
27906599 TGTTTAATCAAAAATTTTATTTAATATATCATTATTTAAATAATAATTTTATAAAACAAACTAA-
60 TATTTTATCAATAATTTTATTTAATATATCGTTATTTAAATAATAATTTTATAAAACACAC-AAG
* *
27906663 CAACCCATGCATCACACGAGATAAAAAATT
124 CAACCCATGAATCACACGAGATAAAAAACT
27906693 AAT-TATTTATATTT
1 AATATA-TTATATTT
27906707 GAAGCTTTGA
Statistics
Matches: 269, Mismatches: 33, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
145 30 0.11
146 93 0.35
152 1 0.00
153 6 0.02
154 30 0.11
157 3 0.01
158 104 0.39
159 2 0.01
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (153 bp):
AATATATTATATTTCAAAAACTTAAGTATATTTTTTAATTTGTTATATATTTTAAATATTATTTT
ATCAATAATTTTATTTAATATATCGTTATTTAAATAATAATTTTATAAAACACACAAGCAACCCA
TGAATCACACGAGATAAAAAACT
Found at i:27909837 original size:25 final size:25
Alignment explanation
Indices: 27909791--27909853 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
27909781 TATAAATATC
*
27909791 AATAAA-TTAAATATAATAATTAAT
1 AATAAATTTAAATAGAATAATTAAT
*
27909815 AATAAATTTAAATAGAATCATTAAT
1 AATAAATTTAAATAGAATAATTAAT
27909840 AATAAATTTAAATA
1 AATAAATTTAAATA
27909854 TGTGTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 6 0.17
25 30 0.83
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
AATAAATTTAAATAGAATAATTAAT
Found at i:27913725 original size:46 final size:46
Alignment explanation
Indices: 27913655--27913829 Score: 228
Period size: 46 Copynumber: 3.8 Consensus size: 46
27913645 AGTGTGGAAC
* * * *
27913655 GTAGGTATGG--TTTCAATAAAGAAAACCATACTAACTTTTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* * *
27913699 GTAGGTATGATATTTCGGTAAAGAAAACCATGCTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* *
27913745 GTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* * *
27913791 GTAGGTATGGTATTTCCGTGAAGAAAACCATATTGAGTT
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
27913830 ATAGCATTGT
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 9 0.08
46 105 0.92
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.30
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
Found at i:27916426 original size:16 final size:16
Alignment explanation
Indices: 27916419--27916459 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
27916409 ACAACACAAA
27916419 TAGCGAACAGCCCAAT
1 TAGCGAACAGCCCAAT
27916435 TAGCGAACAGCCCAAT
1 TAGCGAACAGCCCAAT
27916451 TAGCGAACA
1 TAGCGAACA
27916460 CATATGGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.39, C:0.29, G:0.20, T:0.12
Consensus pattern (16 bp):
TAGCGAACAGCCCAAT
Found at i:27924569 original size:15 final size:15
Alignment explanation
Indices: 27924549--27924578 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27924539 GAGTATGGTA
27924549 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
27924564 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
27924579 TACTAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:27926222 original size:27 final size:31
Alignment explanation
Indices: 27926158--27926223 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 31
27926148 TCTCTTTCAA
*
27926158 CAAATATTACAAAATAATTCAAAATAACATT
1 CAAAAATTACAAAATAATTCAAAATAACATT
*
27926189 CAAAAATTA-AAAAT-ATTCATAA-AA-ATT
1 CAAAAATTACAAAATAATTCAAAATAACATT
*
27926216 CTAAAATT
1 CAAAAATT
27926224 TATCTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 10 0.31
28 2 0.06
29 7 0.22
30 5 0.16
31 8 0.25
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (31 bp):
CAAAAATTACAAAATAATTCAAAATAACATT
Found at i:27926859 original size:17 final size:18
Alignment explanation
Indices: 27926827--27926861 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27926817 GAAAATCTAA
