Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 69 of 226
Found at i:26126067 original size:7 final size:7
Alignment explanation
Indices: 26126055--26126096 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
26126045 AATATATAAA
26126055 AAATTAT
1 AAATTAT
26126062 AAATTAAT
1 AAATT-AT
*
26126070 AAA-TAA
1 AAATTAT
26126076 AAATTAT
1 AAATTAT
26126083 AAATTAT
1 AAATTAT
26126090 AAATTAT
1 AAATTAT
26126097 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 4 0.13
7 22 0.71
8 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAATTAT
Found at i:26126079 original size:21 final size:20
Alignment explanation
Indices: 26126053--26126093 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
26126043 TAAATATATA
26126053 AAAAATTATAAATTAATAAAT
1 AAAAATTATAAATT-ATAAAT
26126074 AAAAATTATAAATTATAAAT
1 AAAAATTATAAATTATAAAT
26126094 TATTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTATAAATTATAAAT
Found at i:26131826 original size:45 final size:46
Alignment explanation
Indices: 26131775--26131882 Score: 143
Period size: 45 Copynumber: 2.4 Consensus size: 46
26131765 GATTGAAAAC
26131775 CATCGTTGTCGGGCAACCC-AGGGTGGTAG-ATTGTAC-A-TCTAGAGT
1 CATCGTTGTCGGGCAACCCGA-GGTGGTAGTA-TGTACAAGT-TAGAGT
*
26131820 CATCGTTGTCGGGCAACCCGAGGTGGTAGTATGTACAAGTTAGCGT
1 CATCGTTGTCGGGCAACCCGAGGTGGTAGTATGTACAAGTTAGAGT
*
26131866 CATCGTTGTCGAGCAAC
1 CATCGTTGTCGGGCAAC
26131883 ATAGGGTGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
45 32 0.56
46 24 0.42
47 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (46 bp):
CATCGTTGTCGGGCAACCCGAGGTGGTAGTATGTACAAGTTAGAGT
Found at i:26132076 original size:45 final size:46
Alignment explanation
Indices: 26132025--26132132 Score: 134
Period size: 45 Copynumber: 2.4 Consensus size: 46
26132015 GATTGAAAAC
26132025 CATCGTTGTCGGGCAACCC-AGGGTGGTAG-ATTGTAC-A-TCTAGAGT
1 CATCGTTGTCGGGCAACCCGA-GGTGGTAGTA-TGTACAAGT-TAGAGT
*
26132070 CATCGTTGTCGGGCAACCCGAGGTGGTAGTATGTACAAGTTAGCGT
1 CATCGTTGTCGGGCAACCCGAGGTGGTAGTATGTACAAGTTAGAGT
* *
26132116 CATCATTGTCGAGCAAC
1 CATCGTTGTCGGGCAAC
26132133 ATAGGGTGAT
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
45 32 0.57
46 23 0.41
47 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (46 bp):
CATCGTTGTCGGGCAACCCGAGGTGGTAGTATGTACAAGTTAGAGT
Found at i:26132162 original size:250 final size:250
Alignment explanation
Indices: 26131721--26132212 Score: 957
Period size: 250 Copynumber: 2.0 Consensus size: 250
26131711 TTAGTTGTTC
26131721 GGATCGAGTTGGATATAGTTGGCATGCCATAGGGTTAGAATATTGATTGAAAACCATCGTTGTCG
1 GGATCGAGTTGGATATAGTTGGCATGCCATAGGGTTAGAATATTGATTGAAAACCATCGTTGTCG
26131786 GGCAACCCAGGGTGGTAGATTGTACATCTAGAGTCATCGTTGTCGGGCAACCCGAGGTGGTAGTA
66 GGCAACCCAGGGTGGTAGATTGTACATCTAGAGTCATCGTTGTCGGGCAACCCGAGGTGGTAGTA
*
26131851 TGTACAAGTTAGCGTCATCGTTGTCGAGCAACATAGGGTGATGGATCCATGTATCCGTTCTGAGT
131 TGTACAAGTTAGCGTCATCATTGTCGAGCAACATAGGGTGATGGATCCATGTATCCGTTCTGAGT
*
26131916 CCGTGTTTGGTTAATAGGGTTATAAACAGACGAATTGGTTAAATGATATAGTGAT
196 CCGTGTTTGGTTAATAGGGTTATAAACAGACGAATTGGCTAAATGATATAGTGAT
*
26131971 GGATCGAGTTGGATATAGTTGGCATGCCATAGGGTTAGGATATTGATTGAAAACCATCGTTGTCG
1 GGATCGAGTTGGATATAGTTGGCATGCCATAGGGTTAGAATATTGATTGAAAACCATCGTTGTCG
26132036 GGCAACCCAGGGTGGTAGATTGTACATCTAGAGTCATCGTTGTCGGGCAACCCGAGGTGGTAGTA
66 GGCAACCCAGGGTGGTAGATTGTACATCTAGAGTCATCGTTGTCGGGCAACCCGAGGTGGTAGTA
26132101 TGTACAAGTTAGCGTCATCATTGTCGAGCAACATAGGGTGATGGATCCATGTATCCGTTCTGAGT
131 TGTACAAGTTAGCGTCATCATTGTCGAGCAACATAGGGTGATGGATCCATGTATCCGTTCTGAGT
26132166 CCGTGTTTGGTTAATAGGGTTATAAACAGACGAATTGGCTAAATGAT
196 CCGTGTTTGGTTAATAGGGTTATAAACAGACGAATTGGCTAAATGAT
26132213 GTGTGAAATA
Statistics
Matches: 239, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
250 239 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (250 bp):
GGATCGAGTTGGATATAGTTGGCATGCCATAGGGTTAGAATATTGATTGAAAACCATCGTTGTCG
GGCAACCCAGGGTGGTAGATTGTACATCTAGAGTCATCGTTGTCGGGCAACCCGAGGTGGTAGTA
TGTACAAGTTAGCGTCATCATTGTCGAGCAACATAGGGTGATGGATCCATGTATCCGTTCTGAGT
CCGTGTTTGGTTAATAGGGTTATAAACAGACGAATTGGCTAAATGATATAGTGAT
Found at i:26133961 original size:13 final size:13
Alignment explanation
Indices: 26133945--26133971 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26133935 AGAAAAATAA
26133945 ATATTTATTATAT
1 ATATTTATTATAT
26133958 ATATTTATTATAT
1 ATATTTATTATAT
26133971 A
1 A
26133972 AATACTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTTATTATAT
Found at i:26134322 original size:1 final size:1
Alignment explanation
Indices: 26134316--26134342 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
26134306 GCAACACAAA
26134316 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
26134343 GCCAAACATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:26136590 original size:3 final size:3
Alignment explanation
Indices: 26136577--26136696 Score: 79
Period size: 3 Copynumber: 39.7 Consensus size: 3
26136567 TTTAGTCCCG
* * *
26136577 TTA TCA TTA TTA TTA TTA TTA TTTA TTA TTA -AA CTAA TTA GTT- TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA -TTA TTA
* * * *
26136623 TTA TTA CTA TTA TTA TTA TTA TTA TCA TTA TTG TT- GTA TT- TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
26136668 TTA TTA CTTA CCTTA TTA TTA TTT TTA TT
1 TTA TTA -TTA --TTA TTA TTA TTA TTA TT
26136697 TACCCGTTTA
Statistics
Matches: 95, Mismatches: 13, Indels: 18
0.75 0.10 0.14
Matches are distributed among these distances:
2 8 0.08
3 73 0.77
4 10 0.11
5 4 0.04
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:26136851 original size:18 final size:18
Alignment explanation
Indices: 26136828--26136869 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
26136818 ACTTTTGTAA
26136828 ATATATATACATACTTAC
1 ATATATATACATACTTAC
* * *
26136846 ATATATATATATATTTAT
1 ATATATATACATACTTAC
26136864 ATATAT
1 ATATAT
26136870 TTAATAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATATATACATACTTAC
Found at i:26144136 original size:8 final size:8
Alignment explanation
Indices: 26144118--26144165 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
26144108 TGAATAATTA
26144118 TTTCTATTC
1 TTTC-ATTC
26144127 TTTCATTC
1 TTTCATTC
26144135 TTTC-TTC
1 TTTCATTC
*
26144142 TAAATCATTC
1 T--TTCATTC
26144152 TTTCATTC
1 TTTCATTC
26144160 TTTCAT
1 TTTCAT
26144166 AATCATACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 4 0.12
8 20 0.59
9 6 0.18
10 4 0.12
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (8 bp):
TTTCATTC
Found at i:26145067 original size:1 final size:1
Alignment explanation
Indices: 26145063--26145159 Score: 50
Period size: 1 Copynumber: 97.0 Consensus size: 1
26145053 AAAAATGTTT
* * * * * * ** * * *
26145063 AAAAAAAGAGAAAAAAGAAAAAAAAAAGAAAAAGAAAAAAAAGATGAAGAAAAGAAAAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
26145128 AAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
26145160 GGAGAGGTCA
Statistics
Matches: 65, Mismatches: 31, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (1 bp):
A
Found at i:26145078 original size:12 final size:11
Alignment explanation
Indices: 26145063--26145159 Score: 88
Period size: 12 Copynumber: 8.3 Consensus size: 11
26145053 AAAAATGTTT
*
26145063 AAAAAAAGAGA
1 AAAAAAAAAGA
*
26145074 AAAAAGAAAAAA
1 AAAAA-AAAAGA
26145086 AAAAGAAAAAGA
1 AAAA-AAAAAGA
*
26145098 AAAAAAAGATGA
1 AAAAAAA-AAGA
26145110 AGAAAAGAAAA-A
1 A-AAAA-AAAAGA
*
26145122 AAAGAAAAAGA
1 AAAAAAAAAGA
26145133 AAAAGAAAAAGA
1 AAAA-AAAAAGA
26145145 AAAAGAAAAAGA
1 AAAA-AAAAAGA
26145157 AAA
1 AAA
26145160 GGAGAGGTCA
Statistics
Matches: 72, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
10 4 0.06
11 15 0.21
12 45 0.62
13 6 0.08
14 2 0.03
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:26145094 original size:26 final size:26
Alignment explanation
Indices: 26145065--26145154 Score: 119
Period size: 26 Copynumber: 3.4 Consensus size: 26
26145055 AAATGTTTAA
*
26145065 AAAAAGAGAAAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAGAAAAAAAAAAG
** *
26145091 AAAAAGAAAAAAAAGATGAAGAAAAG
1 AAAAAGAAAAAAAAGAAAAAAAAAAG
26145117 AAAAA-AAAGAAAAAGAAAAAGAAAAAG
1 AAAAAGAAA-AAAAAGAAAAA-AAAAAG
26145144 AAAAAGAAAAA
1 AAAAAGAAAAA
26145155 GAAAAGGAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
25 3 0.06
26 36 0.67
27 12 0.22
28 3 0.06
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (26 bp):
AAAAAGAAAAAAAAGAAAAAAAAAAG
Found at i:26145121 original size:35 final size:35
Alignment explanation
Indices: 26145063--26145160 Score: 130
Period size: 35 Copynumber: 2.8 Consensus size: 35
26145053 AAAAATGTTT
26145063 AAAAAAAGAGAAAAAAGAAAAAAAAAAGAAAAAGA
1 AAAAAAAGAGAAAAAAGAAAAAAAAAAGAAAAAGA
26145098 AAAAAAAGATGAAGAAAAG--AAAAAAAAGAAAAAGA
1 AAAAAAAGA-GAA-AAAAGAAAAAAAAAAGAAAAAGA
* *
26145133 AAAAGAAAAAG-AAAAAGAAAAAGAAAAG
1 AAAA-AAAGAGAAAAAAGAAAAAAAAAAG
26145161 GAGAGGTCAA
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
33 5 0.09
34 1 0.02
35 38 0.68
36 7 0.12
37 5 0.09
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (35 bp):
AAAAAAAGAGAAAAAAGAAAAAAAAAAGAAAAAGA
Found at i:26145155 original size:18 final size:17
Alignment explanation
Indices: 26145063--26145160 Score: 117
Period size: 18 Copynumber: 5.6 Consensus size: 17
26145053 AAAAATGTTT
*
26145063 AAAAAAAGAGAAAAAAGA
1 AAAAAAAAAG-AAAAAGA
26145081 AAAAAAAAAGAAAAAGA
1 AAAAAAAAAGAAAAAGA
*
26145098 AAAAAAAGATGAAGAAA-A
1 AAAAAAA-AAGAA-AAAGA
*
26145116 GAAAAAAAAGAAAAAGA
1 AAAAAAAAAGAAAAAGA
26145133 AAAAGAAAAAGAAAAAGA
1 AAAA-AAAAAGAAAAAGA
*
26145151 AAAAGAAAAG
1 AAAAAAAAAG
26145161 GAGAGGTCAA
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.04
17 27 0.39
18 37 0.53
19 3 0.04
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGA
Found at i:26146593 original size:89 final size:89
Alignment explanation
Indices: 26146407--26147115 Score: 920
Period size: 89 Copynumber: 8.0 Consensus size: 89
26146397 GATAGCAGAT
* * * * * * * *
26146407 CTTGCCTTCATGTACTGACAGTGAAGCAGATTAAAGACACCAG-CCTTGCCTTCCT-TACTGACA
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
* * * *
26146470 GCGGAGCAGA-CTGAAGATAGCAGAT
66 GCGAAGCAGATC-GAAGACACCAG-C
* * * * *
26146495 ATTGCCTTCCTGTACTGATAGTGGAGCAGACTGAAGATAGCAGATCTTGCATTCCTGTATTGACA
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
* * *
26146560 ACGAAGAAGATCAAAGACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* *
26146584 CTTGTCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACG
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
*
26146649 GTGAAGCAGATCGAAGACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* ** *
26146673 CTTGCCTTCCTTTACTGACAGCGGAGCAGACTGAAGATAATAGATCTTGCCTTCCTGTACTGACG
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
* * * *
26146738 GCGAAGTAAATCGAAAACATCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * **
26146762 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAACAGATCTTGCCTTCCTATACTGATG
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
*
26146827 GCGAAGCAGATCGAAGACACCAGT
66 GCGAAGCAGATCGAAGACACCAGC
* * *
26146851 CTTGCCTTCCTGTACTGATAGCGGAGCAGACTGAAGATAGCAGATATTGCCTTCCTGTACTTACA
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
* *
26146916 GCGAAGTAGATCGAATACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * * * * *
26146940 TTTGCCTTCCTGTACTGACAGCGGAGAAGACTAAAAATAGTAGATCTTGCCTTCTTGTACTGACA
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
26147005 GCGAAGCAGATCGAAGACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * *
26147029 CTTGCCTTCCTGTACTGACAGCGAAACAGACTGAAGATAGCAGATCTTGCCTTCCTGTATTGACA
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
*
26147094 GCGAAGCAGATTGAAGACACCA
66 GCGAAGCAGATCGAAGACACCA
26147116 TAGTCTGCAG
Statistics
Matches: 540, Mismatches: 78, Indels: 5
0.87 0.13 0.01
Matches are distributed among these distances:
88 35 0.06
89 482 0.89
90 22 0.04
91 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (89 bp):
CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
GCGAAGCAGATCGAAGACACCAGC
Found at i:26148414 original size:13 final size:14
Alignment explanation
Indices: 26148389--26148417 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
26148379 TGCATTTCTA
26148389 TTTCTATTTTTGTT
1 TTTCTATTTTTGTT
26148403 TTTCTA-TTTTGTT
1 TTTCTATTTTTGTT
26148416 TT
1 TT
26148418 GTAATAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTCTATTTTTGTT
Found at i:26149089 original size:3 final size:3
Alignment explanation
Indices: 26149075--26149139 Score: 78
Period size: 3 Copynumber: 21.3 Consensus size: 3
26149065 ATTTAGTCCC
* * *
26149075 ATT ATC ATT ATT ATT ATTT ATA ATT AGTT -TT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
26149121 ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
26149140 GCATTATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 46 0.87
4 5 0.09
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:26149279 original size:23 final size:24
Alignment explanation
Indices: 26149253--26149304 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
26149243 TTTTTTGTAC
*
26149253 TTTATAATATATATA-TACATATT
1 TTTATAATATATATACAACATATT
26149276 TTTATAATATATATACGAACATATT
1 TTTATAATATATATAC-AACATATT
26149301 TTTA
1 TTTA
26149305 ACTTTTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 15 0.58
25 11 0.42
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTATAATATATATACAACATATT
Found at i:26149372 original size:93 final size:94
Alignment explanation
Indices: 26149206--26149383 Score: 209
Period size: 93 Copynumber: 1.9 Consensus size: 94
26149196 TTTATTCCCC
* * * * *
26149206 TTTTAAATTTTGTTATATATATATACATACTTATATATTTTTTGTACTTTATAATATATATATAC
1 TTTTAAATTTTGTTAAATATATATACATACTTACATATTATATATACTTTATAATATATATATAC
* *
26149271 ATATTTTTATAATATATATACGAACATAT
66 ATAATTTTAAAATATATATACGAACATAT
* ** *
26149300 TTTTAACTTTTG-TAAATATATATACATACTTACATATATATATATA-TTTATTTGTATATATTT
1 TTTTAAATTTTGTTAAATATATATACATACTTACATAT-TATATATACTTTA-TAATATATATAT
*
26149363 A-ATAATTTTAAAATATGTATA
64 ACATAATTTTAAAATATATATA
26149384 TATACATATA
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
93 44 0.63
94 26 0.37
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (94 bp):
TTTTAAATTTTGTTAAATATATATACATACTTACATATTATATATACTTTATAATATATATATAC
ATAATTTTAAAATATATATACGAACATAT
Found at i:26149940 original size:74 final size:75
Alignment explanation
Indices: 26149819--26149965 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 75
26149809 TCTTTTCAAG
* *
26149819 CTCAAGTTTTAAATGATCTCGGGAATTTAGAAGAGATCGTGTCCTAACTTACTGGGCATGATC-C
1 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTC
*
26149883 TTTTTTTTTC
66 TTTCTTTTTC
26149893 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTC
1 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTC
26149958 TTTCTTTT
66 TTTCTTTT
26149966 AAAATCCAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 61 0.88
75 8 0.12
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (75 bp):
CTCAAGTTTTAAATGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTC
TTTCTTTTTC
Found at i:26150607 original size:34 final size:34
Alignment explanation
Indices: 26150564--26150631 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
26150554 TGAAAAAAAA
26150564 ACCCTTTAAGCATTGCTCCATACAAATTTCAGTT
1 ACCCTTTAAGCATTGCTCCATACAAATTTCAGTT
26150598 ACCCTTTAAGCATTGCTCCATACAAATTTCAGTT
1 ACCCTTTAAGCATTGCTCCATACAAATTTCAGTT
26150632 TTTTTTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (34 bp):
ACCCTTTAAGCATTGCTCCATACAAATTTCAGTT
Found at i:26153730 original size:9 final size:9
Alignment explanation
Indices: 26153713--26153749 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
26153703 TGAGTTTTCG
26153713 AATTCGAAT
1 AATTCGAAT
*
26153722 AACTCGAAT
1 AATTCGAAT
26153731 AATTCGAAT
1 AATTCGAAT
26153740 AATTCGAAT
1 AATTCGAAT
26153749 A
1 A
26153750 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26154123 original size:16 final size:17
Alignment explanation
Indices: 26154102--26154136 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
26154092 CCTATTTACT
*
26154102 TTCCCTCAAAC-TTTTA
1 TTCCCTAAAACATTTTA
26154118 TTCCCTAAAACATTTTA
1 TTCCCTAAAACATTTTA
26154135 TT
1 TT
26154137 TTTCTCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.46
Consensus pattern (17 bp):
TTCCCTAAAACATTTTA
Found at i:26158421 original size:2 final size:2
Alignment explanation
Indices: 26158414--26158446 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
26158404 CTTTATCTTT
26158414 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26158447 TATTTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26158542 original size:5 final size:5
Alignment explanation
Indices: 26158532--26158556 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
26158522 CATTTTAAAT
26158532 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
26158557 ATTTGCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:26159054 original size:107 final size:107
Alignment explanation
Indices: 26158868--26159083 Score: 378
Period size: 107 Copynumber: 2.0 Consensus size: 107
26158858 ACTATTCAAA
26158868 AAGATTTTCTAAATAAGGCAATACTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTG
1 AAGATTTTCTAAATAAGGCAATACTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTG
*
26158933 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
66 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
* * *
26158975 AAGATTTTTTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
1 AAGATTTTCTAAATAAGGCAATACTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTG
* *
26159040 GGTTTCGATTTCTCGTTTGACTAAATAGCCAAATATCCTCTT
66 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
26159082 AA
1 AA
26159084 AACTTCGAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 103 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (107 bp):
AAGATTTTCTAAATAAGGCAATACTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTG
GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
Found at i:26160654 original size:8 final size:9
Alignment explanation
Indices: 26160636--26160660 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26160626 AAAATATTTT
26160636 AAAAATAAA
1 AAAAATAAA
26160645 AAAAATAAA
1 AAAAATAAA
26160654 AAAAATA
1 AAAAATA
26160661 TTTTTAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:26160733 original size:5 final size:6
Alignment explanation
Indices: 26160675--26160734 Score: 57
Period size: 6 Copynumber: 9.0 Consensus size: 6
26160665 TAAAGTATTT
*