*
27926827 TTTACATGCTTTAATTAG
1 TTTACATGCATTAATTAG
27926845 TTTACATG-ATTAATTAG
1 TTTACATGCATTAATTAG
27926862 AGCATCTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (18 bp):
TTTACATGCATTAATTAG
Found at i:27929413 original size:18 final size:18
Alignment explanation
Indices: 27929386--27929425 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27929376 TAGGTGCGTT
* *
27929386 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
27929404 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
27929422 TCCT
1 TCCT
27929426 TTTCTGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:27930009 original size:21 final size:21
Alignment explanation
Indices: 27930006--27930241 Score: 316
Period size: 21 Copynumber: 11.0 Consensus size: 21
27929996 TAAAAACCCT
*
27930006 AACCCTAACCCTTAATCTAAA
1 AACCCTAACCCTTAACCTAAA
*
27930027 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACCTAAA
*
27930048 AACCCTAAACCCTTAACATAAA
1 AACCCT-AACCCTTAACCTAAA
27930070 AACCCTAACCCTTAACCTAAA
1 AACCCTAACCCTTAACCTAAA
*
27930091 AACCCTAACCCTT-ATCTAAAA
1 AACCCTAACCCTTAACCT-AAA
*
27930112 CCCTAACACTAACCCTTAACCTAAA
1 ----AACCCTAACCCTTAACCTAAA
*
27930137 AACCCTAACCATTAACCTAAA
1 AACCCTAACCCTTAACCTAAA
*
27930158 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACCTAAA
*
27930179 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACCTAAA
27930201 AACCCTAACCCTTAACCTAAA
1 AACCCTAACCCTTAACCTAAA
27930222 AACCCTAACCC-TAACC-AAA
1 AACCCTAACCCTTAACCTAAA
27930241 A
1 A
27930242 TGCATATTTA
Statistics
Matches: 195, Mismatches: 12, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
19 4 0.02
20 8 0.04
21 124 0.64
22 41 0.21
25 15 0.08
26 3 0.02
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCTAACCCTTAACCTAAA
Found at i:27930017 original size:43 final size:41
Alignment explanation
Indices: 27930006--27930241 Score: 285
Period size: 43 Copynumber: 5.5 Consensus size: 41
27929996 TAAAAACCCT
* *
27930006 AACCCTAACCCTTAATCTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTAACCC-TAACCTAAAAACCCTAACCCTTAACCTAAA
*
27930048 AACCCTAAACCCTTAACATAAAAACCCTAACCCTTAACCTAAA
1 AACCCT-AACCC-TAACCTAAAAACCCTAACCCTTAACCTAAA
* * *
27930091 AACCCTAACCCTTATCTAAAACCCTAACACTAACCCTTAACCTAAA
1 AACCCTAACCCTAACCT-AAA----AACCCTAACCCTTAACCTAAA
* *
27930137 AACCCTAACCATTAACCTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTAACC-CTAACCTAAAAACCCTAACCCTTAACCTAAA
*
27930179 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAA
1 AACCCT-AACCC-TAACCTAAAAACCCTAACCCTTAACCTAAA
27930222 AACCCTAACCCTAACC-AAAA
1 AACCCTAACCCTAACCTAAAA
27930242 TGCATATTTA
Statistics
Matches: 169, Mismatches: 16, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
40 4 0.02
41 7 0.04
42 44 0.26
43 77 0.46
46 33 0.20
47 4 0.02
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.20
Consensus pattern (41 bp):
AACCCTAACCCTAACCTAAAAACCCTAACCCTTAACCTAAA
Found at i:27930025 original size:27 final size:27
Alignment explanation
Indices: 27929985--27930169 Score: 99
Period size: 21 Copynumber: 8.0 Consensus size: 27
27929975 TAAATCCTTA
27929985 AACCCTTAACCTAAAAACCCTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
*
27930012 AACCCTTAATCT--AAA----AACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
* *
27930033 AACCCTTAACTTAAAAACCCTAA--A-
1 AACCCTTAACCTAAAAACCCTAACCCT
*
27930057 --CCCTTAACATAAAAACCCT------
1 AACCCTTAACCTAAAAACCCTAACCCT
27930076 AACCCTTAACCTAAAAACCCT------
1 AACCCTTAACCTAAAAACCCTAACCCT
* *
27930097 AACCCTT-ATCT-AAAACCCTAACACT
1 AACCCTTAACCTAAAAACCCTAACCCT
27930122 AACCCTTAACCTAAAAACCCTAA-CC-
1 AACCCTTAACCTAAAAACCCTAACCCT
27930147 -A---TTAACCTAAAAACCCTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
27930170 TAACTTAAAA
Statistics
Matches: 131, Mismatches: 9, Indels: 40
0.73 0.05 0.22
Matches are distributed among these distances:
19 8 0.06
20 3 0.02
21 59 0.45
22 20 0.15
23 3 0.02
24 1 0.01
25 10 0.08
26 4 0.03
27 23 0.18
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACCCTAACCCT
Found at i:27930041 original size:64 final size:64
Alignment explanation
Indices: 27929969--27930233 Score: 247
Period size: 64 Copynumber: 4.1 Consensus size: 64
27929959 TTAATTGACA
* *** *
27929969 AACCCTTAAATCCTT-AAACCCTTAA-CCTAAAAACCCTAACCCTAACCCTTAATCTAAAAACCC
1 AACCCTTAAA--CTTAAAACCCTAAACCCTAAAAACAAAAACCCTAACCCTTAACCTAAAAACCC
27930032 T
64 T
* * *
27930033 AACCCTT-AACTTAAAAACCCTAAACCCTTAACATAAAAACCCTAACCCTTAACCTAAAAACCCT
1 AACCCTTAAACTT-AAAACCCTAAACCCTAAAAACAAAAACCCTAACCCTTAACCTAAAAACCCT
* * * *
27930097 AACCCTT-ATC-TAAAACCCTAACACTAACCCT-TAACCTAAAAACCCTAACCATTAACCTAAAA
1 AACCCTTAAACTTAAAACCCT---A--AACCCTAAAAAC-AAAAACCCTAACCCTTAACCTAAAA
27930159 ACCCT
60 ACCCT
* ***
27930164 AACCCTT-AACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCT
1 AACCCTTAAACTT-AAAACCCTAAACCCTAAAAACAAAAACCCTAACCCTTAACCTAAAAACCCT
27930228 AACCCT
1 AACCCT
27930234 AACCAAAATG
Statistics
Matches: 169, Mismatches: 20, Indels: 24
0.79 0.09 0.11
Matches are distributed among these distances:
61 3 0.02
62 8 0.05
63 12 0.07
64 89 0.53
65 2 0.01
66 2 0.01
67 44 0.26
68 1 0.01
69 8 0.05
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (64 bp):
AACCCTTAAACTTAAAACCCTAAACCCTAAAAACAAAAACCCTAACCCTTAACCTAAAAACCCT
Found at i:27930124 original size:110 final size:112
Alignment explanation
Indices: 27929985--27930237 Score: 413
Period size: 110 Copynumber: 2.3 Consensus size: 112
27929975 TAAATCCTTA
* * *
27929985 AACCCTTAACCTAAAAACCCTAACCCTAACCCTTAATCTAAAAACCCTAACCCTTAACTTAAAAA
1 AACCCTTAACCTAAAAACCCTAACCCTAACCCTTAACCTAAAAACCCTAACCATTAACCTAAAAA
27930050 CCCTAAACCCTTAACATAAAAACCCT-AACCCTTAACCTAAAAACCCT
66 CCCT-AACCCTTAACATAAAAACCCTAAACCCTTAACCTAAAAACCCT
* *
27930097 AACCCTT-ATCT-AAAACCCTAACACTAACCCTTAACCTAAAAACCCTAACCATTAACCTAAAAA
1 AACCCTTAACCTAAAAACCCTAACCCTAACCCTTAACCTAAAAACCCTAACCATTAACCTAAAAA
* *
27930160 CCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
66 CCCTAACCCTTAACATAAAAACCCTAAACCCTTAACCTAAAAACCCT
27930207 AACCCTTAACCTAAAAACCCTAACCCTAACC
1 AACCCTTAACCTAAAAACCCTAACCCTAACC
27930238 AAAATGCATA
Statistics
Matches: 129, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
109 20 0.16
110 79 0.61
111 6 0.05
112 24 0.19
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (112 bp):
AACCCTTAACCTAAAAACCCTAACCCTAACCCTTAACCTAAAAACCCTAACCATTAACCTAAAAA
CCCTAACCCTTAACATAAAAACCCTAAACCCTTAACCTAAAAACCCT
Found at i:27930261 original size:131 final size:131
Alignment explanation
Indices: 27930006--27930241 Score: 411
Period size: 131 Copynumber: 1.8 Consensus size: 131
27929996 TAAAAACCCT
* *
27930006 AACCCTAACCCTTAATCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACATAAAA
1 AACCCTAACCATTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACATAAAA
* * *
27930071 ACCCTAACCCTTAACCTAAAAACCCTAACCCTTATCTAAAACCCTAACACTAACCCTTAACCTAA
66 ACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACCAAAACCATAACACTAACCCTTAACCTAA
27930136 A
131 A
*
27930137 AACCCTAACCATTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAA
1 AACCCTAACCATTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACATAAAA
27930202 ACCCTAACCCTTAACCTAAAAACCCTAACCC-TAACCAAAA