26160675 TAAAAT TAAAAA TTAAAAA TTAAAAAA TAAAAA TTAAAAA TTAAAAAA
1 TAAAAA TAAAAA -TAAAAA -T-AAAAA TAAAAA -TAAAAA -T-AAAAA
26160723 TAAAAA TAAAAA
1 TAAAAA TAAAAA
26160735 ATATATATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
6 21 0.43
7 18 0.37
8 10 0.20
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
TAAAAA
Found at i:26160737 original size:7 final size:7
Alignment explanation
Indices: 26160676--26160736 Score: 95
Period size: 7 Copynumber: 8.7 Consensus size: 7
26160666 AAAGTATTTT
26160676 AAAATTA
1 AAAATTA
26160683 AAAATTA
1 AAAATTA
26160690 AAAATTA
1 AAAATTA
*
26160697 AAAAATA
1 AAAATTA
26160704 AAAATTA
1 AAAATTA
26160711 AAAATTA
1 AAAATTA
*
26160718 AAAAATA
1 AAAATTA
*
26160725 AAAATAA
1 AAAATTA
26160732 AAAAT
1 AAAAT
26160737 ATATATTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAATTA
Found at i:26161738 original size:30 final size:29
Alignment explanation
Indices: 26161702--26161804 Score: 100
Period size: 30 Copynumber: 3.5 Consensus size: 29
26161692 TCCAAAAATA
* * * *
26161702 TAAAATTACATTTTAACCTTTTAATTTTCT
1 TAAAATTATATTTTAACCTCTAAAATTT-T
*
26161732 TAAAATTATATTTTGACCTCTAAAATTTT
1 TAAAATTATATTTTAACCTCTAAAATTTT
* *
26161761 TAAAATTATATTTTAATCC-CTCAACTTATT
1 TAAAATTATATTTTAA-CCTCTAAAATT-TT
*
26161791 TAAAATTACATTTT
1 TAAAATTATATTTT
26161805 GATCCTAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
29 22 0.35
30 40 0.65
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.50
Consensus pattern (29 bp):
TAAAATTATATTTTAACCTCTAAAATTTT
Found at i:26161769 original size:29 final size:28
Alignment explanation
Indices: 26161702--26161816 Score: 95
Period size: 30 Copynumber: 3.9 Consensus size: 28
26161692 TCCAAAAATA
* * *
26161702 TAAAATTACATTTTAACCTTTTAATTTTCT
1 TAAAATTACATTTTAACC-CTAAAATTT-T
* *
26161732 TAAAATTATATTTTGACCTCTAAAATTTT
1 TAAAATTACATTTTAACC-CTAAAATTTT
* * *
26161761 TAAAATTATATTTTAATCCCTCAACTTATT
1 TAAAATTACATTTTAA-CCCTAAAATT-TT
* *
26161791 TAAAATTACATTTTGATCCTAAAATT
1 TAAAATTACATTTTAACCCTAAAATT
26161817 CCTAAAAATT
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
29 29 0.41
30 41 0.59
ACGTcount: A:0.37, C:0.13, G:0.02, T:0.48
Consensus pattern (28 bp):
TAAAATTACATTTTAACCCTAAAATTTT
Found at i:26162356 original size:17 final size:18
Alignment explanation
Indices: 26162326--26162360 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
26162316 CAGGCAACCC
26162326 AAGAAAAGAGGCAAAAAA
1 AAGAAAAGAGGCAAAAAA
*
26162344 AAGAAAATA-GCAAAAAA
1 AAGAAAAGAGGCAAAAAA
26162361 GGCCTGACCC
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:0.74, C:0.06, G:0.17, T:0.03
Consensus pattern (18 bp):
AAGAAAAGAGGCAAAAAA
Found at i:26162937 original size:18 final size:18
Alignment explanation
Indices: 26162914--26162961 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
26162904 ACTTTCAAAA
* *
26162914 TATTATTATTATTATTAC
1 TATTATTATTATCAATAC
*
26162932 TATTATTATTGTCAATAC
1 TATTATTATTATCAATAC
*
26162950 CATTATTATTAT
1 TATTATTATTAT
26162962 ATTTTTCGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATTATTATCAATAC
Found at i:26164510 original size:29 final size:29
Alignment explanation
Indices: 26164478--26164533 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
26164468 ACATTTTTAA
26164478 ATTTTAGATTTA-ATTATATATACATACAT
1 ATTTTAGATTTATA-TATATATACATACAT
* *
26164507 ATTTTTGATTTATATATATATGCATAC
1 ATTTTAGATTTATATATATATACATAC
26164534 TTCTATACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (29 bp):
ATTTTAGATTTATATATATATACATACAT
Found at i:26164556 original size:16 final size:17
Alignment explanation
Indices: 26164530--26164565 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
26164520 ATATATATGC
*
26164530 ATACTTCTATACTTTAT
1 ATACTTCTATAATTTAT
26164547 ATACTT-TATAATTTAT
1 ATACTTCTATAATTTAT
26164563 ATA
1 ATA
26164566 TATACGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (17 bp):
ATACTTCTATAATTTAT
Found at i:26164586 original size:25 final size:25
Alignment explanation
Indices: 26164558--26164606 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
26164548 TACTTTATAA
*
26164558 TTTAT-ATATATACGTTATATACATT
1 TTTATAATATATAC-ATATATACATT
26164583 TTTATAATATATACATATATACAT
1 TTTATAATATATACATATATACAT
26164607 ATACGTGTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTATAATATATACATATATACATT
Found at i:26167328 original size:16 final size:16
Alignment explanation
Indices: 26167307--26167371 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
26167297 TTTGGTTCGC
*
26167307 TGTATTGGATTATAGG
1 TGTATTGGATTAGAGG
26167323 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
26167339 TGTACTGGAATAGAGG
1 TGTATTGGATTAGAGG
* *
26167355 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
26167371 T
1 T
26167372 ATAATAGCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.29, C:0.02, G:0.35, T:0.34
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:26167422 original size:45 final size:44
Alignment explanation
Indices: 26167355--26167445 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
26167345 GGAATAGAGG
*
26167355 TGTAATGGAATAGAGGTATAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCATAATAG-AAATCAACTGTTTGGTTGAA
* * ***
26167400 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCATAATAGAAATCAACTGTTTGGTTGAA
26167444 TG
1 TG
26167446 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCATAATAGAAATCAACTGTTTGGTTGAA
Found at i:26167618 original size:25 final size:25
Alignment explanation
Indices: 26167586--26167640 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
26167576 TAATTTAATC
*
26167586 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
26167610 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
26167635 ATATAT
1 ATATAT
26167641 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:26167958 original size:24 final size:27
Alignment explanation
Indices: 26167907--26167959 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
26167897 TATATGTAAT
*
26167907 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
26167934 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
26167958 AT
1 AT
26167960 GCGGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:26173243 original size:35 final size:36
Alignment explanation
Indices: 26173204--26173273 Score: 88
Period size: 38 Copynumber: 1.9 Consensus size: 36
26173194 AAATATTTGA
26173204 ACTCTTGTAT-TAGGATCCATTTTGGTAAAGTAGTT
1 ACTCTTGTATCTAGGATCCATTTTGGTAAAGTAGTT
* * *
26173239 ACTCTTTTTTCCCTGGGATCCATTTTGGTAAAGTA
1 ACTCTTGTAT--CTAGGATCCATTTTGGTAAAGTA
26173274 ATTGCCTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 8 0.28
38 21 0.72
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.43
Consensus pattern (36 bp):
ACTCTTGTATCTAGGATCCATTTTGGTAAAGTAGTT
Found at i:26173259 original size:38 final size:38
Alignment explanation
Indices: 26173216--26173290 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
26173206 TCTTGTATTA
*
26173216 GGATCCATTTTGGTAAAGTAGTTA-CTCTTTTTTCCCTG
1 GGATCCATTTTGGTAAAGTAATTACCT-TTTTTTCCCTG
*
26173254 GGATCCATTTTGGTAAAGTAATTGCCTTTTTTTCCCT
1 GGATCCATTTTGGTAAAGTAATTACCTTTTTTTCCCT
26173291 TTCCTCAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 32 0.94
39 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (38 bp):
GGATCCATTTTGGTAAAGTAATTACCTTTTTTTCCCTG
Found at i:26174597 original size:21 final size:22
Alignment explanation
Indices: 26174572--26174616 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
26174562 AATAAAGTAG
*
26174572 ATTATATATTATTT-TTATATT
1 ATTATATATTATTTATTAAATT
*
26174593 ATTATATATTTTTTATTAAATT
1 ATTATATATTATTTATTAAATT
26174615 AT
1 AT
26174617 ATTTAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTATATATTATTTATTAAATT
Found at i:26174618 original size:19 final size:18
Alignment explanation
Indices: 26174572--26174610 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
26174562 AATAAAGTAG
26174572 ATTA-TATATTATTTTTAT
1 ATTATTATA-TATTTTTAT
26174590 ATTATTATATATTTTT-T
1 ATTATTATATATTTTTAT
26174607 ATTA
1 ATTA
26174611 AATTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTATTATATATTTTTAT
Found at i:26174859 original size:45 final size:44
Alignment explanation
Indices: 26174776--26174868 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 44
26174766 ATTACGACAT
26174776 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
* *
26174820 CATTTCATTCAACCAAACA-ATTGAATTACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATTC
26174865 CATT
1 CATT
26174869 ATAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.47
45 23 0.51
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:26174877 original size:16 final size:16
Alignment explanation
Indices: 26174850--26174921 Score: 108
Period size: 16 Copynumber: 4.5 Consensus size: 16
26174840 TTGAATTACT
* *
26174850 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCA
*
26174866 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCA
26174882 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
26174898 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
26174914 ATTACAGC
1 ATTACAGC
26174922 AAACCAAACG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:26181544 original size:3 final size:3
Alignment explanation