66 ACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACCAAAA
27930242 TGCATATTTA
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
130 7 0.07
131 93 0.93
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.20
Consensus pattern (131 bp):
AACCCTAACCATTAACCTAAAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACATAAAA
ACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACCAAAACCATAACACTAACCCTTAACCTAA
A
Found at i:27940999 original size:77 final size:76
Alignment explanation
Indices: 27940832--27941379 Score: 726
Period size: 74 Copynumber: 7.2 Consensus size: 76
27940822 TTGCAAAAAT
*
27940832 TATTTTTCAATTTCTGTTTTCTGAAAAAATCAACTCATAATGCGAGAGGTGAGTTGGGCCTCGGG
1 TATTTTTCAATTTCTGTTTT-TGAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
*
27940897 TCACACGCTGAGG
65 -CACACGCCGAGG
*
27940910 TATTTTTCAATTTCTGTTTTCTGAAAAAATCAACTCATAATGCGATAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGTTTT-TGAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
*
27940975 CACACGCCAAGG
65 CACACGCCGAGG
* * * *
27940987 TATTTTTTAATTTCTATTTTTGTCAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGTTTTTG-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
*
27941052 TCACACGTCGAGG
65 -CACACGCCGAGG
*
27941065 TATTTTTCAATTTCTGTTTTTTGAAAAAATAAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTG-TTTTTGAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
*
27941130 CACACGCCGATG
65 CACACGCCGAGG
* * *
27941142 TATTTTTTAATTTCTATTTTT--AAAAATCAGCTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC
1 TATTTTTCAATTTCTGTTTTTGAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC
*** *
27941205 ACATTTCGAGA
66 ACACGCCGAGG
* * *
27941216 TACTTTTCAATTTCTGTTTTT--AAAAATCAACTCATAATGCGAGAAGTGAGTTCAGCCTCGGGC
1 TATTTTTCAATTTCTGTTTTTGAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC
* *
27941279 ACATGCCAAGG
66 ACACGCCGAGG
* * ** * *
27941290 TACTTTTCAATTTCTATTTTTTCAAAAATCAACTCATGATGCGAGAGGTGAGTTGAGCCTTAGGG
1 TATTTTTCAATTTCTGTTTTTGAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCC-TCGGG
*
27941355 CACATGCCGAGG
65 CACACGCCGAGG
*
27941367 TATCTTTCAATTT
1 TATTTTTCAATTT
27941380 ATATTTAAAA
Statistics
Matches: 420, Mismatches: 44, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
74 130 0.31
76 40 0.10
77 117 0.28
78 127 0.30
79 6 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (76 bp):
TATTTTTCAATTTCTGTTTTTGAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC
ACACGCCGAGG
Found at i:27941115 original size:155 final size:153
Alignment explanation
Indices: 27940832--27941379 Score: 766
Period size: 155 Copynumber: 3.6 Consensus size: 153
27940822 TTGCAAAAAT
* ** *
27940832 TATTTTTCAATTTCTGTTTTCTGAAAAAATCAACTCATAATGCGAGAGGTGAGTTGGGCCTCGGG
1 TATTTTTCAATTTCTATTTT-TTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
* *
27940897 TCACACG-CTGAGGTATTTTTCAATTTCTGTTTTCTGAAAAAATCAACTCATAATGCGATAGGTG
65 -CACACGTC-GAGGTATTTTTCAATTTCTGTTTTTTGAAAAAATCAACTCATAATGCGAGAGGTG
27940961 AGTTGAGCCTCGGGCACACGCCAAGG
128 AGTTGAGCCTCGGGCACACGCCAAGG
* *
27940987 TATTTTTTAATTTCTATTTTTGTCAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTATTTTT-TCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
*
27941052 TCACACGTCGAGGTATTTTTCAATTTCTGTTTTTTGAAAAAATAAACTCATAATGCGAGAGGTGA
65 -CACACGTCGAGGTATTTTTCAATTTCTGTTTTTTGAAAAAATCAACTCATAATGCGAGAGGTGA
* *
27941117 GTTGAGCCTCGGGCACACGCCGATG
129 GTTGAGCCTCGGGCACACGCCAAGG
* *
27941142 TATTTTTTAATTTCTA-TTTTT-AAAAATCAGCTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC
1 TATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC
** * * *
27941205 ACATTTCGAGATACTTTTCAATTTCTG-TTTTT--AAAAATCAACTCATAATGCGAGAAGTGAGT
66 ACACGTCGAGGTATTTTTCAATTTCTGTTTTTTGAAAAAATCAACTCATAATGCGAGAGGTGAGT
* *
27941267 TCAGCCTCGGGCACATGCCAAGG
131 TGAGCCTCGGGCACACGCCAAGG
* * *
27941290 TACTTTTCAATTTCTATTTTTTCAAAAATCAACTCATGATGCGAGAGGTGAGTTGAGCCTTAGGG
1 TATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCC-TCGGG
* * *
27941355 CACATGCCGAGGTATCTTTCAATTT
65 CACACGTCGAGGTATTTTTCAATTT
27941380 ATATTTAAAA
Statistics
Matches: 355, Mismatches: 33, Indels: 14
0.88 0.08 0.03
Matches are distributed among these distances:
148 61 0.17
149 5 0.01
150 39 0.11
151 48 0.14
152 39 0.11
153 1 0.00
154 5 0.01
155 156 0.44
156 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (153 bp):
TATTTTTCAATTTCTATTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC
ACACGTCGAGGTATTTTTCAATTTCTGTTTTTTGAAAAAATCAACTCATAATGCGAGAGGTGAGT
TGAGCCTCGGGCACACGCCAAGG
Found at i:27941555 original size:30 final size:30
Alignment explanation
Indices: 27941524--27941677 Score: 143
Period size: 30 Copynumber: 5.2 Consensus size: 30
27941514 TTCGTTTTTT
*
27941524 TCAAAATTATATTTTAACCCCCTAAACTTT-
1 TCAAAATTACATTTTAA-CCCCTAAACTTTC
* * ** *
27941554 TCAAAATTACAATTTGACCATTAAAATTTC
1 TCAAAATTACATTTTAACCCCTAAACTTTC
*
27941584 TTAAAATTACATTTTAACCCCTAAACTTTC
1 TCAAAATTACATTTTAACCCCTAAACTTTC
**
27941614 TTTAAATTACATTTTAA-CCCTAAACTTTC
1 TCAAAATTACATTTTAACCCCTAAACTTTC
** * * * *
27941643 TTGAAATTACTTTTTAGCACCTAAAATTT-
1 TCAAAATTACATTTTAACCCCTAAACTTTC
27941672 TCAAAA
1 TCAAAA
27941678 ATTGCATATT
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
29 39 0.38
30 63 0.62
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.40
Consensus pattern (30 bp):
TCAAAATTACATTTTAACCCCTAAACTTTC
Found at i:27941650 original size:59 final size:59
Alignment explanation
Indices: 27941526--27941677 Score: 171
Period size: 59 Copynumber: 2.6 Consensus size: 59
27941516 CGTTTTTTTC
* * *
27941526 AAAATTATATTTTAACCCCCTAAACTTTTCAAAATTACAATTTGACCATTAAAATTTCTT
1 AAAATTACATTTTAA-CCCCTAAACTTTTCAAAATTACAATTTAACCACTAAAATTTCTT
** * *
27941586 AAAATTACATTTTAACCCCTAAACTTTCTTTAAATTACATTTTAACC-CTAAACTTTCTT
1 AAAATTACATTTTAACCCCTAAACTTT-TCAAAATTACAATTTAACCACTAAAATTTCTT
* * * * *
27941645 GAAATTACTTTTTAGCACCTAAAATTTTCAAAA
1 AAAATTACATTTTAACCCCTAAACTTTTCAAAA
27941678 ATTGCATATT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
58 4 0.05
59 44 0.57
60 29 0.38
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (59 bp):
AAAATTACATTTTAACCCCTAAACTTTTCAAAATTACAATTTAACCACTAAAATTTCTT
Found at i:27942252 original size:25 final size:24
Alignment explanation
Indices: 27942222--27942293 Score: 92
Period size: 25 Copynumber: 3.0 Consensus size: 24
27942212 GGGCCGAACG
27942222 AAGAAGAAATGAGAGAAAAAAAATA
1 AAGAAGAAA-GAGAGAAAAAAAATA
* *
27942247 AAGAAGAAAGAAAGAAAAAAAAGGA
1 AAGAAGAAAGAGAGAAAAAAAA-TA
*
27942272 AAGAAGAAAAAGA-AAAAAAAAT
1 AAGAAGAAAGAGAGAAAAAAAAT
27942294 TAAAAACAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 20 0.49
25 21 0.51
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.04
Consensus pattern (24 bp):
AAGAAGAAAGAGAGAAAAAAAATA
Found at i:27942275 original size:14 final size:13
Alignment explanation
Indices: 27942235--27942292 Score: 59
Period size: 14 Copynumber: 4.6 Consensus size: 13
27942225 AAGAAATGAG
*
27942235 AGAAAAAAAATAA
1 AGAAAAAAAAGAA
*
27942248 AG--AAGAAAGAA
1 AGAAAAAAAAGAA
27942259 AGAAAAAAAAGGAA
1 AGAAAAAAAA-GAA
*
27942273 AGAAGAAAAAGAA
1 AGAAAAAAAAGAA
27942286 A-AAAAAA
1 AGAAAAAA