Indices: 26181536--26181566 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
26181526 ATTGAGGCTG
26181536 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
26181567 GATGATGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:26181614 original size:29 final size:30
Alignment explanation
Indices: 26181579--26181637 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
26181569 TGATGATGAT
* *
26181579 GATGATAATTATA-AAAAAACAAAAAAATC
1 GATGATAATAAAATAAAAAACAAAAAAATC
*
26181608 GATGATAATAAAATAAAAAATAAAAAAATC
1 GATGATAATAAAATAAAAAACAAAAAAATC
26181638 CTTAAAAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (30 bp):
GATGATAATAAAATAAAAAACAAAAAAATC
Found at i:26184093 original size:9 final size:9
Alignment explanation
Indices: 26184079--26184109 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
26184069 AACATTAATG
26184079 AATAATAAC
1 AATAATAAC
26184088 AATAATAAC
1 AATAATAAC
26184097 AATAATAA-
1 AATAATAAC
26184105 AATAA
1 AATAA
26184110 ACACATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (9 bp):
AATAATAAC
Found at i:26189690 original size:3 final size:3
Alignment explanation
Indices: 26189676--26189713 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
26189666 CAAATAAAAC
*
26189676 TAA TAA TGA TAA TAA TTAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA T
26189714 GATGATGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:26190477 original size:2 final size:2
Alignment explanation
Indices: 26190472--26190583 Score: 215
Period size: 2 Copynumber: 56.0 Consensus size: 2
26190462 ATCTTATATA
26190472 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26190514 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
26190556 TG TG TG TG TG TG TA TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26190584 CTTTAAAAAA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 108 1.00
ACGTcount: A:0.01, C:0.00, G:0.49, T:0.50
Consensus pattern (2 bp):
TG
Found at i:26191413 original size:44 final size:44
Alignment explanation
Indices: 26191350--26191981 Score: 383
Period size: 44 Copynumber: 14.7 Consensus size: 44
26191340 ATTGGATGCG
* *
26191350 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
** * * *
26191394 ATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TG-GTTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTT-TT-A
* * ** * ***
26191438 GTCTGCTCCACTACTGCTT-AGGGAGATAAGA-CT-T-GATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
* * * *
26191478 ATCTGTTCTACTGCAACTTCAGAGAGATAAGATCTGTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
* * * * *
26191522 ATCTGCTCCACTTCAATTTCAGGGAGATAGGAT-TAGT-TTATTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGGT-TTTA
* * * *
26191566 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGATGTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
* ** * **
26191607 ATATGCTTTACTGTAACTTCAAAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
* * * * *
26191651 ATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TAGT-TTCTTTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGGT-TTTA
* * * * *
26191695 GTCTGCTCCACTGCAACTTCAGAGAGATAGGAT-TAGT-TTCTTTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGGT-TTTA
* * ***
26191739 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
* * * * *
26191780 ATCTCCTCTACTGCAACTTCAGAGAGATAAGATATGTTGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
* * * * *
26191824 ATCCGCTCCACTGCAACTTTAGGGAGATAGGAT-TGAT-TTCTTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTG-TGGT-TTTA
* * ***
26191868 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
* * *
26191909 ATCTGATCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
** *
26191953 ATCCACTCCACTGCAAGTTCAGGGAGATA
1 ATCTGCTCCACTGCAACTTCAGGGAGATA
26191982 GGATTTACAA
Statistics
Matches: 444, Mismatches: 116, Indels: 56
0.72 0.19 0.09
Matches are distributed among these distances:
40 13 0.03
41 99 0.22
42 7 0.02
43 25 0.06
44 300 0.68
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTA
Found at i:26191492 original size:128 final size:128
Alignment explanation
Indices: 26191314--26191728 Score: 557
Period size: 129 Copynumber: 3.2 Consensus size: 128
26191304 TTTTAGTCCA
* * * * *
26191314 CTCCACTACATCCTCAGAGAGATAGGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTACAACTTCAGGGAGATAAGATTGGATGCGATCTGTTCTACTGCAACTTCAGAGAGATA
* *
26191379 AGATCTGTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTG
66 AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTT-TGTCTG
**
26191443 CTCCACTACTGCTT-AGGGAGATAAGACTT-GATGCGATCTGTTCTACTGCAACTTCAGAGAGAT
1 CTCCACTACAACTTCAGGGAGATAAGA-TTGGATGCGATCTGTTCTACTGCAACTTCAGAGAGAT
* * * * *
26191506 AAGATCTGTGGCTTTAATCTGCTCCACTTCAATTTCAGGGAGATAGGATTAGTTTATTTCGTCTG
65 AAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTT-GTCTG
* * * * *
26191571 CTCCACTGCAACTTCAGGGAGATAAGATTGGATGTGATATGCTT-TACTGTAACTTCAAAGAGAT
1 CTCCACTACAACTTCAGGGAGATAAGATTGGATGCGATCTG-TTCTACTGCAACTTCAGAGAGAT
*
26191635 AAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAGTTTCTTTTGTCTG
65 AAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTC-TTTGTCTG
* * *
26191700 CTCCACTGCAACTTCAGAGAGATAGGATT
1 CTCCACTACAACTTCAGGGAGATAAGATT
26191729 AGTTTCTTTT
Statistics
Matches: 252, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
127 1 0.00
128 112 0.44
129 134 0.53
130 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (128 bp):
CTCCACTACAACTTCAGGGAGATAAGATTGGATGCGATCTGTTCTACTGCAACTTCAGAGAGATA
AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTTGTCTG
Found at i:26191702 original size:173 final size:172
Alignment explanation
Indices: 26191487--26191896 Score: 595
Period size: 173 Copynumber: 2.4 Consensus size: 172
26191477 GATCTGTTCT
* ** * * *
26191487 ACTGCAACTTCAGAGAGATAAGATCTGTGGCTTTAATCTGCTCCACTTCAATTTCAGGGAGATAG
1 ACTGCAACTTCAGAGAGATAGGAT-TGTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAG
* * * *
26191552 GATTAGTTTATTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGTGATATGCTTTA
65 GATTAGTTTATTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATATCCTCTA
* *
26191617 CTGTAACTTCAAAGAGATAAGATCTGTGGTTTTAATCCGCTCC
130 CTGCAACTTCAAAGAGATAAGATATGTGGTTTTAATCCGCTCC
* *
26191660 ACTGCAACTTCAGAGAGATAGGATTAGTTTCTTTTGTCTGCTCCACTGCAACTTCAGAGAGATAG
1 ACTGCAACTTCAGAGAGATAGGATT-GTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAG
* * *
26191725 GATTAGTTTCTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTCCTCTA
65 GATTAGTTTATTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATATCCTCTA
* *
26191790 CTGCAACTTCAGAGAGATAAGATATGTTGTTTTAATCCGCTCC
130 CTGCAACTTCAAAGAGATAAGATATGTGGTTTTAATCCGCTCC
* * *
26191833 ACTGCAACTTTAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGAGAGATAGGATTG-TTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
26191897 AGACTGGATG
Statistics
Matches: 212, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
172 2 0.01
173 210 0.99
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (172 bp):
ACTGCAACTTCAGAGAGATAGGATTGTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAGG
ATTAGTTTATTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATATCCTCTAC
TGCAACTTCAAAGAGATAAGATATGTGGTTTTAATCCGCTCC
Found at i:26191793 original size:129 final size:129
Alignment explanation
Indices: 26191660--26191986 Score: 480
Period size: 129 Copynumber: 2.5 Consensus size: 129
26191650 AATCCGCTCC
* ** *
26191660 ACTGCAACTTCAGAGAGATAGGAT-TAGTT-TCTTTTGTCTGCTCCACTGCAACTTCAGAGAGAT
1 ACTGCAACTTCAGAGAGATAAGATAT-GTTGT-TTTAATCCGCTCCACTGCAACTTCAGAGAGAT
* *
26191723 AGGATT-AGTTTCTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTCCT
64 AGGATTGA-TTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTCAT
26191787 CT
128 CT
* *
26191789 ACTGCAACTTCAGAGAGATAAGATATGTTGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAG
1 ACTGCAACTTCAGAGAGATAAGATATGTTGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAG
*
26191854 GATTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGATCT
66 GATTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTCATCT
* * * * *
26191918 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAAGTTCAGGGAGATAG
1 ACTGCAACTTCAGAGAGATAAGATATGTTGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAG
26191983 GATT
66 GATT
26191987 TACAATCTTC
Statistics
Matches: 181, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
129 178 0.98
130 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (129 bp):
ACTGCAACTTCAGAGAGATAAGATATGTTGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAG
GATTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTCATCT
Found at i:26192018 original size:129 final size:129
Alignment explanation
Indices: 26191700--26192030 Score: 409
Period size: 129 Copynumber: 2.6 Consensus size: 129
26191690 CTTTTGTCTG
* ** ***
26191700 CTCCACTGCAACTTCAGAGAGATAGGATT-AGTTTCTTTTGTCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTGA-AATCTTTCACCTGCTCCACTGCAACTTCAGGGA
* * *
26191764 GATAAGACTGGATGCGATCTCCTCTACTGCAACTTCAGAGAGATAAGATATGTTGTTTTAATCCG
65 GATAAGACTGGATGCGATCTCATCTACTGCAACTTCAGAGAGATAAGATATGTGGTTTTAATCCA
* ** **
26191829 CTCCACTGCAACTTTAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTGAAATCTTTCACCTGCTCCACTGCAACTTCAGGGAG
* *
26191894 ATAAGACTGGATGCGATCTGATCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCA
66 ATAAGACTGGATGCGATCTCATCTACTGCAACTTCAGAGAGATAAGATATGTGGTTTTAATCCA
* * **
26191958 CTCCACTGCAAGTTCAGGGAGATAGGATTTACAATC-TTCAACCTAG-TCCACTGC-TGTTCAGG
1 CTCCACTGCAACTTCAGGGAGATAGGATTGA-AATCTTTC-ACCT-GCTCCACTGCAACTTCAGG
*
26192020 GAGATATGACT
63 GAGATAAGACT
26192031 AGTGGCTTAA
Statistics
Matches: 180, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
129 166 0.92
130 13 0.07
131 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (129 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTGAAATCTTTCACCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTGGATGCGATCTCATCTACTGCAACTTCAGAGAGATAAGATATGTGGTTTTAATCCA
Found at i:26192138 original size:44 final size:44
Alignment explanation
Indices: 26192090--26192184 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
26192080 CTTCGATCTG
* * *
26192090 CTCCACTACTATTTAGGGAGATAAGATCTGTTATC-TCTAACCTA
1 CTCCACTACTACTTAAGGAGATAAGATCTGTAATCTTC-AACCTA
* *
26192134 CTCCACTACTGCTTAAGGAGATAGGATCTGTAATCTTCAACCTA
1 CTCCACTACTACTTAAGGAGATAAGATCTGTAATCTTCAACCTA
*
26192178 TTCCACT
1 CTCCACT
26192185 GCTGCTCAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
44 42 0.95
45 2 0.05
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (44 bp):
CTCCACTACTACTTAAGGAGATAAGATCTGTAATCTTCAACCTA
Found at i:26192190 original size:44 final size:44
Alignment explanation
Indices: 26192106--26192203 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
26192096 TACTATTTAG
* * *
26192106 GGAGATAAGATCTGTTATCTCTAACCTACTCCACTACTGCTTAA
1 GGAGATAGGATCTGTAATCTCTAACCTACTCCACTACTGCTCAA
* * *
26192150 GGAGATAGGATCTGTAATCT-TCAACCTATTCCACTGCTGCTCAG
1 GGAGATAGGATCTGTAATCTCT-AACCTACTCCACTACTGCTCAA
26192194 GGAGATAGGA
1 GGAGATAGGA
26192204 CTTGATATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.02
44 46 0.98
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
GGAGATAGGATCTGTAATCTCTAACCTACTCCACTACTGCTCAA
Found at i:26193542 original size:18 final size:18
Alignment explanation
Indices: 26193519--26193570 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
26193509 CATTGGCCTC
26193519 TCCTTTTTCTTTTTATTT
1 TCCTTTTTCTTTTTATTT
*
26193537 TCC-TTTTCTTCTTTTCTTT
1 TCCTTTTTC-T-TTTTATTT
*
26193556 TCTTTTCTTCTTTTT
1 TCCTTT-TTCTTTTT
26193571 TTTGTTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 5 0.18
18 4 0.14
19 13 0.46
20 3 0.11
21 3 0.11
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (18 bp):
TCCTTTTTCTTTTTATTT
Found at i:26193557 original size:13 final size:12
Alignment explanation
Indices: 26193522--26193587 Score: 55
Period size: 13 Copynumber: 5.3 Consensus size: 12
26193512 TGGCCTCTCC
26193522 TTTTTCTTTT-T
1 TTTTTCTTTTCT
*
26193533 ATTTTCCTTTTCT
1 -TTTTTCTTTTCT
26193546 TCTTTTCTTTTCT
1 T-TTTTCTTTTCT
*
26193559 TTTCTTCTTTTTT
1 TTT-TTCTTTTCT
*
26193572 TTGTTTGTTTT-T
1 TT-TTTCTTTTCT
26193584 TTTT
1 TTTT
26193588 AACATTCTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
11 2 0.04
12 15 0.33
13 28 0.61
14 1 0.02
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:26199409 original size:2 final size:2
Alignment explanation
Indices: 26199404--26199445 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
26199394 TATATATATA
26199404 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26199446 ACGTAAACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:26199592 original size:2 final size:2
Alignment explanation
Indices: 26199587--26199628 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
26199577 TATATATATA
26199587 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26199629 CGCTTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:26200770 original size:6 final size:7
Alignment explanation
Indices: 26200754--26200779 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
26200744 CACCGGAATG
26200754 TTTTTCT
1 TTTTTCT
26200761 TTTTTCT
1 TTTTTCT
26200768 TTTTTCT
1 TTTTTCT
26200775 TTTTT
1 TTTTT
26200780 ATCTACTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:26202855 original size:16 final size:15
Alignment explanation
Indices: 26202830--26202869 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
26202820 TGTTGTTCTG
26202830 TTTTATTTATATATT
1 TTTTATTTATATATT
*
26202845 TTTTCATTTATCTATT
1 TTTT-ATTTATATATT
26202861 TCTTTATTT
1 T-TTTATTT
26202870 TTCTTGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 15 0.68
17 3 0.14
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTTATATATT
Found at i:26204277 original size:2 final size:2
Alignment explanation
Indices: 26204270--26204350 Score: 144
Period size: 2 Copynumber: 40.5 Consensus size: 2
26204260 GTTCAACCAA
26204270 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* *
26204312 TC TC TC TC TC TC TC TC TC TC AC TC AC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
26204351 ATTCCTTATC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:26205719 original size:2 final size:2
Alignment explanation
Indices: 26205709--26205771 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
26205699 CAAACACACT
*
26205709 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26205751 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
26205772 CTAGAATTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:26213685 original size:45 final size:45
Alignment explanation
Indices: 26213630--26213717 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
26213620 TATACCTTAC
26213630 ATAAAAGATTACATCCATAACCATAATCTAAATCATTTATTAGAA
1 ATAAAAGATTACATCCATAACCATAATCTAAATCATTTATTAGAA
*
26213675 ATAAAAGATTACATCCATAACCATAATCTATATCATTTATTAG
1 ATAAAAGATTACATCCATAACCATAATCTAAATCATTTATTAG
26213718 CATTCTACTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (45 bp):
ATAAAAGATTACATCCATAACCATAATCTAAATCATTTATTAGAA
Found at i:26219399 original size:50 final size:50
Alignment explanation
Indices: 26219324--26219425 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
26219314 AGATTACAGC
26219324 ACTGAAGTGTAGTCAGATAGTCAACCAACAACATATAATGTTGCCAAGAT
1 ACTGAAGTGTAGTCAGATAGTCAACCAACAACATATAATGTTGCCAAGAT
26219374 ACTGAAGTGTAGTCAGATAGTCAACCAACAACATATAATGTTGCCAAGAT
1 ACTGAAGTGTAGTCAGATAGTCAACCAACAACATATAATGTTGCCAAGAT
26219424 AC
1 AC
26219426 AAGGATTAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (50 bp):
ACTGAAGTGTAGTCAGATAGTCAACCAACAACATATAATGTTGCCAAGAT
Found at i:26228770 original size:6 final size:6
Alignment explanation
Indices: 26228759--26228791 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
26228749 CATGGGAGTA
26228759 TTTCTT TTTCTTT TTTCTT TTT-TT TTTCTT TTT
1 TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT TTT
26228792 TTTGGGGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.20
6 14 0.56
7 6 0.24
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTCTT
Found at i:26228785 original size:11 final size:11
Alignment explanation
Indices: 26228759--26228794 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
26228749 CATGGGAGTA
26228759 TTTCTTTTTCTTT
1 TTTC-TTTT-TTT
26228772 TTTCTTTTTTT
1 TTTCTTTTTTT
26228783 TTTCTTTTTTT
1 TTTCTTTTTTT
26228794 T
1 T
26228795 GGGGGGGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 15 0.65
12 4 0.17
13 4 0.17
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:26231225 original size:334 final size:334
Alignment explanation
Indices: 26230616--26231291 Score: 1226
Period size: 334 Copynumber: 2.0 Consensus size: 334
26230606 AAGAAGTAAG
*
26230616 ATAGATTATATTATTACATTTTATTCATATCAAACATCTTTATTTTCCAAAAATGGGTCACTCCA
1 ATAGATTATATTATTACATTTTATTCATATCAAACATCTTTACTTTCCAAAAATGGGTCACTCCA
26230681 AATAGCAAATGAATATGGTCCCATTTTTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
66 AATAGCAAATGAATATGGTCCCATTTTTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
* **
26230746 AAGAAACTAGTAGCAAAATCAATGCATGCCCTTGTGTCTGTCCATAATTCTTTCAACAAAACTGT
131 AAGAAACTAGTAGCAAAATCAATGCATGCCCTTGTGTCTGTCCACAATTCTTTCAACAAAACACT
* *
26230811 AGCCATTATTTTAGATCATGAATACCATGTTTGCCTCGATCTTAAACTTGAATACCCTAGATCAA
196 AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
*
26230876 ACTCCAAGCCAAGGCTCATCTTGTTGCTACTTACTAATTTCCTATTCGCGTTCTGCTCCCTAAAA
261 ACTCCAAGCCAAGGCTCATCTTGGTGCTACTTACTAATTTCCTATTCGCGTTCTGCTCCCTAAAA
26230941 CTTGTCAGT
326 CTTGTCAGT
*
26230950 ATAGATTATATTATTATATTTTATTCATATCAAACATCTTTACTTTCCAAAAATGGGTCACTCCA
1 ATAGATTATATTATTACATTTTATTCATATCAAACATCTTTACTTTCCAAAAATGGGTCACTCCA
*
26231015 ATTAGCAAATGAATATGGTCCCATTTTTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
66 AATAGCAAATGAATATGGTCCCATTTTTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
* * *
26231080 AAGAAACTAGTAGCAAAATCAATGCATGCCCTTGTGTCTTTCCACACTTGTTTCAACAAAACACT
131 AAGAAACTAGTAGCAAAATCAATGCATGCCCTTGTGTCTGTCCACAATTCTTTCAACAAAACACT
26231145 AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
196 AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
*
26231210 ACTCCAAGCCAAGGCTCATCTTGGTGCTACTTACTAATTTCCTATTTGCGTTCTGCTCCCTAAAA
261 ACTCCAAGCCAAGGCTCATCTTGGTGCTACTTACTAATTTCCTATTCGCGTTCTGCTCCCTAAAA
*
26231275 CTTGTTAGT
326 CTTGTCAGT
26231284 ATAGATTA
1 ATAGATTA
26231292 ACAAAAAATG
Statistics