27942293 TTAAAAACAG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 9 0.24
12 5 0.14
13 11 0.30
14 12 0.32
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (13 bp):
AGAAAAAAAAGAA
Found at i:27942582 original size:15 final size:17
Alignment explanation
Indices: 27942562--27942599 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
27942552 CAGCAGGCCA
27942562 AAAAAAGGAAAAA-G-G
1 AAAAAAGGAAAAATGAG
27942577 AAAAAA-GAAAAATGAG
1 AAAAAAGGAAAAATGAG
27942593 AAAAAAG
1 AAAAAAG
27942600 AAGAAGGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.30
15 7 0.35
16 7 0.35
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AAAAAAGGAAAAATGAG
Found at i:27942600 original size:16 final size:14
Alignment explanation
Indices: 27942562--27942606 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 14
27942552 CAGCAGGCCA
27942562 AAAAAAGGAAAAAGG
1 AAAAAA-GAAAAAGG
27942577 AAAAAAGAAAAATGAG
1 AAAAAAGAAAAA-G-G
*
27942593 AAAAAAGAAGAAGG
1 AAAAAAGAAAAAGG
27942607 CTCGTTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 7 0.26
15 8 0.30
16 12 0.44
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (14 bp):
AAAAAAGAAAAAGG
Found at i:27942729 original size:6 final size:6
Alignment explanation
Indices: 27942720--27942766 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
27942710 TATTTTTAGC
* * *
27942720 ATTTTT ATTTTT ATTTAT ATGTTT AATTTT A-TTTT A-TTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
27942766 A
1 A
27942767 ATTTAGATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
5 10 0.29
6 25 0.71
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:27942771 original size:5 final size:5
Alignment explanation
Indices: 27942722--27942764 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
27942712 TTTTTAGCAT
27942722 TTTTA TTTTTA TTTATA TGTTTAA TTTTA TTTTA TTTTA TTTT
1 TTTTA -TTTTA TTT-TA T-TTT-A TTTTA TTTTA TTTTA TTTT
27942765 TAATTTAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
5 18 0.53
6 12 0.35
7 4 0.12
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:27943732 original size:35 final size:34
Alignment explanation
Indices: 27943686--27943754 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 34
27943676 TGATTATTAC
27943686 AATTATAATTTAATTTAG-AATTATTAGTTAAAAAT
1 AATTATAATTTAATTTAGAAATTATTA--TAAAAAT
*
27943721 AATTATAATTTAATTTTGAAATTATTATAAAAAT
1 AATTATAATTTAATTTAGAAATTATTATAAAAAT
27943755 GATTTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 7 0.22
35 17 0.53
36 8 0.25
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (34 bp):
AATTATAATTTAATTTAGAAATTATTATAAAAAT
Found at i:27944450 original size:22 final size:22
Alignment explanation
Indices: 27944422--27944476 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
27944412 CAATGAGTAC
27944422 AAATATATA-TT-AGAAATTATAA
1 AAATATATATTTAAG-AATTA-AA
27944444 AAATATATTATTTAATGAATTAAA
1 AAATATA-TATTTAA-GAATTAAA
27944468 AAATATATA
1 AAATATATA
27944477 AAATCACGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 7 0.24
23 4 0.14
24 11 0.38
25 6 0.21
26 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAATATATATTTAAGAATTAAA
Found at i:27949852 original size:37 final size:36
Alignment explanation
Indices: 27949756--27949865 Score: 104
Period size: 37 Copynumber: 3.0 Consensus size: 36
27949746 TACAACATAA
*
27949756 AAATTAAATTGAAT-TT-AA-TATTAAGATAATCATTTT
1 AAATTAAATTTAATATTAAACTATTAAGATAAT-A--TT
*
27949792 AATATTAAA-TTAATA-AAATACTATTAAGATAAGTATT
1 AA-ATTAAATTTAATATTAA-ACTATTAAGATAA-TATT
*
27949829 AAATTAAATTTAATATTAAACTATTAAAATAATATT
1 AAATTAAATTTAATATTAAACTATTAAGATAATATT
27949865 A
1 A