Matches: 328, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
334 328 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (334 bp):
ATAGATTATATTATTACATTTTATTCATATCAAACATCTTTACTTTCCAAAAATGGGTCACTCCA
AATAGCAAATGAATATGGTCCCATTTTTAATCAAAATATTGACAAATGGAGTAAACCAACAAATG
AAGAAACTAGTAGCAAAATCAATGCATGCCCTTGTGTCTGTCCACAATTCTTTCAACAAAACACT
AGCCATTATTTTAGATCACGAATACCATGTTTGCCTCAATCTTAAACTTGAATACCCTAGATCAA
ACTCCAAGCCAAGGCTCATCTTGGTGCTACTTACTAATTTCCTATTCGCGTTCTGCTCCCTAAAA
CTTGTCAGT
Found at i:26234847 original size:18 final size:17
Alignment explanation
Indices: 26234802--26234848 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
26234792 ACTAGTTACA
26234802 TATATAATATA-TTTTAT
1 TATA-AATATATTTTTAT
*
26234819 TAAAAACTATATTTTTATT
1 TATAAA-TATATTTTTA-T
26234838 TATAAATATAT
1 TATAAATATAT
26234849 AAAAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 2 0.08
17 7 0.28
18 10 0.40
19 6 0.24
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
TATAAATATATTTTTAT
Found at i:26234861 original size:18 final size:19
Alignment explanation
Indices: 26234840--26234882 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
26234830 TTTTTATTTA
26234840 TAAATATAT-AAAAAAATT
1 TAAATATATCAAAAAAATT
* *
26234858 TAAAAATATCAACAAAATT
1 TAAATATATCAAAAAAATT
*
26234877 AAAATA
1 TAAATA
26234883 GAGCACGTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAATATATCAAAAAAATT
Found at i:26246002 original size:58 final size:57
Alignment explanation
Indices: 26245880--26246005 Score: 130
Period size: 58 Copynumber: 2.2 Consensus size: 57
26245870 CCACATAACC
**
26245880 CTTTTTTTATCTGTTTTAGTACCTGGACTTGACACTTTTTTCTAATTTAGTAACAAATT
1 CTTTTTTT-TCTAATTTAGTACCTGGACTTGACACTTTTTTCTAATTTAGTAACAAA-T
* * * * *
26245939 ATTTTTTTTCTAATTTGGTACCT-GATCTTGACACTTTTTTGCCTAATTTGGTACCTAA-
1 CTTTTTTTTCTAATTTAGTACCTGGA-CTTGACACTTTTTT--CTAATTTAGTAACAAAT
26245997 CTTTTTTTT
1 CTTTTTTTT
26246006 ATCCAATTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
57 2 0.04
58 34 0.61
59 7 0.12
60 13 0.23
ACGTcount: A:0.21, C:0.16, G:0.10, T:0.53
Consensus pattern (57 bp):
CTTTTTTTTCTAATTTAGTACCTGGACTTGACACTTTTTTCTAATTTAGTAACAAAT
Found at i:26246004 original size:60 final size:58
Alignment explanation
Indices: 26245898--26246015 Score: 141
Period size: 60 Copynumber: 2.0 Consensus size: 58
26245888 ATCTGTTTTA
* *
26245898 GTACCTGGACTTGACACTTTTTTCTAATTTAGTAACAAATTATTTTTTTTCTAATTTG
1 GTACCTGGACTTGACACTTTTTTCTAATTTAGTAACAAATTATTTTTTATCCAATTTG
* * *
26245956 GTACCT-GATCTTGACACTTTTTTGCCTAATTTGGTACCTAACTT-TTTTTTATCCAATTTG
1 GTACCTGGA-CTTGACACTTTTTT--CTAATTTAGTAAC-AAATTATTTTTTATCCAATTTG
26246016 ACGCCTAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
57 2 0.04
58 20 0.39
60 25 0.49
61 4 0.08
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (58 bp):
GTACCTGGACTTGACACTTTTTTCTAATTTAGTAACAAATTATTTTTTATCCAATTTG
Found at i:26247865 original size:14 final size:14
Alignment explanation
Indices: 26247846--26247876 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
26247836 TTTTGATTTG
26247846 ATGCAATTATATAC
1 ATGCAATTATATAC
*
26247860 ATGCAATTATATTC
1 ATGCAATTATATAC
26247874 ATG
1 ATG
26247877 TACCTTGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (14 bp):
ATGCAATTATATAC
Found at i:26248924 original size:21 final size:21
Alignment explanation
Indices: 26248900--26248939 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
26248890 ATTCCATACT
26248900 TACCCTTTATCACTTAACAGG
1 TACCCTTTATCACTTAACAGG
26248921 TACCCTTTATCACTTAACA
1 TACCCTTTATCACTTAACA
26248940 CGAACTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (21 bp):
TACCCTTTATCACTTAACAGG
Found at i:26253207 original size:23 final size:23
Alignment explanation
Indices: 26253180--26253290 Score: 110
Period size: 23 Copynumber: 5.0 Consensus size: 23
26253170 GGCTTTGTCG
*
26253180 ATCAGACACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
26253203 ATCAGGCACTTTATGTGTCGTACT
1 ATCAGGCACTTTATGTGTCGTA-T
*
26253227 -TCAGGCACCTCT-TGTGTCG--T
1 ATCAGGCA-CTTTATGTGTCGTAT
* **
26253247 ATCAGGCACCTCGTGTGTCGT-T
1 ATCAGGCACTTTATGTGTCGTAT
26253269 -TCAGGCAC-TTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
26253290 A
1 A
26253291 CTGATCTGGT
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
20 11 0.15
21 23 0.31
22 1 0.01
23 35 0.47
24 4 0.05
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:26253255 original size:44 final size:41
Alignment explanation
Indices: 26253181--26253289 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 41
26253171 GCTTTGTCGA
* * *
26253181 TCAGACACTTTATGTGTCGTATATCAGGCACTTTATGTGTCGTACT
1 TCAGGCAC-TTATGTGTCG--TATCAGGCACCTCATGTGTCGT--T
*
26253227 TCAGGCACCTCT-TGTGTCGTATCAGGCACCTCGTGTGTCGTT
1 TCAGGCA-CT-TATGTGTCGTATCAGGCACCTCATGTGTCGTT
26253269 TCAGGCACTTATGTGTCGTAT
1 TCAGGCACTTATGTGTCGTAT
26253290 ACTGATCTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
40 1 0.02
41 12 0.21
42 8 0.14
44 19 0.34
46 14 0.25
47 2 0.04
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (41 bp):
TCAGGCACTTATGTGTCGTATCAGGCACCTCATGTGTCGTT
Found at i:26253645 original size:23 final size:24
Alignment explanation
Indices: 26253604--26253648 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
26253594 AGAAATGAGA
26253604 AGTGAAAATAAAATGATTTGAAAT
1 AGTGAAAATAAAATGATTTGAAAT
26253628 AGTG-AAATAATAAT-ATTTGAA
1 AGTGAAAATAA-AATGATTTGAA
26253649 TTTAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (24 bp):
AGTGAAAATAAAATGATTTGAAAT
Found at i:26255488 original size:71 final size:72
Alignment explanation
Indices: 26255345--26255497 Score: 168
Period size: 71 Copynumber: 2.1 Consensus size: 72
26255335 AGACAATCAA
*
26255345 TCGAGACAAGGCTCCCCTGAAGCATACCTTAGCTTCGATGTTGGCTGGTCTCGAGACAATATGTA
1 TCGAGACAAGGCTCCCCTGAAGCATACCTTAGCTTCGATGTTGGCTGGTCTCGAGACAACATGTA
*
26255410 TTTTGTC
66 TTGTGTC
* ** ** * *
26255417 TCGAGACAAGGTTCCTTTGAAGCAT-TTTTAGCTTCGATGTTGGTTTGTCTCGA-AGCATACATG
1 TCGAGACAAGGCTCCCCTGAAGCATACCTTAGCTTCGATGTTGGCTGGTCTCGAGA-CA-ACATG
*
26255480 -CTTGTGTC
64 TATTGTGTC
*
26255488 TCAAGACAAG
1 TCGAGACAAG
26255498 ACCGTGAACC
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
70 1 0.01
71 41 0.60
72 26 0.38
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (72 bp):
TCGAGACAAGGCTCCCCTGAAGCATACCTTAGCTTCGATGTTGGCTGGTCTCGAGACAACATGTA
TTGTGTC
Found at i:26266589 original size:15 final size:14
Alignment explanation
Indices: 26266569--26266611 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
26266559 TAATTGAGAT
26266569 TTTTTATTTTAGAAC
1 TTTTTATTTTA-AAC
*
26266584 TTTTTATTTTAAAT
1 TTTTTATTTTAAAC
26266598 TTTTTATATTTAAA
1 TTTTTAT-TTTAAA
26266612 GTTTGAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (14 bp):
TTTTTATTTTAAAC
Found at i:26272628 original size:8 final size:8
Alignment explanation
Indices: 26272615--26272640 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
26272605 GTATGGTGCC
26272615 TGCATGTA
1 TGCATGTA
26272623 TGCATGTA
1 TGCATGTA
26272631 TGCATGTA
1 TGCATGTA
26272639 TG
1 TG
26272641 TGTTGAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.38
Consensus pattern (8 bp):
TGCATGTA
Found at i:26277506 original size:2 final size:2
Alignment explanation
Indices: 26277499--26277529 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26277489 TTTCTAACAC
26277499 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26277530 TTCTACATGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26278203 original size:2 final size:2
Alignment explanation
Indices: 26278196--26278235 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
26278186 TAAAAATTTA
26278196 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26278236 GTCATGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26278745 original size:30 final size:30
Alignment explanation
Indices: 26278709--26278785 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
26278699 GTTACCACTA
* * *
26278709 ACCATTTTTCATTACAGAAGTAACGGAGTT
1 ACCATTTTTCGTTACAGAAGTAACGAAGCT
* *
26278739 ACCATTTTCCGTTACAGACGTAACGAAGCT
1 ACCATTTTTCGTTACAGAAGTAACGAAGCT
*
26278769 ATCATTTTTCGTTACAG
1 ACCATTTTTCGTTACAG
26278786 TTCCACTACA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (30 bp):
ACCATTTTTCGTTACAGAAGTAACGAAGCT
Found at i:26278859 original size:71 final size:71
Alignment explanation
Indices: 26278738--26278890 Score: 243
Period size: 71 Copynumber: 2.2 Consensus size: 71
26278728 GTAACGGAGT
* * * *
26278738 TACCATTTTCCGTTACAGACGTAACGAAGCTATCATTTTTCGTTACAGTTCCACTACATACTTAA
1 TACCATTTTCCGTTACAAACGTAACGAAGCTACCATTTTCCGTTACAGTTCCACTACAGACTTAA
26278803 CCAAAC
66 CCAAAC
* *
26278809 TACCATTTTCCGTTACAAACGTAACGGAGCTACCATTTTCCGTTATAGTTCCACTACAGACTTAA
1 TACCATTTTCCGTTACAAACGTAACGAAGCTACCATTTTCCGTTACAGTTCCACTACAGACTTAA
*
26278874 CTAAAC
66 CCAAAC
26278880 TACCATTTTCC
1 TACCATTTTCC
26278891 ATCCCCCTCC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 75 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (71 bp):
TACCATTTTCCGTTACAAACGTAACGAAGCTACCATTTTCCGTTACAGTTCCACTACAGACTTAA
CCAAAC
Found at i:26278969 original size:45 final size:46
Alignment explanation
Indices: 26278911--26279001 Score: 125
Period size: 45 Copynumber: 2.0 Consensus size: 46
26278901 CATCCCTCAC