27949866 TTTTTGGAGT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
36 17 0.27
37 29 0.47
38 3 0.05
39 12 0.19
40 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (36 bp):
AAATTAAATTTAATATTAAACTATTAAGATAATATT
Found at i:27951547 original size:177 final size:178
Alignment explanation
Indices: 27951250--27951604 Score: 604
Period size: 177 Copynumber: 2.0 Consensus size: 178
27951240 CGACATAATA
* * *
27951250 ATCATTCTCAGTATTTGAATCAAATGCTCACTTTGATTTTTTTTACGGGATTACAGACTTATTTA
1 ATCATTCTCAGTATTTGAATCAAATGCTCACTTTGATTTCTTTTACGGGACTACAGACTCATTTA
*
27951315 GATTATCTATTGAAGTAAGTTGTCTTTCTAGCAATGCAAACGTTCTTACAATGTCACTTATCTTT
66 GATTATCTATTGAAGTAAGTTGCCTTTCTAGCAATGCAAACGTTCTTACAATGTCACTTATCTTT
* * *
27951380 AGTTTGAACTTTGATAATCAATGAGCTAATATTTGCTTGTCACAATTT
131 AGTTTGAACTTAGACAATCAATGAACTAATATTTGCTTGTCACAATTT
27951428 ATCATTCTCAGTATTTGAATCAAATGCTCACTTTGA-TTCTTTTACGGGACTACAGACTCATTTA
1 ATCATTCTCAGTATTTGAATCAAATGCTCACTTTGATTTCTTTTACGGGACTACAGACTCATTTA
* * * *
27951492 GATTATCTATTGAAGTAAGTTGCCTTTCTCGCAATGTAAACTTTCTTACAATGTCACTTGTCTTT
66 GATTATCTATTGAAGTAAGTTGCCTTTCTAGCAATGCAAACGTTCTTACAATGTCACTTATCTTT
27951557 AGTTTGAACTTAGACAATCAATGAACTAATATTTGCTTGTCACAATTT
131 AGTTTGAACTTAGACAATCAATGAACTAATATTTGCTTGTCACAATTT
27951605 CGCTATGTAT
Statistics
Matches: 166, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
177 130 0.78
178 36 0.22
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (178 bp):
ATCATTCTCAGTATTTGAATCAAATGCTCACTTTGATTTCTTTTACGGGACTACAGACTCATTTA
GATTATCTATTGAAGTAAGTTGCCTTTCTAGCAATGCAAACGTTCTTACAATGTCACTTATCTTT
AGTTTGAACTTAGACAATCAATGAACTAATATTTGCTTGTCACAATTT
Found at i:27954660 original size:21 final size:21
Alignment explanation
Indices: 27954630--27954671 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
27954620 CTATCATTTA
27954630 GGGACAATCAATGGAAGCTGT
1 GGGACAATCAATGGAAGCTGT
*
27954651 GGGACCATCAATGGAAGCTGT
1 GGGACAATCAATGGAAGCTGT
27954672 AGGTCTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.33, T:0.19
Consensus pattern (21 bp):
GGGACAATCAATGGAAGCTGT
Found at i:27955735 original size:30 final size:30
Alignment explanation
Indices: 27955691--27955747 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
27955681 TAGTAATGGC
27955691 AAAAATGTACTTTTTACTATCATAAAATGA
1 AAAAATGTACTTTTTACTATCATAAAATGA
27955721 AAAAATTGTA-TTTTTACTATCATAAAA
1 AAAAA-TGTACTTTTTACTATCATAAAA
27955748 ATATATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (30 bp):
AAAAATGTACTTTTTACTATCATAAAATGA
Found at i:27955998 original size:19 final size:19
Alignment explanation
Indices: 27955958--27956046 Score: 65
Period size: 19 Copynumber: 4.6 Consensus size: 19
27955948 AAAATTTATT
*
27955958 AAATTTAATAAATAAAT-ATA
1 AAATTT-ATAAA-AAATCGTA
*
27955978 AAATTTATTAAAAATCGTA
1 AAATTTATAAAAAATCGTA
** *
27955997 AAAAATATAAAAAATTGTA
1 AAATTTATAAAAAATCGTA
* *
27956016 AAATTT-TATAATAATCATA
1 AAATTTATA-AAAAATCGTA
*
27956035 AAAATTATAAAA
1 AAATTTATAAAA
27956047 TATATAGAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 7
0.73 0.18 0.10
Matches are distributed among these distances:
18 6 0.11
19 39 0.74
20 8 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATTTATAAAAAATCGTA
Found at i:27956007 original size:38 final size:38
Alignment explanation
Indices: 27955965--27956046 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
27955955 ATTAAATTTA
*
27955965 ATAAATAAA-TATAAAA-TTTATTAAAAATCGTAAAAAAT
1 ATAAA-AAATTATAAAATTTTA-TAAAAATCATAAAAAAT
* * *
27956003 ATAAAAAATTGTAAAATTTTATAATAATCATAAAAATT
1 ATAAAAAATTATAAAATTTTATAAAAATCATAAAAAAT
27956041 ATAAAA
1 ATAAAA
27956047 TATATAGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
37 3 0.08
38 31 0.82
39 4 0.11
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (38 bp):
ATAAAAAATTATAAAATTTTATAAAAATCATAAAAAAT
Found at i:27956009 original size:29 final size:29
Alignment explanation
Indices: 27955931--27956008 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
27955921 ACAAAAATAA
*
27955931 TAAAAATAA-AAAT-CA-ATAAAATTTAT
1 TAAAAATAATAAATAAATATAAAATTTAT
**
27955957 TAAATTTAATAAATAAATATAAAATTTAT
1 TAAAAATAATAAATAAATATAAAATTTAT
**
27955986 TAAAAATCGTAAA-AAATATAAAA
1 TAAAAATAATAAATAAATATAAAA
27956009 AATTGTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.17
27 4 0.10
28 11 0.26
29 20 0.48
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (29 bp):
TAAAAATAATAAATAAATATAAAATTTAT
Found at i:27956687 original size:21 final size:21
Alignment explanation
Indices: 27956663--27956707 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27956653 AAATTACAAA
27956663 AAAAAATTCAAAATAATTTTT
1 AAAAAATTCAAAATAATTTTT
* * *
27956684 AAAAGATTTAAATTAATTTTT
1 AAAAAATTCAAAATAATTTTT
27956705 AAA
1 AAA
27956708 TTTCAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAAATTCAAAATAATTTTT
Found at i:27956730 original size:20 final size:20
Alignment explanation
Indices: 27956669--27956734 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
27956659 CAAAAAAAAA
27956669 TTCAAAATAATTTTTAAAAGAT
1 TTCAAAATAA-TTTT-AAAGAT
* *
27956691 TT-AAATTAATTTTTAA-AT
1 TTCAAAATAATTTTAAAGAT
27956709 TTCAAAAT-ATTTATAAAGAT
1 TTCAAAATAATTT-TAAAGAT
27956729 TTCAAA
1 TTCAAA
27956735 TTTTATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 8 0.22
19 9 0.24
20 12 0.32
21 6 0.16
22 2 0.05
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (20 bp):
TTCAAAATAATTTTAAAGAT
Found at i:27956788 original size:16 final size:17
Alignment explanation
Indices: 27956760--27956791 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
27956750 AAATTTATAT
27956760 AAATTCTTAAAAAATAA
1 AAATTCTTAAAAAATAA
27956777 AAATTC-TAAAAAATA
1 AAATTCTTAAAAAATA
27956792 TATAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATTCTTAAAAAATAA
Found at i:27961478 original size:9 final size:9
Alignment explanation
Indices: 27961464--27961521 Score: 80
Period size: 9 Copynumber: 6.2 Consensus size: 9
27961454 CCAATTTATT
27961464 TTCGGGTAA
1 TTCGGGTAA
27961473 TTCGGGTAA
1 TTCGGGTAA
*
27961482 TTTTCTGGTAA
1 --TTCGGGTAA
27961493 TTCGGGTAA
1 TTCGGGTAA
*
27961502 TTCGGATAA
1 TTCGGGTAA
27961511 TTCGGGTAA
1 TTCGGGTAA
27961520 TT
1 TT
27961522 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 35 0.81
11 8 0.19
ACGTcount: A:0.22, C:0.10, G:0.28, T:0.40
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:27961486 original size:20 final size:20
Alignment explanation
Indices: 27961461--27961523 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
27961451 GGCCCAATTT
27961461 ATTTTCGGGTAATTCGGGTA
1 ATTTTCGGGTAATTCGGGTA
*
27961481 ATTTTCTGGTAATTCGGGTA
1 ATTTTCGGGTAATTCGGGTA
*
27961501 A--TTCGGATAATTCGGGTA
1 ATTTTCGGGTAATTCGGGTA
27961519 ATTTT
1 ATTTT
27961524 TAACCAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 16 0.42
20 22 0.58
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (20 bp):
ATTTTCGGGTAATTCGGGTA
Found at i:27962626 original size:6 final size:6
Alignment explanation
Indices: 27962573--27962614 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
27962563 GATTTTTTCC
27962573 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
27962615 GGAGAAATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Done.