26278911 CCTCTTCCCCACCATCC-CC-C-TACTCTGATTCTCTCTCCCTCTCCG
1 CCTCTTCCCCACCATCCTCCTCTTACTCTGATTCT-T-TCCCTCTCCG
*
26278956 CCTCTTCCTCACCATCCTTCCTCTTACTCTGATTCTTTCCCTCTCC
1 CCTCTTCCCCACCATCC-TCCTCTTACTCTGATTCTTTCCCTCTCC
26279002 CCCACCATCC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
45 16 0.39
47 11 0.27
48 2 0.05
49 12 0.29
ACGTcount: A:0.09, C:0.52, G:0.03, T:0.36
Consensus pattern (46 bp):
CCTCTTCCCCACCATCCTCCTCTTACTCTGATTCTTTCCCTCTCCG
Found at i:26284503 original size:75 final size:75
Alignment explanation
Indices: 26284380--26284523 Score: 270
Period size: 75 Copynumber: 1.9 Consensus size: 75
26284370 ATCTAAAGGG
26284380 TAATTACTTCATCATGTTTCTGAACATTTTATATAATCACACTTCAGTCCAATGTCATCACTAAA
1 TAATTACTTCATCATGTTTCTGAACATTTTATATAATCACACTTCAGTCCAATGTCATCACTAAA
26284445 AATTTAAATT
66 AATTTAAATT
* *
26284455 TAATTACTTCATCATGTTTCTGAACGTTTTATATAATCACACTTCAGTCCAATGTCATCACTAAG
1 TAATTACTTCATCATGTTTCTGAACATTTTATATAATCACACTTCAGTCCAATGTCATCACTAAA
26284520 AATT
66 AATT
26284524 ATTTTTTTTT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (75 bp):
TAATTACTTCATCATGTTTCTGAACATTTTATATAATCACACTTCAGTCCAATGTCATCACTAAA
AATTTAAATT
Found at i:26285326 original size:13 final size:15
Alignment explanation
Indices: 26285310--26285346 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
26285300 CAAAAAAAAA
26285310 AAAAAAAAC-TGAT-
1 AAAAAAAACTTGATG
26285323 AAAAAAAACTTGATG
1 AAAAAAAACTTGATG
26285338 AAAACAAAA
1 AAAA-AAAA
26285347 ATTAAACTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.43
14 4 0.19
15 4 0.19
16 4 0.19
ACGTcount: A:0.70, C:0.08, G:0.08, T:0.14
Consensus pattern (15 bp):
AAAAAAAACTTGATG
Found at i:26285347 original size:21 final size:21
Alignment explanation
Indices: 26285323--26285367 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
26285313 AAAAACTGAT
26285323 AAAA-AAAACTTGATGAAAACA
1 AAAATAAAAC-TGATGAAAACA
*
26285344 AAAATTAAACTGATGAAAACA
1 AAAATAAAACTGATGAAAACA
26285365 AAA
1 AAA
26285368 CCGGTCACGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.16
Consensus pattern (21 bp):
AAAATAAAACTGATGAAAACA
Found at i:26285429 original size:27 final size:27
Alignment explanation
Indices: 26285399--26285450 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
26285389 GCGACACCGG
*
26285399 TCACGCCTTCCCCATAGGCGGCATCAA
1 TCACACCTTCCCCATAGGCGGCATCAA
* *
26285426 TCACATCTTCTCCATAGGCGGCATC
1 TCACACCTTCCCCATAGGCGGCATC
26285451 GGTAGCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.38, G:0.17, T:0.23
Consensus pattern (27 bp):
TCACACCTTCCCCATAGGCGGCATCAA
Found at i:26285561 original size:16 final size:16
Alignment explanation
Indices: 26285514--26285561 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 16
26285504 AAAATAGCAG
* * *
26285514 GAGAAGATAGGGAGAA
1 GAGAAGAAAGAGAAAA
26285530 GAGAAGAAAGAAAGAAAA
1 GAGAAGAAAG--AGAAAA
26285548 GAGAAGAAAGAGAA
1 GAGAAGAAAGAGAA
26285562 GGTATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 13 0.48
18 14 0.52
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.02
Consensus pattern (16 bp):
GAGAAGAAAGAGAAAA
Found at i:26285562 original size:9 final size:9
Alignment explanation
Indices: 26285528--26285562 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
26285518 AGATAGGGAG
26285528 AAGAGAAGA
1 AAGAGAAGA
26285537 AAGA-AAGAA
1 AAGAGAAG-A
26285546 AAGAGAAGA
1 AAGAGAAGA
26285555 AAGAGAAG
1 AAGAGAAG
26285563 GTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 3 0.12
9 18 0.75
10 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (9 bp):
AAGAGAAGA
Found at i:26288845 original size:65 final size:62
Alignment explanation
Indices: 26288690--26288856 Score: 205
Period size: 62 Copynumber: 2.7 Consensus size: 62
26288680 TCCAATGTAC
* * * *
26288690 CTAATTTAT-ATTACAAAGTTTATTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTA
1 CTAATTTATGATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATGTAATTTAAATTA
* *
26288751 CAAAATTTATG-TTACAAAGTATGTTCCAAGTTTTAATGTTGTAATGT-TGTAATGTTACAATTA
1 C-TAATTTATGATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATGTAAT-TTA-AATT-
26288814 A
62 A
*
26288815 TCTAATTTATGACTACAAAGTTTGTTCCAAGTTTTAATGTTG
1 -CTAATTTATGATTACAAAGTTTGTTCCAAGTTTTAATGTTG
26288857 CAATTAATCT
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
61 6 0.07
62 43 0.48
63 3 0.03
64 9 0.10
65 29 0.32
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (62 bp):
CTAATTTATGATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATGTAATTTAAATTA
Found at i:26289966 original size:14 final size:14
Alignment explanation
Indices: 26289947--26289981 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
26289937 TAAATTACAT
26289947 GTTAGAATAGAATC
1 GTTAGAATAGAATC
*
26289961 GTTAGAATAGTATC
1 GTTAGAATAGAATC
*
26289975 ATTAGAA
1 GTTAGAA
26289982 AAAATGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (14 bp):
GTTAGAATAGAATC
Found at i:26292782 original size:2 final size:2
Alignment explanation
Indices: 26292775--26292804 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
26292765 CGCCTTGCAG
26292775 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26292805 CATTTTTCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26301911 original size:23 final size:22
Alignment explanation
Indices: 26301869--26301913 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
26301859 TTTCTGTAAA
*
26301869 TATATTTATTTTATCATTTTAT
1 TATATTTATTATATCATTTTAT
*
26301891 TATATTTACTTATATCCTTTTAT
1 TATATTTA-TTATATCATTTTAT
26301914 AATTTCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (22 bp):
TATATTTATTATATCATTTTAT
Found at i:26306107 original size:24 final size:25
Alignment explanation
Indices: 26306056--26306109 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
26306046 TAATTTTAAT
**
26306056 TAATTGGGTGACTAAAAAATAATGA
1 TAATTGGGTGACTAAAAAATAACCA
*
26306081 TAATTGGGTGATTAAAAAA-AACCA
1 TAATTGGGTGACTAAAAAATAACCA
26306105 TAATT
1 TAATT
26306110 AGATCAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.30
Consensus pattern (25 bp):
TAATTGGGTGACTAAAAAATAACCA
Found at i:26309468 original size:21 final size:21
Alignment explanation
Indices: 26309439--26309480 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
26309429 ATCCACTCCG
*
26309439 GGTGTTTTCAATGGTGCCATC
1 GGTGCTTTCAATGGTGCCATC
26309460 GGTGCTTTCAATGGTGCCATC
1 GGTGCTTTCAATGGTGCCATC
26309481 TGCTTAACAG
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:0.14, C:0.21, G:0.29, T:0.36
Consensus pattern (21 bp):
GGTGCTTTCAATGGTGCCATC
Found at i:26309846 original size:132 final size:132
Alignment explanation
Indices: 26309609--26309872 Score: 528
Period size: 132 Copynumber: 2.0 Consensus size: 132
26309599 AAGCCGAGAA
26309609 GAGATTGCCAAAATAAGTAGATGCTATCTATACAAACTCTTCATTCGAATTCGCTTGTCGCCCAT
1 GAGATTGCCAAAATAAGTAGATGCTATCTATACAAACTCTTCATTCGAATTCGCTTGTCGCCCAT
26309674 AATCATCCTGCAGCTCCGTTATTCTTCTCCGGAGGTGACGTTGCACAGCCACCTTATGGAAAAAA
66 AATCATCCTGCAGCTCCGTTATTCTTCTCCGGAGGTGACGTTGCACAGCCACCTTATGGAAAAAA
26309739 CT
131 CT
26309741 GAGATTGCCAAAATAAGTAGATGCTATCTATACAAACTCTTCATTCGAATTCGCTTGTCGCCCAT
1 GAGATTGCCAAAATAAGTAGATGCTATCTATACAAACTCTTCATTCGAATTCGCTTGTCGCCCAT
26309806 AATCATCCTGCAGCTCCGTTATTCTTCTCCGGAGGTGACGTTGCACAGCCACCTTATGGAAAAAA
66 AATCATCCTGCAGCTCCGTTATTCTTCTCCGGAGGTGACGTTGCACAGCCACCTTATGGAAAAAA
26309871 CT
131 CT
26309873 AGTGTTACGA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (132 bp):
GAGATTGCCAAAATAAGTAGATGCTATCTATACAAACTCTTCATTCGAATTCGCTTGTCGCCCAT
AATCATCCTGCAGCTCCGTTATTCTTCTCCGGAGGTGACGTTGCACAGCCACCTTATGGAAAAAA
CT
Found at i:26316714 original size:5 final size:6
Alignment explanation
Indices: 26316698--26316723 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
26316688 ATTTAAAATT
26316698 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
26316724 TATTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:26319688 original size:24 final size:25
Alignment explanation
Indices: 26319637--26319692 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
26319627 TAATTTTAAT
**
26319637 TAATTAGGTGACTAAAAAATAATGA
1 TAATTAGGTGACTAAAAAATAACCA
* *
26319662 TAATTGGGTGATTAAAAAA-AACCA
1 TAATTAGGTGACTAAAAAATAACCA
26319686 TAATTAG
1 TAATTAG
26319693 ATCAACAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (25 bp):
TAATTAGGTGACTAAAAAATAACCA
Found at i:26322507 original size:31 final size:31
Alignment explanation
Indices: 26322442--26322511 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
26322432 CCAACGGCTC
* * *
26322442 AGTGACTAAAATGTTACAATGTGATAACATA
1 AGTGACTAAAATGTAACAATGAGATAACAAA
26322473 AGTGACTAAAATGTAAC-ATGAGCCA-AACAAA
1 AGTGACTAAAATGTAACAATGAG--ATAACAAA
26322504 AGTGACTA
1 AGTGACTA
26322512 TTTTAGTAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.12
31 29 0.85
32 1 0.03
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (31 bp):
AGTGACTAAAATGTAACAATGAGATAACAAA
Found at i:26328727 original size:22 final size:22
Alignment explanation
Indices: 26328686--26328727 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
26328676 AAATTAAATT
* *
26328686 ATATATTTTTATGATATTAAAA
1 ATATAATTTTATCATATTAAAA
*
26328708 ATATAATTTTATCATTTTAA
1 ATATAATTTTATCATATTAA
26328728 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATAATTTTATCATATTAAAA
Found at i:26342045 original size:37 final size:37
Alignment explanation
Indices: 26342001--26342076 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
26341991 TTTTATGTTG
*
26342001 TTTTTAATTTATTTTAGAGTTATTTTGTTAGTTATTA
1 TTTTTAATTTATTTTAGAGTTATTTTGTTAGTTACTA
26342038 TTTTTAATTTATTTTAGAGTTATTTTGTTAGTTACTA
1 TTTTTAATTTATTTTAGAGTTATTTTGTTAGTTACTA
26342075 TT
1 TT
26342077 ATAAATTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.01, G:0.11, T:0.64
Consensus pattern (37 bp):
TTTTTAATTTATTTTAGAGTTATTTTGTTAGTTACTA
Found at i:26347125 original size:22 final size:22
Alignment explanation
Indices: 26347100--26347152 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
26347090 GGTCAAAACA
*
26347100 CCCATGTGAAGATAGGCACACG
1 CCCATGTGAAGAGAGGCACACG
*
26347122 CCCATGTAAAGAGAGGCACACG
1 CCCATGTGAAGAGAGGCACACG
*
26347144 CCCGTGTGA
1 CCCATGTGA
26347153 GCCAGGGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.13
Consensus pattern (22 bp):
CCCATGTGAAGAGAGGCACACG
Found at i:26351590 original size:16 final size:17
Alignment explanation
Indices: 26351571--26351606 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
26351561 AAGATCAAAT
26351571 AAAATTACATT-ATAAA
1 AAAATTACATTAATAAA
26351587 AAAATTACATTAATAAA
1 AAAATTACATTAATAAA
26351604 AAA
1 AAA
26351607 TCACAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATTACATTAATAAA
Found at i:26351786 original size:106 final size:104
Alignment explanation
Indices: 26351584--26352169 Score: 621
Period size: 108 Copynumber: 5.6 Consensus size: 104
26351574 ATTACATTAT
26351584 AAAAAAATTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTA
1 AAAAAAATTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTA
* *
26351649 ATCATAAATTATTAACAAAATAATTATAAAATAATTTTTTA
64 ATCATAAATTATTAACAAAATAACTATAAAATAATTATTTA
* * *
26351690 AAAAAACATTTACATCACTAAAAAATCACAAAACACTAAACTAACCACTAACAATTTATAACCTA
1 AAAAAA-A-TTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTA
* * * *
26351755 ATCGTAAATTATTAACAAAATAACTACAAAATTATGTTTTTA
64 ATCATAAATTATTAACAAAATAACTATAAAATAAT-TATTTA
* * * * *
26351797 AAAAAAATTAAATTACTAAAAAACCACAAAACACTAAACTAAATACTAACAAGTTATAACCTAAT
1 AAAAAAATTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT
* * *
26351862 TATAAATTACTAACAAAATAACT-T-TAA-AATTATTT-
66 CATAAATTATTAACAAAATAACTATAAAATAATTATTTA
* * *
26351897 -AAAAAATTACATTAATAAAAAATCCCAAAACACAAAACTAAACAC-ATCAATTTATAACCTAAT
1 AAAAAAATTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT
* ***
26351960 AATAAATTATTAACAAAATAACTATAAAATAATTAAAAAAA
66 CATAAATTATTAACAAAATAACTATAAAATAATT--ATTTA
* * * * *
26352001 CAAAAAAATTACATTAATAAAAATTCACAAAACACTAAACTAAAAGAC-AGACAAATTAAAACAT
1 -AAAAAAATTACATTAATAAAAAATCACAAAACACTAAACT-AAACACTA-ACAATTTATAACCT
* * * * **
26352065 AATTATAAATTACTAACAAAATAATTTTAAAATAATTATAAAA
63 AATCATAAATTATTAACAAAATAACTATAAAATAATTAT-TTA
* * ** *
26352108 ACAAAAAATTACATTTATAAAAAAACATTAAAC-CATAAACACTAAACACAAACAATTTATAA
1 A-AAAAAATTACATTAATAAAAAATCACAAAACAC-T-AA-ACTAAACACTAACAATTTATAA
26352170 TAATTAATAA
Statistics
Matches: 406, Mismatches: 55, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
98 37 0.09
99 40 0.10
100 2 0.00
101 8 0.02
102 2 0.00
103 3 0.01
105 72 0.18
106 86 0.21
107 51 0.13
108 101 0.25
109 4 0.01
ACGTcount: A:0.59, C:0.14, G:0.01, T:0.27
Consensus pattern (104 bp):
AAAAAAATTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT
CATAAATTATTAACAAAATAACTATAAAATAATTATTTA
Found at i:26352805 original size:9 final size:9
Alignment explanation
Indices: 26352788--26352824 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
26352778 TGAGTTTTCG
26352788 AATTCGAAT
1 AATTCGAAT
*
26352797 AACTCGAAT
1 AATTCGAAT
26352806 AATTCGAAT
1 AATTCGAAT
26352815 AATTCGAAT
1 AATTCGAAT
26352824 A
1 A
26352825 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26352925 original size:33 final size:33
Alignment explanation
Indices: 26352883--26352951 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
26352873 ACTTTTCCCT
26352883 CAAAACTTTTACTCTCCTCCCCTCCCAACCCCC
1 CAAAACTTTTACTCTCCTCCCCTCCCAACCCCC
26352916 CAAAACTTTTACTCTCCTCCCCTCCCAACCCCC
1 CAAAACTTTTACTCTCCTCCCCTCCCAACCCCC
26352949 CAA
1 CAA
26352952 TCTACCCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.23, C:0.54, G:0.00, T:0.23
Consensus pattern (33 bp):
CAAAACTTTTACTCTCCTCCCCTCCCAACCCCC
Found at i:26353095 original size:30 final size:30
Alignment explanation
Indices: 26353042--26353100 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
26353032 AACTTTTTAT
*
26353042 TTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCAAAACTTTTACTCCCTTCCCAC
*
26353071 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCC-AAAACTTTTACTCCCTTCCCA
26353101 TCTCACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:26355034 original size:22 final size:21
Alignment explanation
Indices: 26354986--26355034 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
26354976 TTCAAGTTAG
26354986 ATAAAACAATTAAAATAAATA
1 ATAAAACAATTAAAATAAATA
* *
26355007 ACTAAAATAATTAAAATGGAATA
1 A-TAAAACAATTAAAAT-AAATA
26355030 ATAAA
1 ATAAA
26355035 TCTACGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.75
23 5 0.21
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (21 bp):
ATAAAACAATTAAAATAAATA
Found at i:26360195 original size:16 final size:16
Alignment explanation
Indices: 26360174--26360233 Score: 66
Period size: 16 Copynumber: 3.4 Consensus size: 16
26360164 ATAATCAAGT
26360174 AAACAACTTGATTAAA
1 AAACAACTTGATTAAA
26360190 AAACAAATATTCATTGATTAAA
1 AAAC--A-A--C-TTGATTAAA
26360212 AAACAACTTGATTAAA
1 AAACAACTTGATTAAA
26360228 AAACAA
1 AAACAA
26360234 GTATTTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 19 0.50
17 1 0.03
18 1 0.03
19 2 0.05
20 1 0.03
21 1 0.03
22 13 0.34
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.25
Consensus pattern (16 bp):
AAACAACTTGATTAAA
Found at i:26361445 original size:43 final size:43
Alignment explanation
Indices: 26361393--26361577 Score: 282
Period size: 43 Copynumber: 4.3 Consensus size: 43
26361383 AGCGCCAAAA
*
26361393 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTACCAC
*
26361436 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTACCAC
* *
26361479 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTACCAC
* * * *
26361522 AAACGCCGCTATAGACCTTA-ACCTTTAGCGGCGCTTCTAGCAA
1 AAACGCCGCTAAAGACC-AAGACCTTTAGCGGCGCTTCTACCAC
26361565 AAACGCCGCTAAA
1 AAACGCCGCTAAA
26361578 AACATAAACT
Statistics
Matches: 132, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
43 131 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTACCAC
Found at i:26361956 original size:17 final size:17
Alignment explanation
Indices: 26361934--26361966 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
26361924 ATACAAAATA
26361934 AAAACTTAATGCTACAG
1 AAAACTTAATGCTACAG
26361951 AAAACTTAATGCTACA
1 AAAACTTAATGCTACA
26361967 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.24
Consensus pattern (17 bp):
AAAACTTAATGCTACAG
Found at i:26363308 original size:21 final size:23
Alignment explanation
Indices: 26363277--26363319 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
26363267 ATCGAATTAT
26363277 AAAATAAAAAAAACTC-AAAGAC
1 AAAATAAAAAAAACTCGAAAGAC
*
26363299 AAAA-AAAAAAAGCTCGAAAGA
1 AAAATAAAAAAAACTCGAAAGA
26363320 ACATAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.72, C:0.12, G:0.09, T:0.07
Consensus pattern (23 bp):
AAAATAAAAAAAACTCGAAAGAC
Found at i:26363738 original size:40 final size:40
Alignment explanation
Indices: 26363654--26363750 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 40
26363644 AAAAACGCAG
* *
26363654 CTAAAAATCGATCATTAGCGGCGCATTATGTAAAACACCG
1 CTAAAAATCGATCATTAGCGGCGCATTATGGAAAACACCA
* * * * *
26363694 CTAAAGATCGATCATTTGCGGCGCTTTCA-GGAAAGCGCCA
1 CTAAAAATCGATCATTAGCGGCGCATT-ATGGAAAACACCA
*
26363734 CTAAAAAT-GAGCATTAG
1 CTAAAAATCGATCATTAG
26363751 AAAAACGCCG
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
39 7 0.15
40 38 0.83
41 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (40 bp):
CTAAAAATCGATCATTAGCGGCGCATTATGGAAAACACCA
Found at i:26363881 original size:41 final size:41
Alignment explanation
Indices: 26363805--26364079 Score: 390
Period size: 41 Copynumber: 6.7 Consensus size: 41
26363795 CCTTTCGGGG
* *
26363805 CTTTAGCGGCGTTCTTTAAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTT-TTTGAAAAAGCGCCGCGAATGCTCAGAT
* * *
26363847 CTTTAGCAGCGTTTTTGAAAAAGCGTCGCGAATGCCCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
* *
26363888 CTTTAGCGGCGTTTTTGAAAAAGCGCCGTGAATGCTCATAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
26363929 C-TTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
*
26363969 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
* * * * * **
26364010 CTTTAGCGGCGTTTTTGGAAAAGTGCCGCTATTGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
*
26364051 CTTTAGCGGCGTTTTTTAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGC
26364080 AAAAACATTT
Statistics
Matches: 210, Mismatches: 22, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
40 38 0.18
41 160 0.76
42 12 0.06
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
Done.